-- dump date 20140620_085417 -- class Genbank::Gene -- table gene_note -- id note 929764 IS1167, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error 929770 DNA repair protein RadA, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 929775 IS1167, transposase, truncation; comparison of this gene to its homologs suggests this gene has been truncated 929789 IS1381, transposase OrfB, truncation 929851 glycosyl transferase, family 2, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 929857 IS630-Spn1, transposase Orf1, truncation 929891 argininosuccinate synthase, truncation 929915 Missing the proper stop codon.; IS1167, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error 929916 IS630-Spn1, transposase Orf2, degenerate; this gene contains a frame shift which is not the result of sequencing error 929917 IS630-Spn1, transposase Orf1, degenerate; this region contains one or more premature stops and/or frameshifts which are not the result of sequencing error 929927 UDP-glucose 6-dehydrogenase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:7319 929961 lactose phosphotransferase system repressor, degenerate; this region contains one or more premature stops and/or frameshifts which are not the result of sequencing error; identified by similarity to EGAD:16295 929988 Holliday junction resolvase; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:110019; match to protein family HMM PF03652; match to protein family HMM TIGR00250 930041 iron ABC transporter permease, degenerate; this gene contains a frame shift which is not the result of sequencing error 930060 2 full length (1974 bp) copies fold into the secondary structures expected for a group II intron. Left end = TTTTTTGCGGTACGACGGGC. Right end = GAGATTATCCCCTACTCGAT.; group II intron, maturase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:135254 930114 glycosyl hydrolase, family 1, truncation 930128 This gene is interrupted by an RUP element. L20670.1 GI:437704; IS200S, transposase, interruption; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:14951 4484193 hypothetical protein; this gene contains a frame shift which is not the result of sequencing error; identified by Glimmer2 4484192 Although this gene is truncated, 2 full length (1974 bp) copies fold into the secondary structures expected for a group II intron. Left end = TTTTTTGCGGTACGACGGGC. Right end = GAGATTATCCCCTACTCGAT.; group II intron, maturase, truncation; comparison of this gene to its homologs suggests this gene has been truncated 930198 IS1167, transposase, truncation 930199 This gene has an N-terminal truncation, and is interrupted by an RUP element. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGCCCAATAACGAAG.; IS66 family element, Orf3, degenerate; this gene contains a frame shift which is not the result of sequencing error 930209 transposase, truncation 930230 An RUP element disrupts the C-terminus of this gene. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGCCCAATAACGAAG.; IS66 family element, Orf2, interruption; this gene contains a premature stop which is not the result of sequencing error 930242 Gene assignment is based on location within inverted repeats which also flank genes (Orf2 and Orf3-5) that resemble IS679. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGCCCAATAACGAAG.; IS66 family element, Orf1, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 930306 This gene is interrupted by a BOX element which is present in many copies in this genome.; conserved hypothetical protein; this gene contains a frame shift which is not the result of sequencing error 930316 IS3-Spn1, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error 930323 IS3-Spn1, hypothetical protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 930333 glutamine ABC transporter ATP-binding protein, truncation; comparison of this gene to its homologs suggests this gene has been truncated; identified by similarity to EGAD:40185 930368 IS1167, transposase, interruption; this gene contains a frame shift which is not the result of sequencing error 930377 glycosyl transferase, degenerate; this gene contains a frame shift which is not the result of sequencing error 930394 Edited sequence gives a weak match to PF01548 and a strong match to PF02371, which are often found together.; transposase, IS116/IS110/IS902 family, degenerate; this gene contains a frame shift which is not the result of sequencing error 930407 IS1167, transposase, interruption; this gene contains a frame shift which is not the result of sequencing error 930470 BlpC ABC transporter ATP-binding protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 930516 IS1167, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:42453 930529 IS1239, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:19448 930544 Although this gene is truncated, 2 full length (1974 bp) copies fold into the secondary structures expected for a group II intron. Left end = TTTTTTGCGGTACGACGGGC. Right end = GAGATTATCCCCTACTCGAT.; group II intron, maturase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:135254 930574 conserved hypothetical protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to OMNI:NT01BS3531 4484197 Although this gene is truncated, 2 full length (1974 bp) copies fold into the secondary structures expected for a group II intron. Left end = TTTTTTGCGGTACGACGGGC. Right end = GAGATTATCCCCTACTCGAT.; group II intron, maturase, truncation; comparison of this gene to its homologs suggests this gene has been truncated 930591 IS1167, transposase, truncation; this gene contains a frame shift which is not the result of sequencing error 930592 transposase, truncation 930593 This gene has an N-terminal truncation, and is interrupted by an RUP element. IRleft = deleted. IRright = GTAACCGCCCAATAACGAAG.; IS66 family element, Orf3, degenerate; this gene contains a frame shift which is not the result of sequencing error 930598 conserved hypothetical protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 930600 conserved hypothetical protein, authentic point mutation; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:108408 930647 ABC transporter ATP-binding protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 930650 transposase, IS30 family, degenerate; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:9451 930658 amino acid ABC transporter amino acid-binding protein, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:17088 930662 lactate oxidase, truncation 930682 transposase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:36363 930685 6-phospho-beta-glucosidase, truncation 930758 An N-terminal deletion/truncation resembles IS679, and identified in a BLASTN search with the sequence from more complete copies in the same cell. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGTCCAATAACGAAG.; IS66 family element, Orf3, internal deletion; this region contains one or more premature stops and/or frameshifts which are not the result of sequencing error 930762 An RUP element disrupts the C-terminus of this gene. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGTCCAATAACGAAG.; IS66 family element, Orf2, interruption; this gene contains a premature stop which is not the result of sequencing error 930763 IS3-Spn1, hypothetical protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 930764 IS3-Spn1, transposase, internal deletion; this gene contains a frame shift which is not the result of sequencing error 930777 conserved hypothetical protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:99002 930799 IS3-Spn1, hypothetical protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 930800 IS3-Spn1, transposase, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 930807 oligopeptide-binding protein, internal deletion, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:17201 930815 IS1167, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error 930851 transcriptional repressor, degenerate; this gene contains a premature stop which is not the result of sequencing error 930853 IS1381, transposase OrfA, truncation 930867 The N-terminus of this gene is interrupted by an IS1239 element. RTD; nodulin-related protein, truncation; comparison of this gene to its homologs suggests this gene has been truncated; identified by match to protein family HMM PF01988 930893 This gene is interrupted by an IS1381 element.; replication initiator protein, truncation, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 930902 IS1515, transposase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 930905 alanine dehydrogenase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:15508 931495 IS3-Spn1, hypothetical protein/transposase, internal deletion; this gene contains a frame shift which is not the result of sequencing error 931496 IS630-Spn1, transposase Orf2, degenerate; this gene contains a frame shift which is not the result of sequencing error 931509 IS630-Spn1, transposase Orf2, truncation 931518 conserved domain protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 931529 IS1167, transposase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 931560 alpha amylase, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:110010 931580 IS1381, transposase OrfA, truncation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:33136 931599 IS1381, transposase OrfA, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:33136 931615 IS1167, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error 931639 phosphoserine phosphatase SerB, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:44198 931661 integrase/recombinase, phage integrase family, truncation 931708 lacX protein, truncation; comparison of this gene to its homologs suggests this gene has been truncated; identified by similarity to EGAD:24906 931710 IS1381, transposase OrfA, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:33136 931728 transulfuration enzyme family protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:77366 931771 3-isopropylmalate dehydrogenase, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to SP:Q02143 931816 Found with a BLASTN search; related to other chromosomal copies.; transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:33520 931823 This gene is interrupted by an IS1381 element.; toxin secretion ATP-binding protein, truncation; comparison of this gene to its homologs suggests this gene has been truncated; identified by match to protein family HMM PF00005 931824 IS1381, transposase OrfB, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:33136 931826 This gene has an N-terminal truncation, and is interrupted by an RUP element. IRleft = GTAAGCGCGTCATAACAAGG. IRright = an adjacent deletion between IS1381-IRright and position 17 of IRright for this IS element... GAAGTCTATTGAAAAATCTCCA.; IS66 family element, Orf3, degenerate; this gene contains a frame shift which is not the result of sequencing error 931827 transposase, degenerate; this gene contains a premature stop which is not the result of sequencing error 931828 An RUP element disrupts the C-terminus of this gene. IRleft = GTAAGCGCGTCATAACAAGG. IRright = an adjacent deletion between IS1381-IRright and position 17 of IRright for this IS element... GAAGTCTATTGAAAAATCTCCA.; IS66 family element, Orf2, interruption; this gene contains a premature stop which is not the result of sequencing error 931417 pspC protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 931403 Possibly an isoschizomer of XbaI.; type II restriction endonuclease, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 931400 ABC transporter ATP-binding protein, truncation 931401 This gene is interrupted by an RUP element. IRleft = GTAATCGCGTCATAACAAGG. IRright = GTAACCGTCCAATAACGAAG.; IS66 family element, Orf3, degenerate; this gene contains a frame shift which is not the result of sequencing error 931357 transposase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 931355 IS3-Spn1, hypothetical protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 931343 Sequence diverges significantly from other copies of IS630-Spn1.; transposase, IS630-Spn1 related, Orf1, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 931323 IS1239, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:19448 931310 ABC transporter ATP-binding protein, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:135968 4484194 conserved domain protein, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 4484195 conserved hypothetical protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 931238 IS3-Spn1, transposase, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 931239 This gene is interrupted by an IS1380-Spn1 element.; IS3-Spn1, hypothetical protein, interruption; this region contains one or more premature stops and/or frameshifts which are not the result of sequencing error 931210 IS3-Spn1, transposase, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error 931230 IS3-Spn1, hypothetical protein, degenerate; this gene contains a frame shift which is not the result of sequencing error 931145 neuraminidase A, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:42149 931113 This gene is interrupted by an RUP element.; IS1239, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:19448 931080 sodium/dicarboxylate symporter family protein, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 931064 glycosyl transferase, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 931063 IS630-Spn1, transposase Orf1/Orf2 degenerate; this gene contains a frame shift which is not the result of sequencing error 930986 conserved hypothetical protein, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:174251 930946 IS1167, transposase, degenerate; this gene contains a frame shift which is not the result of sequencing error 930374 IS1167, transposase, interruption; this gene contains a frame shift which is not the result of sequencing error 930017 cspC-related protein, authentic point mutation; this gene contains a premature stop which is not the result of sequencing error; identified by similarity to EGAD:38435 932017 This gene is truncated, and ends at an RUP element.; transposase, IS3 family, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:13582 932021 ABC transporter ATP-binding protein, truncation 932012 conserved domain protein, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error 930263 Although this gene has an N-terminal truncation, the edited sequence of a second, apparently full-length copy gives a weak match to PF01548 and a strong match to PF02371, which are often found together.; transposase, IS116/IS110/IS902 family, degenerate; this gene contains a premature stop which is not the result of sequencing error 930262 In low GC gram positive bacteria, this gene is generally known as hexA; in other prokaryotes the functional equivalent is known as mutS.; DNA mismatch repair protein HexA, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:37607 931967 IS1381, transposase OrfA, truncation; comparison of this gene to its homologs suggests this gene has been truncated; identified by similarity to EGAD:33136 930251 transposase, IS1380-Spn1 related, truncation 930226 transcriptional regulator, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:17638 930217 IS1381, transposase OrfA, internal deletion; this region contains one or more premature stops and/or frameshifts which are not the result of sequencing error; identified by similarity to EGAD:33136 930206 IS3-Spn1, hypothetical protein, truncation 931953 immunoglobulin A1 protease, degenerate; this gene contains a frame shift which is not the result of sequencing error 931926 This gene is interrupted by an IS1380-Spn1 element.; conserved hypothetical protein, interruption; this region contains one or more premature stops and/or frameshifts which are not the result of sequencing error; identified by similarity to EGAD:107926 930189 2 full length (1974 bp) copies fold into the secondary structures expected for a group II intron. Left end = TTTTTTGCGGTACGACGGGC. Right end = GAGATTATCCCCTACTCGAT.; group II intron, maturase, degenerate; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:135254 930001 This gene has an N-terminal truncation, and is interrupted by an RUP element. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGTCCAATAACGAAG.; IS66 family element, Orf3, degenerate; this gene contains a frame shift which is not the result of sequencing error 931902 transposase, truncation 930042 An RUP element disrupts the C-terminus of this gene. IRleft = GTAAGCGCGTCATAACAAGG. IRright = GTAACCGTCCAATAACGAAG.; IS66 family element, Orf2, interruption; this gene contains a frame shift which is not the result of sequencing error 931881 conserved hypothetical protein, authentic frameshift; this gene contains a frame shift which is not the result of sequencing error; identified by similarity to EGAD:18897