-- dump date 20140619_083117 -- class Genbank::misc_RNA -- table misc_rna -- table main -- field 1 id -- field 2 GeneID -- field 3 chrom_position -- field 4 chromosome -- field 5 contig -- field 6 end_pos -- field 7 gene -- field 8 gene_id -- field 9 name -- field 10 organism -- field 11 product -- field 12 start_pos -- field 13 strand -- field 14 taxid -- field 15 type -- header -- id GeneID chrom_position chromosome contig end_pos gene gene_id name organism product start_pos strand taxid type LF82_s2153 7394785 15330..15384 NC_011993.1 15384 sokC 7394785 sokC Escherichia coli LF82 Antisense sRNA blocking mokC, and hence hokC, translation; IS186A interrupts hokC transcript downstream of hokC gene in K-12 15330 D 591946 misc_RNA LF82_s2244 7396770 193749..193884 NC_011993.1 193884 tff 7396770 tff Escherichia coli LF82 Novel sRNA, function unknown 193749 D 591946 misc_RNA LF82_s0648 7395408 479761..479874 NC_011993.1 479874 ffs 7395408 ffs Escherichia coli LF82 4.5S sRNA component of Signal Recognition Particle (SRP); works with the Ffh protein; involved in co-translational protein translocation into and possibly through membranes 479761 D 591946 misc_RNA LF82_s2176 7396984 511723..511804 NC_011993.1 511804 sroB 7396984 sroB Escherichia coli LF82 Novel sRNA, function unknown 511723 D 591946 misc_RNA LF82_s2060 7394840 complement(806217..806305) NC_011993.1 806305 rybA 7394840 rybA Escherichia coli LF82 Novel sRNA, function unknown 806217 R 591946 misc_RNA LF82_s2061 7394855 complement(839790..839868) NC_011993.1 839868 rybB 7394855 rybB Escherichia coli LF82 sRNA effector of ompC and ompW mRNA instability; requires Hfq 839790 R 591946 misc_RNA LF82_s1755 7394902 1123245..1123413 NC_011993.1 1123413 psrD 7394902 psrD Escherichia coli LF82 Novel sRNA, function unknown 1123245 D 591946 misc_RNA LF82_s1830 7393713 1280147..1280214 NC_011993.1 1280214 rdlA 7393713 rdlA Escherichia coli LF82 Antisense sRNA RdlA affects LdrA translation; proposed addiction module in LDR-A repeat, with toxic peptide LdrA 1280147 D 591946 misc_RNA LF82_s2045 7396710 complement(1303169..1303321) NC_011993.1 1303321 rttR 7396710 rttR Escherichia coli LF82 rtT sRNA, processed from tyrT transcript; encodes Tpr protein; RNA itself may modulate the stringent response 1303169 R 591946 misc_RNA LF82_s1347 7397071 1425434..1425542 NC_011993.1 1425542 micC 7397071 micC Escherichia coli LF82 MicC sRNA regulator of OmpC translation 1425434 D 591946 misc_RNA LF82_s2063 7393507 complement(1457619..1457682) NC_011993.1 1457682 rydC 7393507 rydC Escherichia coli LF82 sRNA regulator of yejABEF; over-expression causes a thermosensitive growth phenotype on minimal glycerol, maltose, or ribose media 1457619 R 591946 misc_RNA LF82_s0485 7397328 1625431..1625483 NC_011993.1 1625483 dicF 7397328 dicF Escherichia coli LF82 DicF antisense sRNA, inhibits ftsZ, Qin prophage 1625431 D 591946 misc_RNA LF82_s2062 7397527 complement(1737742..1737809) NC_011993.1 1737809 rydB 7397527 rydB Escherichia coli LF82 Novel sRNA, function unknown 1737742 R 591946 misc_RNA LF82_s1967 7396465 1743227..1743332 NC_011993.1 1743332 rprA 7396465 rprA Escherichia coli LF82 Positive regulatory sRNA for RpoS translation; non-essential gene 1743227 D 591946 misc_RNA LF82_s2064 7397453 1887743..1887991 NC_011993.1 1887991 ryeA 7397453 ryeA Escherichia coli LF82 Novel sRNA, function unknown 1887743 D 591946 misc_RNA LF82_s2065 7397067 complement(1887841..1887961) NC_011993.1 1887961 ryeB 7397067 ryeB Escherichia coli LF82 Novel sRNA, function unknown 1887841 R 591946 misc_RNA LF82_s1133 7393141 complement(1949495..1949654) NC_011993.1 1949654 isrB 7393141 isrB Escherichia coli LF82 Novel sRNA, function unknown 1949495 R 591946 misc_RNA LF82_s0528 7396291 complement(1989257..1989343) NC_011993.1 1989343 dsrA 7396291 dsrA Escherichia coli LF82 Regulatory sRNA enhances translation of RpoS; component of acid resistance regulatory circuit; also antagonist of H-NS function by decreasing H-NS levels 1989257 R 591946 misc_RNA LF82_s2020 7393155 1997677..1997766 NC_011993.1 1997766 rsex 7393155 rsex Escherichia coli LF82 sRNA regulating ompA and ompC translation, with Hfq 1997677 D 591946 misc_RNA LF82_s2066 7395324 2168606..2168741 NC_011993.1 2168741 ryeC 7395324 ryeC Escherichia coli LF82 Novel sRNA, function unknown; paralogous to the other QUad sRNA genes 2168606 D 591946 misc_RNA LF82_s2067 7397313 2168935..2169069 NC_011993.1 2169069 ryeD 7397313 ryeD Escherichia coli LF82 Novel sRNA, function unknown; paralogous to the other QUad sRNA genes 2168935 D 591946 misc_RNA LF82_s2068 7395326 2187572..2187657 NC_011993.1 2187657 ryeE 7395326 ryeE Escherichia coli LF82 Novel sRNA, function unknown 2187572 D 591946 misc_RNA LF82_s1348 7397068 2327446..2327538 NC_011993.1 2327538 micF 7397068 micF Escherichia coli LF82 Regulatory antisense sRNA affecting ompF expression; member of soxRS regulon 2327446 D 591946 misc_RNA LF82_s2069 7397508 2636981..2637285 NC_011993.1 2637285 ryfA 7397508 ryfA Escherichia coli LF82 Novel sRNA, function unknown 2636981 D 591946 misc_RNA LF82_s2177 7395289 complement(2668835..2669015) NC_011993.1 2669015 sroF 7395289 sroF Escherichia coli LF82 Novel sRNA, function unknown 2668835 R 591946 misc_RNA LF82_s2070 7395290 complement(2677752..2678059) NC_011993.1 2678059 ryfB 7395290 ryfB Escherichia coli LF82 Novel sRNA, function unknown 2677752 R 591946 misc_RNA LF82_s2071 7397317 complement(2678214..2678290) NC_011993.1 2678290 ryfC 7397317 ryfC Escherichia coli LF82 Novel sRNA, function unknown 2678214 R 591946 misc_RNA LF82_s2072 7393428 complement(2714297..2714439) NC_011993.1 2714439 ryfD 7393428 ryfD Escherichia coli LF82 Novel sRNA, function unknown 2714297 R 591946 misc_RNA LF82_s2185 7397392 2735623..2735985 NC_011993.1 2735985 ssrA 7397392 ssrA Escherichia coli LF82 tmRNA, 10Sa RNA; acts as tRNA-ala and mRNA template for tagging proteins resulting from premature transcription termination, a process known as trans-translation 2735623 D 591946 misc_RNA LF82_s1346 7396733 2797730..2797807 NC_011993.1 2797807 micA 7396733 micA Escherichia coli LF82 sRNA effector of ompA mRNA instability in stationary phase; requires Hfq 2797730 D 591946 misc_RNA LF82_s0379 7395174 complement(2902364..2902717) NC_011993.1 2902717 csrB 7395174 csrB Escherichia coli LF82 CsrA-binding sRNA, antagonizing CsrA regulation; blocks the CsrA binding of glgC mRNA 2902364 R 591946 misc_RNA LF82_s0818 7394731 2920951..2921156 NC_011993.1 2921156 gcvB 7394731 gcvB Escherichia coli LF82 GcvB sRNA gene divergent from gcvA; represses oppA, dppA, gltI and livJ expression; regulated by gcvA and gcvR; this is gcvB-L, terminated at T2, 90% of gcvB RNA is from gcvB-S, encoding a 134 nt RNA terminating at T1 2920951 D 591946 misc_RNA LF82_s1568 7396890 complement(2988879..2988966) NC_011993.1 2988966 omrA 7396890 omrA Escherichia coli LF82 sRNA down regulates OM proteins; positively 2988879 R 591946 misc_RNA LF82_s1569 7397076 complement(2989088..2989163) NC_011993.1 2989163 omrB 7397076 omrB Escherichia coli LF82 sRNA down regulates OM proteins; positively 2989088 R 591946 misc_RNA LF82_s2186 7397248 3055967..3056149 NC_011993.1 3056149 ssrS 7397248 ssrS Escherichia coli LF82 6S sRNA inhibits RNA polymerase promoter binding; template for RNA-directed pRNA synthesis by RNAP; mimics an open promoter 3055967 D 591946 misc_RNA LF82_s2073 7396181 3056833..3056972 NC_011993.1 3056972 rygC 7396181 rygC Escherichia coli LF82 Novel sRNA, function unknown; paralogous to the other QUad sRNA genes 3056833 D 591946 misc_RNA LF82_s2074 7395199 complement(3245870..3246011) NC_011993.1 3246011 rygE 7395199 rygE Escherichia coli LF82 sRNA, function unknown; paralogous to the other QUad sRNA genes 3245870 R 591946 misc_RNA LF82_s1756 7396327 3288629..3288816 NC_011993.1 3288816 psrN 7396327 psrN Escherichia coli LF82 Novel sRNA, function unknown 3288629 D 591946 misc_RNA LF82_s1915 7395003 complement(3317722..3318098) NC_011993.1 3318098 rnpB 7395003 rnpB Escherichia coli LF82 RNase P, M1 sRNA component; involved in transfer RNA and 4.5S RNA-processing 3317722 R 591946 misc_RNA LF82_s1757 7397430 3355045..3355218 NC_011993.1 3355218 psrO 7397430 psrO Escherichia coli LF82 Novel sRNA, function unknown 3355045 D 591946 misc_RNA LF82_s2075 7396598 3394255..3394362 NC_011993.1 3394362 ryhA 7396598 ryhA Escherichia coli LF82 Novel sRNA, function unknown 3394255 D 591946 misc_RNA LF82_s2076 7396486 complement(3626827..3626916) NC_011993.1 3626916 ryhB 7396486 ryhB Escherichia coli LF82 Regulatory sRNA mediating positive Fur regulon response; requires Hfq for function; global iron regulator; degraded by RNase E when bound to target 3626827 R 591946 misc_RNA LF82_s0791 7394703 3710229..3710333 NC_011993.1 3710333 gadY 7394703 gadY Escherichia coli LF82 sRNA regulator of gadAB transcriptional activator GadX mRNA 3710229 D 591946 misc_RNA LF82_s1831 7393714 3745341..3745404 NC_011993.1 3745404 rdlD 7393714 rdlD Escherichia coli LF82 Antisense sRNA RdlD affects LdrD translation; proposed addiction module in LDR-D repeat, with toxic peptide LdrD 3745341 D 591946 misc_RNA LF82_s2152 7394784 3771399..3771427 NC_011993.1 3771427 sokA 7394784 sokA Escherichia coli LF82 3771399 D 591946 misc_RNA LF82_s2112 7396536 3885623..3885717 NC_011993.1 3885717 selC 7396536 selC Escherichia coli LF82 Selenocysteyl tRNA(UCA) (converted from serine tRNA) 3885623 D 591946 misc_RNA LF82_s2077 7394158 4031586..4031757 NC_011993.1 4031757 ryiA 7394158 ryiA Escherichia coli LF82 Novel sRNA, function unknown 4031586 D 591946 misc_RNA LF82_s2164 7397434 4117776..4117884 NC_011993.1 4117884 spf 7397434 spf Escherichia coli LF82 Spot 42 sRNA; antisense regulator of galK translation 4117776 D 591946 misc_RNA LF82_s0380 7393186 4118913..4119157 NC_011993.1 4119157 csrC 7393186 csrC Escherichia coli LF82 CsrC sRNA sequesters CsrA, a carbon flux regulator; also affects biofilms and motilty 4118913 D 591946 misc_RNA LF82_s1585 7394914 complement(4232968..4233077) NC_011993.1 4233077 oxyS 7394914 oxyS Escherichia coli LF82 OxyS sRNA activates genes that detoxify oxidative damage 4232968 R 591946 misc_RNA LF82_s2078 7397483 complement(4366065..4366204) NC_011993.1 4366204 ryjA 7397483 ryjA Escherichia coli LF82 Novel sRNA, function unknown 4366065 R 591946 misc_RNA LF82_s2079 7395680 4707263..4707339 NC_011993.1 4707339 ryjC 7395680 ryjC Escherichia coli LF82 Novel sRNA, function unknown 4707263 D 591946 misc_RNA