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Table 3 Intergenic region sRNA with more than 10-fold expression change after nitrogen step-down

From: Identification of small RNAs involved in nitrogen fixation in Anabaena sp. PCC 7120 based on RNA-seq under steady state conditions

Pre-geneFunctionNext-geneFunctionsRNA IDStrandRPKM log2 Ratio
all0071Unknown proteinalr0072Two-component response regulatorsRNA0096-12.11
all0138Photosystem II CP47 proteinall0139Unknown proteinsRNA0125-12.53
all0323Serine/threonine kinase with two-component sensor domainall0324Hypothetical proteinsRNA0170--10.99
all0443Hypothetical proteinalr0444Unknown proteinsRNA0187+-13.03
all0626H+/Ca2+ exchangeralr0627Unknown proteinsRNA0227+-10.42
all0638Two-component hybrid sensor and regulatorasl0639Hypothetical proteinsRNA0230-11.53
all0640ABC transporterall0641Hypothetical proteinsRNA0232-11.57
all0772Hypothetical proteinasr0773Hypothetical proteinsRNA0251+11.33
all0945Succinate dehydrogenase iron-sulfur protein subunitalr0946Hypothetical proteinsRNA0281+-10.79
all0945Succinate dehydrogenase iron-sulfur protein subunitalr0946Hypothetical proteinsRNA0283-10.92
all0978Two-component hybrid sensor and regulatorall0979Unknown proteinsRNA0289+-11.73
all1172Hypothetical proteinall1173DNA-binding protein, starvation-induciblesRNA0314-11.23
all1221Biogenesis of thylakoid protein Aalr1222Hypothetical proteinsRNA0316+11.23
all1280Two-component sensor histidine kinaseall1281Two-component response regulatorsRNA0331--11.81
all1455Nitrogenase iron protein NifHall1456Nitrogen fixation protein NifUsRNA0361-10.92
all1517Nitrogen fixation protein NifBasl1518Unknown proteinsRNA0371-11.98
all1651Transcriptional regulatoralr1652Unknown proteinsRNA0406+11.23
all2063Unknown proteinalr2064Hypothetical proteinsRNA0479--10.49
all2124WD-40 repeat proteinalr2125Unknown proteinsRNA0502+11.049
all2152Transposasealr2153Outer membrane heme receptorsRNA0514+-11.59
all2509Similar to phosphoenolpyruvate synthasealr2510Hypothetical proteinsRNA0579--10.49
all2521Cysteine synthasealr2522Unknown proteinsRNA0580+12.05
all2567Phosphoketolaseall2568Hypothetical proteinsRNA0586--10.73
all2661Unknown proteinalr2662Unknown proteinsRNA0595--10.79
all2908Cation transport ATPaseall2909Hypothetical proteinsRNA0642+-10.67
all2962Transcriptional regulatorall2963OxidoreductasesRNA0660-11.28
all3022Unknown proteinall3023Hypothetical proteinsRNA0669--10.49
all3545Unknown proteinalr3546HetFsRNA0786+-12.51
all3545Unknown proteinalr3546HetFsRNA0787-11.88
all3677Hypothetical proteinall3678Hypothetical proteinsRNA0830+-10.55
all4289Hypothetical protein (ycf4)alr4290Photosystem II protein D2sRNA0976+12.59
all4289Hypothetical protein (ycf4)alr4290Photosystem II protein D2sRNA0977+10.92
all4376Probable glycosyl transferaseall4377RNA-binding protein, rbpGsRNA0995-11.28
all4450Ribonuclease IIasl445130S ribosomal protein S18sRNA1004+11.05
all4636Similar to two-component sensor histidine kinasealr4637Unknown proteinsRNA1052--11.76
all4963Adenylyl cyclase CyaCalr4964Hypothetical proteinsRNA1117--10.42
all4963Adenylyl cyclase CyaCalr4964Hypothetical proteinsRNA1122+-10.49
all5013Unknown proteinall5014Hypothetical proteinsRNA1133-12.88
all5274Hypothetical proteinalr52756-phosphogluconate dehydrogenasesRNA1169--10.62
all5309Two-component hybrid sensor and regulatorall5310Unknown proteinsRNA1189+10.92
all5337Similar to TRK system potassium uptake proteinalr53383',5'-cyclic-nucleotide phosphodiesterasesRNA1191--10.42
all7033Unknown proteinasl7034Transcriptional regulatorsRNA0004+11.57
all7160Hypothetical proteinall7161TransposasesRNA0013+-10.49
alr0113Hypothetical protein (ycf52)alr0114Hypothetical proteinsRNA0112+-10.62
alr0452Hypothetical proteinall0453Cobalamin biosynthesis precorrin-3 methylasesRNA0191--10.42
alr0537Phycobilisome rod-core linker protein cpcGall0538Probable methyltransferasesRNA0211+10.92
alr0600Unknown proteinall0601Hypothetical proteinsRNA0220--10.49
alr0738Sugar ABC transporteralr0739Hypothetical proteinsRNA0246+11.48
alr0851Lysophospholipaseall0852Hypothetical proteinsRNA0269+-10.99
alr0965Unknown proteinall0966Hypothetical proteinsRNA0288--11.32
alr1155Carbamoyl phosphate synthase small subunitasr1156Hypothetical proteinsRNA0308+12.28
alr1360Unknown proteinall1361Similar to cytochrome P450sRNA0350+-10.49
alr2054Aldo/keto reductasealr2055Unknown proteinsRNA0474+14.04
alr2326Hypothetical proteinall2327Phycobilisome core component; ApcFsRNA0530+12.31
alr2489Unknown proteinasl2490Hypothetical proteinsRNA0577+11.38
alr2532Sugar ABC transport systemall2533Prolyl endopeptidasesRNA0582+-10.89
alr2709Hypothetical proteinalr2710Hypothetical proteinsRNA0602+-10.62
alr2856Hypothetical proteinalr2857Unknown proteinsRNA0624+-11.86
alr2920Putative short chain oxidoreductasealr2921Similar to tRNA-(MS[2]IO[6]A)-hydroxylasesRNA0645+12.63
alr2920Putative short chain oxidoreductasealr2921Similar to tRNA-(MS[2]IO[6]A)-hydroxylasesRNA0646-11.28
alr2936Pantothenate synthetase PanCasr2937Unknown proteinsRNA0650-11.43
alr2938Iron superoxide dismutase; SodBasr2939Unknown proteinsRNA0653+12.17
alr3139Hypothetical proteinalr3140Hypothetical proteinsRNA0692+11.28
alr3139Hypothetical proteinalr3140Hypothetical proteinsRNA0693-11.85
alr3139Hypothetical proteinalr3140Hypothetical proteinsRNA0694+13.15
alr3350Histone deacetylase/AcuC/AphA family proteinalr3351Hypothetical proteinsRNA0735--10.79
alr3589Unknown proteinalr3590Unknown proteinsRNA0793+-12.05
alr3589Unknown proteinalr3590Unknown proteinsRNA0794--11.67
alr3662Chaperonin GroELalr3663Unknown proteinsRNA0824+11.53
alr4104Transposasealr4105Two-component sensor histidine kinasesRNA0945+12.67
alr4592Photosystem II protein D1all4593Hypothetical proteinsRNA1047--12.88
alr4674Putative transcripton factor for heterocyst differentiation DevTall4675TransposasesRNA1065+-10.73
alr4808Competence-damage inducible protein CinA homologasr4809Inorganic carbon transport; IctAsRNA1083--10.55
alr4848Riboflavin kinase/FAD synthasealr4849Methanol dehydrogenase regulatory proteinsRNA1104+-13.05
alr5357Polyketide synthase; HetMalr5358Ketoacyl reductase; HetNsRNA1195+11.77
asl0095Unknown proteinalr0096Solanesyl diphosphate synthasesRNA0100+11.23
asl1778Unknown proteinalr1779Similar to cyanophycin synthetasesRNA0435+-11.62
asl2301PatSall2302Patatin-like proteinsRNA0521--10.67
asl3784Hypothetical proteinall3785Hypothetical proteinsRNA0853+14.2
asl3978Unknown proteinalr3979Period-extender of the circadian clock; PexsRNA0905-10.92
asl4014Unknown proteinalr4015Hypothetical proteinsRNA0923-11.57
asl4557Rubredoxinall4558Probable dioxygenase Rieske iron-sulfur componentsRNA1038-10.92
asr0382Hypothetical proteinalr0383Unknown proteinsRNA0180+11.28
asr1667Unknown proteinalr1668Putative glycosyl transferasesRNA0410--10.67
asr1714Hypothetical proteinalr1715Hypothetical proteinsRNA0423+13.44
asr3089Transglycosylase-associated proteinalr3090Hypothetical proteinsRNA0673+12.55
asr3935DNA binding protein HUalr3936Histidinol-phosphate aminotransferasesRNA0881+10.92
asr4747Unknown proteinasl4748Hypothetical proteinsRNA1073--10.62
  1. Gene functions were retrieved from cyanobase (http://genome.microbedb.jp/CyanoBase). Positive RPKM log2 ratio indicates upregulation and negative values indicate downregulation
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Annals of Microbiology

ISSN: 1869-2044

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