Conservation of cofitness between Dshi_1938 and Dshi_3076 in Dinoroseobacter shibae DFL-12

98 genomes with putative orthologs of both genes

Organism Ratio1 Gene1 Name1 Description1 Ratio2 Gene2 Name2 Description2 Cofit Rank
Dinoroseobacter shibae DFL-12 1.0 Dshi_1938 tRNA pseudouridine synthase A (RefSeq) 1.0 Dshi_3076 transcription elongation factor GreA (RefSeq) 0.50 2
Phaeobacter inhibens DSM 17395 0.72 PGA1_c05650 tRNA pseudouridine synthase A 0.74 PGA1_c03290 transcription elongation factor GreA low > 62
Rhizobium sp. OAE497 0.53 ABIE40_RS01915 tRNA pseudouridine(38-40) synthase TruA 0.17 ABIE40_RS02595 transcription elongation factor GreA low > 107
Azospirillum sp. SherDot2 0.53 MPMX19_02005 tRNA pseudouridine synthase A 0.63 MPMX19_02300 Transcription elongation factor GreA — —
Azospirillum brasilense Sp245 0.52 AZOBR_RS03570 tRNA pseudouridine synthase A 0.62 AZOBR_RS12900 transcription elongation factor GreA — —
Agrobacterium fabrum C58 0.50 Atu0368 tRNA pseudouridine synthase I 0.56 Atu2182 transcription elongation facto — —
Caulobacter crescentus NA1000 Δfur 0.50 CCNA_00280 tRNA pseudouridine synthase A 0.60 CCNA_02941 transcription elongation factor greA low > 67
Caulobacter crescentus NA1000 0.50 CCNA_00280 tRNA pseudouridine synthase A 0.60 CCNA_02941 transcription elongation factor greA low > 66
Sinorhizobium meliloti 1021 0.49 SMc01099 tRNA pseudouridine synthase A 0.57 SMc01218 transcription elongation factor GreA — —
Magnetospirillum magneticum AMB-1 0.49 AMB_RS01225 tRNA pseudouridine(38-40) synthase TruA 0.62 AMB_RS03610 transcription elongation factor GreA low > 64
Sphingomonas koreensis DSMZ 15582 0.48 Ga0059261_0647 tRNA pseudouridine(38-40) synthase 0.46 Ga0059261_0008 transcription elongation factor GreA — —
Rhodospirillum rubrum S1H 0.47 Rru_A3352 Pseudouridylate synthase (NCBI) 0.60 Rru_A2887 GreA/GreB family elongation factor (NCBI) — —
Rhodopseudomonas palustris CGA009 0.47 TX73_003225 tRNA pseudouridine(38-40) synthase TruA 0.57 TX73_021095 transcription elongation factor GreA — —
Brevundimonas sp. GW460-12-10-14-LB2 0.46 A4249_RS12340 tRNA pseudouridine(38-40) synthase TruA 0.65 A4249_RS00695 transcription elongation factor GreA — —
Bosea sp. OAE506 0.44 ABIE41_RS00165 tRNA pseudouridine(38-40) synthase TruA 0.57 ABIE41_RS11905 transcription elongation factor GreA — —
Paraburkholderia sabiae LMG 24235 0.37 QEN71_RS17635 tRNA pseudouridine(38-40) synthase TruA 0.53 QEN71_RS04785 transcription elongation factor GreA 0.61 127
Ralstonia solanacearum IBSBF1503 0.36 RALBFv3_RS02595 tRNA pseudouridine(38-40) synthase TruA 0.50 RALBFv3_RS02185 transcription elongation factor GreA — —
Ralstonia solanacearum UW163 0.36 UW163_RS11130 tRNA pseudouridine(38-40) synthase TruA 0.50 UW163_RS15495 transcription elongation factor GreA — —
Ralstonia solanacearum PSI07 0.35 RPSI07_RS14720 tRNA pseudouridine(38-40) synthase TruA 0.52 RPSI07_RS15260 transcription elongation factor GreA low > 81
Ralstonia solanacearum GMI1000 0.35 RS_RS09975 tRNA pseudouridine(38-40) synthase TruA 0.50 RS_RS07635 transcription elongation factor GreA — —
Ralstonia sp. UNC404CL21Col 0.35 ABZR87_RS14510 tRNA pseudouridine(38-40) synthase TruA 0.52 ABZR87_RS14135 transcription elongation factor GreA low > 80
Cupriavidus basilensis FW507-4G11 0.35 RR42_RS14370 tRNA pseudouridine synthase A 0.50 RR42_RS13505 transcription elongation factor GreA — —
Paraburkholderia graminis OAS925 0.34 ABIE53_004807 tRNA pseudouridine38-40 synthase 0.54 ABIE53_003003 transcription elongation factor GreA low > 113
Paraburkholderia bryophila 376MFSha3.1 0.34 H281DRAFT_06069 tRNA pseudouridine38-40 synthase 0.52 H281DRAFT_04404 GreA/GreB family elongation factor low > 103
Burkholderia phytofirmans PsJN 0.34 BPHYT_RS33885 tRNA pseudouridine synthase A 0.53 BPHYT_RS14185 transcription elongation factor GreA low > 109
Pseudomonas sp. S08-1 0.33 OH686_04450 tRNA pseudouridine(38-40) synthase 0.48 OH686_17085 Transcription elongation factor GreA low > 80
Alteromonas macleodii MIT1002 0.33 MIT1002_02529 tRNA pseudouridine synthase A 0.52 MIT1002_01468 Transcript cleavage factor GreA 0.88 7
Dechlorosoma suillum PS 0.32 Dsui_3194 pseudouridylate synthase I 0.52 Dsui_3063 transcription elongation factor GreA low > 51
Variovorax sp. OAS795 0.32 ABID97_RS08440 tRNA pseudouridine(38-40) synthase TruA 0.52 ABID97_RS17070 transcription elongation factor GreA low > 91
Acidovorax sp. GW101-3H11 0.32 Ac3H11_1532 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.55 Ac3H11_437 Transcription elongation factor GreA low > 79
Shewanella amazonensis SB2B 0.32 Sama_2150 truA tRNA pseudouridine synthase A (RefSeq) 0.47 Sama_0951 GreA/GreB family elongation factor (RefSeq) low > 62
Variovorax sp. SCN45 0.32 GFF3885 tRNA pseudouridine(38-40) synthase (EC 5.4.99.12) 0.52 GFF374 Transcription elongation factor GreA 0.59 115
Herbaspirillum seropedicae SmR1 0.31 HSERO_RS16485 tRNA pseudouridine synthase A 0.48 HSERO_RS06930 transcription elongation factor GreA — —
Rahnella sp. WP5 0.31 EX31_RS19600 tRNA pseudouridine(38-40) synthase TruA 0.53 EX31_RS08595 transcription elongation factor GreA low > 89
Vibrio cholerae E7946 ATCC 55056 0.31 CSW01_05090 tRNA pseudouridine(38-40) synthase TruA 0.48 CSW01_03330 transcription elongation factor GreA low > 62
Pseudomonas putida KT2440 0.31 PP_1994 tRNA pseudouridine (38-40)synthase 0.47 PP_4722 Transcription elongation factor GreA 0.40 13
Enterobacter asburiae PDN3 0.31 EX28DRAFT_0286 tRNA pseudouridine(38-40) synthase 0.55 EX28DRAFT_3232 transcription elongation factor GreA low > 76
Serratia liquefaciens MT49 0.31 IAI46_17840 tRNA pseudouridine(38-40) synthase TruA 0.52 IAI46_01880 transcription elongation factor GreA low > 86
Enterobacter sp. TBS_079 0.31 MPMX20_03253 tRNA pseudouridine synthase A 0.55 MPMX20_04085 Transcription elongation factor GreA low > 85
Castellaniella sp019104865 MT123 0.31 ABCV34_RS04265 tRNA pseudouridine(38-40) synthase TruA 0.53 ABCV34_RS15540 transcription elongation factor GreA low > 48
Phocaeicola dorei CL03T12C01 0.30 ABI39_RS12690 tRNA pseudouridine(38-40) synthase TruA 0.34 ABI39_RS04145 transcription elongation factor GreA low > 72
Klebsiella michiganensis M5al 0.30 BWI76_RS20380 tRNA pseudouridine(38-40) synthase TruA 0.55 BWI76_RS25160 transcription elongation factor GreA low > 92
Escherichia coli Nissle 1917 0.30 ECOLIN_RS13435 tRNA pseudouridine(38-40) synthase TruA 0.55 ECOLIN_RS18320 transcription elongation factor GreA — —
Escherichia coli ECOR38 0.30 HEPCGN_21875 truA aspartate-semialdehyde dehydrogenase 0.55 HEPCGN_16920 greA transcription elongation factor GreA — —
Shewanella loihica PV-4 0.30 Shew_2306 tRNA pseudouridine synthase A (RefSeq) 0.48 Shew_2837 transcription elongation factor GreA (RefSeq) — —
Escherichia coli ECRC98 0.30 JDDGAC_26630 truA aspartate-semialdehyde dehydrogenase 0.55 JDDGAC_21670 greA transcription elongation factor GreA — —
Pectobacterium carotovorum WPP14 0.30 HER17_RS06990 tRNA pseudouridine(38-40) synthase TruA 0.55 HER17_RS18330 transcription elongation factor GreA — —
Erwinia tracheiphila SCR3 0.30 LU632_RS07825 truA tRNA pseudouridine(38-40) synthase TruA 0.48 LU632_RS21165 greA transcription elongation factor GreA — —
Phocaeicola vulgatus CL09T03C04 0.30 HMPREF1058_RS16775 tRNA pseudouridine(38-40) synthase TruA 0.34 HMPREF1058_RS12565 transcription elongation factor GreA — —
Escherichia coli ECRC99 0.30 KEDOAH_05525 truA aspartate-semialdehyde dehydrogenase 0.55 KEDOAH_10105 greA transcription elongation factor GreA — —
Escherichia coli ECRC101 0.30 OKFHMN_22670 truA aspartate-semialdehyde dehydrogenase 0.55 OKFHMN_18045 greA transcription elongation factor GreA — —
Escherichia coli ECRC101 0.30 MCAODC_13710 truA aspartate-semialdehyde dehydrogenase 0.55 MCAODC_08565 greA transcription elongation factor GreA — —
Escherichia coli ECRC102 0.30 NIAGMN_20445 truA aspartate-semialdehyde dehydrogenase 0.55 NIAGMN_15805 greA transcription elongation factor GreA — —
Salmonella enterica subsp. enterica serovar Typhimurium str. MS1868 0.30 GFF1934 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.55 GFF2922 Transcription elongation factor GreA low > 78
Dickeya dianthicola ME23 0.30 DZA65_RS15370 tRNA pseudouridine(38-40) synthase TruA 0.54 DZA65_RS03180 transcription elongation factor GreA low > 75
Dickeya dianthicola 67-19 0.30 HGI48_RS14435 tRNA pseudouridine(38-40) synthase TruA 0.54 HGI48_RS03185 transcription elongation factor GreA low > 71
Kangiella aquimarina DSM 16071 0.30 B158DRAFT_1483 pseudouridylate synthase I 0.52 B158DRAFT_0617 transcription elongation factor GreA low > 40
Escherichia coli ECRC62 0.30 BNILDI_13225 truA tRNA pseudouridine(38-40) synthase TruA 0.55 BNILDI_01690 greA transcription elongation factor GreA — —
Escherichia coli BW25113 0.30 b2318 truA tRNA pseudouridine synthase A (NCBI) 0.55 b3181 greA transcription elongation factor: cleaves 3' nucleotide of paused mRNA (VIMSS) low > 76
Escherichia coli HS(pFamp)R (ATCC 700891) 0.30 OHPLBJKB_01387 tRNA pseudouridine synthase A 0.55 OHPLBJKB_00519 Transcription elongation factor GreA low > 73
Escherichia coli BL21 0.30 ECD_02243 tRNA pseudouridine(38-40) synthase 0.55 ECD_03046 transcript cleavage factor — —
Dickeya dadantii 3937 0.30 DDA3937_RS14465 tRNA pseudouridine(38-40) synthase TruA 0.55 DDA3937_RS03015 transcription elongation factor GreA — —
Escherichia coli ECOR27 0.30 NOLOHH_14305 truA tRNA pseudouridine(38-40) synthase TruA 0.55 NOLOHH_09845 greA transcription elongation factor GreA — —
Escherichia fergusonii Becca 0.30 EFB2_01540 tRNA pseudouridine synthase A 0.55 EFB2_00642 Transcription elongation factor GreA low > 86
Pseudomonas sp. RS175 0.29 PFR28_02817 tRNA pseudouridine synthase A 0.48 PFR28_00078 Transcription elongation factor GreA — —
Pseudomonas fluorescens FW300-N1B4 0.29 Pf1N1B4_7 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.43 Pf1N1B4_1171 Transcription elongation factor GreA — —
Pseudomonas fluorescens GW456-L13 0.29 PfGW456L13_3941 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.44 PfGW456L13_5098 Transcription elongation factor GreA — —
Pantoea sp. MT58 0.29 IAI47_06245 tRNA pseudouridine(38-40) synthase TruA 0.53 IAI47_17080 transcription elongation factor GreA low > 76
Pseudomonas fluorescens FW300-N2C3 0.29 AO356_21435 pseudouridine synthase 0.47 AO356_07475 transcription elongation factor GreA — —
Pseudomonas fluorescens FW300-N2E2 0.29 Pf6N2E2_70 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.47 Pf6N2E2_3363 Transcription elongation factor GreA — —
Shewanella sp. ANA-3 0.29 Shewana3_1479 truA tRNA pseudouridine synthase A (RefSeq) 0.48 Shewana3_1017 transcription elongation factor GreA (RefSeq) low > 73
Pseudomonas syringae pv. syringae B728a 0.29 Psyr_1662 tRNA pseudouridine synthase 0.45 Psyr_4190 transcription elongation factor GreA — —
Hydrogenophaga sp. GW460-11-11-14-LB1 0.29 GFF3357 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.55 GFF4897 Transcription elongation factor GreA low > 90
Pseudomonas fluorescens FW300-N2E3 0.29 AO353_20660 pseudouridine synthase 0.43 AO353_05625 transcription elongation factor GreA low > 101
Pseudomonas syringae pv. syringae B728a ΔmexB 0.29 Psyr_1662 tRNA pseudouridine synthase 0.45 Psyr_4190 transcription elongation factor GreA — —
Xanthomonas campestris pv. campestris strain 8004 0.28 Xcc-8004.1961.1 tRNA pseudouridine synthase A (EC 4.2.1.70) 0.55 Xcc-8004.2911.1 Transcription elongation factor GreA low > 74
Pseudomonas stutzeri RCH2 0.28 Psest_2585 pseudouridylate synthase I 0.52 Psest_0969 transcription elongation factor GreA low > 67
Pseudomonas fluorescens SBW25-INTG 0.28 PFLU_RS20545 tRNA pseudouridine(38-40) synthase TruA 0.43 PFLU_RS25875 transcription elongation factor GreA low > 109
Pseudomonas fluorescens SBW25 0.28 PFLU_RS20545 tRNA pseudouridine(38-40) synthase TruA 0.43 PFLU_RS25875 transcription elongation factor GreA low > 109
Marinobacter adhaerens HP15 0.28 HP15_1829 tRNA pseudouridine synthase A 0.52 HP15_3076 protein containing prokaryotic transcription elongation factor GreA domain low > 73
Pseudomonas simiae WCS417 0.28 PS417_18565 pseudouridine synthase 0.44 PS417_24035 transcription elongation factor GreA — —
Bacteroides ovatus ATCC 8483 0.27 BACOVA_05075 tRNA pseudouridine synthase A 0.33 BACOVA_01643 prokaryotic transcription elongation factor, GreA/GreB domain protein low > 94
Acinetobacter radioresistens SK82 0.27 MPMX26_00352 tRNA pseudouridine synthase A 0.50 MPMX26_00765 Transcription elongation factor GreA low > 36
Lysobacter sp. OAE881 0.27 ABIE51_RS08245 tRNA pseudouridine(38-40) synthase TruA 0.56 ABIE51_RS11610 transcription elongation factor GreA low > 62
Parabacteroides merdae CL09T00C40 0.27 HMPREF1078_RS16085 tRNA pseudouridine(38-40) synthase TruA 0.34 HMPREF1078_RS17725 transcription elongation factor GreA low > 61
Dyella japonica UNC79MFTsu3.2 0.27 ABZR86_RS08015 tRNA pseudouridine(38-40) synthase TruA 0.45 ABZR86_RS05595 transcription elongation factor GreA low > 74
Rhodanobacter sp. FW510-T8 0.26 OKGIIK_04830 truA tRNA pseudouridine(38-40) synthase TruA 0.48 OKGIIK_07290 greA transcription elongation factor GreA — —
Bacteroides thetaiotaomicron VPI-5482 0.25 BT4237 tRNA pseudouridine synthase A (NCBI ptt file) 0.34 BT2565 transcription elongation factor greA (NCBI ptt file) — —
Rhodanobacter denitrificans MT42 0.25 LRK55_RS01480 tRNA pseudouridine(38-40) synthase TruA 0.47 LRK55_RS17860 transcription elongation factor GreA low > 63
Rhodanobacter denitrificans FW104-10B01 0.25 LRK54_RS01700 tRNA pseudouridine(38-40) synthase TruA 0.47 LRK54_RS18005 transcription elongation factor GreA low > 59
Echinicola vietnamensis KMM 6221, DSM 17526 0.25 Echvi_1728 pseudouridylate synthase I 0.29 Echvi_0180 transcription elongation factor GreA low > 79
Pontibacter actiniarum KMM 6156, DSM 19842 0.24 CA264_17725 tRNA pseudouridine synthase A 0.29 CA264_03870 transcription elongation factor GreA low > 74
Desulfovibrio vulgaris Hildenborough JW710 0.24 DVU0911 truA tRNA pseudouridine synthase A (TIGR) 0.42 DVU3245 greA transcription elongation factor GreA (TIGR) low > 55
Bacteroides stercoris CC31F 0.23 HMPREF1181_RS06250 tRNA pseudouridine(38-40) synthase TruA 0.35 HMPREF1181_RS00805 transcription elongation factor GreA — —
Bifidobacterium breve UCC2003 0.23 BBR_RS18795 tRNA pseudouridine(38-40) synthase TruA 0.20 BBR_RS14165 transcription elongation factor GreA — —
Pedobacter sp. GW460-11-11-14-LB5 0.23 CA265_RS15580 tRNA pseudouridine(38-40) synthase TruA 0.31 CA265_RS23190 transcription elongation factor GreA low > 88
Mucilaginibacter yixingensis YX-36 DSM 26809 0.21 ABZR88_RS21140 tRNA pseudouridine(38-40) synthase TruA 0.31 ABZR88_RS00130 transcription elongation factor GreA low > 71
Desulfovibrio vulgaris Miyazaki F 0.19 DvMF_1395 truA tRNA pseudouridine synthase A (RefSeq) 0.42 DvMF_0383 greA transcription elongation factor GreA (RefSeq) low > 51
Mycobacterium tuberculosis H37Rv 0.17 Rv3455c Probable tRNA pseudouridine synthase a TruA (pseudouridylate synthase I) (pseudouridine synthase I) (uracil hydrolyase) 0.21 Rv1080c Probable transcription elongation factor GreA (transcript cleavage factor GreA) — —

Not shown: 2 genomes with orthologs for Dshi_1938 only; 1 genomes with orthologs for Dshi_3076 only