Homologs in group_652

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6 homologs were identified in 6 genomes with OrthoFinder.
The following table displays the locus tag of each homolog, the organism to which it belongs, the gene name and product.

Locus tag Identity Source Gene Product
FBDBKF_02230 FBDBKF_02230 79.4 Morganella morganii S1 rnd ribonuclease D
EHELCC_02700 EHELCC_02700 79.4 Morganella morganii S2 rnd ribonuclease D
NLDBIP_00760 NLDBIP_00760 79.4 Morganella morganii S4 rnd ribonuclease D
LHKJJB_01275 LHKJJB_01275 79.4 Morganella morganii S3 rnd ribonuclease D
HKOGLL_01315 HKOGLL_01315 79.4 Morganella morganii S5 rnd ribonuclease D
PMI_RS05630 PMI_RS05630 58.6 Proteus mirabilis HI4320 rnd ribonuclease D

Distribution of the homologs in the orthogroup group_652

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Number of homologs in each genome (first column) and amino-acid identity of the closest homolog (second column).

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Phylogeny of the RefSeq best hits of group_652

Swissprot accession Eval Score ID (%) N gaps Alignment length Annot score Gene Description Organism
P09155 3.35e-161 460 59 0 372 1 rnd Ribonuclease D Escherichia coli (strain K12)
C9XUE4 1.13e-158 453 61 1 362 3 rnd Ribonuclease D Cronobacter turicensis (strain DSM 18703 / CCUG 55852 / LMG 23827 / z3032)
A8GFH0 1.62e-150 432 59 0 370 3 rnd Ribonuclease D Serratia proteamaculans (strain 568)
C6C608 5.31e-141 408 55 1 374 3 rnd Ribonuclease D Musicola paradisiaca (strain Ech703)
P44442 8.33e-103 312 40 4 369 3 rnd Ribonuclease D Haemophilus influenzae (strain ATCC 51907 / DSM 11121 / KW20 / Rd)
A0KXU5 1.68e-80 254 41 4 357 3 rnd Ribonuclease D Shewanella sp. (strain ANA-3)
A1SVE6 3.46e-80 253 37 5 367 3 rnd Ribonuclease D Psychromonas ingrahamii (strain DSM 17664 / CCUG 51855 / 37)
A6V8R6 1.19e-65 216 38 6 360 3 rnd Ribonuclease D Pseudomonas aeruginosa (strain PA7)
Q0BVP4 2.13e-46 166 31 8 367 3 rnd Ribonuclease D Granulibacter bethesdensis (strain ATCC BAA-1260 / CGDNIH1)
A5G127 1.5e-44 161 33 5 293 3 rnd Ribonuclease D Acidiphilium cryptum (strain JF-5)
A7HYE5 4.07e-44 160 35 3 260 3 rnd Ribonuclease D Parvibaculum lavamentivorans (strain DS-1 / DSM 13023 / NCIMB 13966)
D4Z694 6.62e-43 157 33 4 281 3 rnd Ribonuclease D Sphingobium indicum (strain DSM 16413 / CCM 7287 / MTCC 6362 / UT26 / NBRC 101211 / UT26S)
B8EN54 4.88e-42 154 29 6 363 3 rnd Ribonuclease D Methylocella silvestris (strain DSM 15510 / CIP 108128 / LMG 27833 / NCIMB 13906 / BL2)
Q5NPM2 1.09e-39 148 33 8 302 3 rnd Ribonuclease D Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
Q6AJF4 1.23e-38 145 26 3 363 3 rnd Ribonuclease D Desulfotalea psychrophila (strain LSv54 / DSM 12343)
Q1QLI8 7.75e-38 143 28 7 368 3 rnd Ribonuclease D Nitrobacter hamburgensis (strain DSM 10229 / NCIMB 13809 / X14)
A9H9B7 6.5e-37 140 29 7 362 3 rnd Ribonuclease D Gluconacetobacter diazotrophicus (strain ATCC 49037 / DSM 5601 / CCUG 37298 / CIP 103539 / LMG 7603 / PAl5)
Q28RA7 3.59e-36 139 28 9 379 3 rnd Ribonuclease D Jannaschia sp. (strain CCS1)
Q5GZ75 6.19e-36 137 33 6 351 3 rnd Ribonuclease D Xanthomonas oryzae pv. oryzae (strain KACC10331 / KXO85)
Q6G329 2.11e-35 137 32 2 259 3 rnd Ribonuclease D Bartonella henselae (strain ATCC 49882 / DSM 28221 / CCUG 30454 / Houston 1)
Q12149 1.02e-14 79 24 7 301 1 RRP6 Exosome complex exonuclease RRP6 Saccharomyces cerevisiae (strain ATCC 204508 / S288c)
A9LLI8 2.42e-14 78 23 6 280 2 RRP6L3 Protein RRP6-like 3 Arabidopsis thaliana
P56960 1.97e-12 72 27 6 261 1 Exosc10 Exosome complex component 10 Mus musculus
D4A1X2 6.02e-12 70 27 6 261 1 Exosc10 Exosome complex component 10 Rattus norvegicus
Q01780 9.36e-11 67 26 5 261 1 EXOSC10 Exosome complex component 10 Homo sapiens
Q10146 3.04e-10 65 21 6 302 1 rrp6 Exosome complex exonuclease rrp6 Schizosaccharomyces pombe (strain 972 / ATCC 24843)
O67779 3.31e-10 65 29 4 162 3 polA DNA polymerase I Aquifex aeolicus (strain VF5)
G5EBX6 4.52e-09 62 22 4 259 1 crn-3 Exosome complex component 10 homolog Caenorhabditis elegans
Q9VFF3 4.68e-09 62 25 7 266 1 Rrp6 Exosome complex component 10 homolog Drosophila melanogaster
A9LLI7 1.15e-07 57 24 4 247 2 RRP6L2 Protein RRP6-like 2 Arabidopsis thaliana
Q0WVE8 1.58e-07 57 24 5 250 2 RRP6L1 Protein RRP6-like 1 Arabidopsis thaliana
Q179T2 2.78e-07 56 27 5 191 1 AAEL005527 Exonuclease mut-7 homolog Aedes aegypti
Q8N9H8 1.03e-05 51 27 5 183 1 EXD3 Exonuclease mut-7 homolog Homo sapiens

  • Number of RefSeq hits:

General

Source Morganella psychrotolerans
Locus tag F4V73_RS04600
Feature type CDS
Gene rnd
Product ribonuclease D
Location 974258 - 975409 (strand: 1)
Length 1152 (nucleotides) / 383 (amino acids)

Contig

Accession term accessions NZ_VXKB01000001 accessions NZ_VXKB01000000 Name: value, dtype: object
Length 2012992 nucleotides
Topology linear
Plasmid False

Orthology

Orthogroup group_652
Orthogroup size 7
N. genomes 7

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Genomic region

Domains

PF00570 HRDC domain
PF01612 3'-5' exonuclease
PF21293 Ribonuclease D, C-terminal HRDC domain

COG entry Annotation(s)

ID Function(s) descr. Function(s) cat. Description
COG0349 Translation, ribosomal structure and biogenesis (J) J Ribonuclease D

Kegg Ortholog Annotation(s)

KO Description Pathways Modules
K03684 ribonuclease D [EC:3.1.13.5] - -

Protein Sequence

MNHQLITSDTQLAAFCEQVAGKPFLALDTEFIRIRTYYPHLGLVQLYDGEHLALVDPLGITDWAPLQQLLTAPDMVKYLHAGSEDIEVFLNSLNCVPHPMVDTQILAAFVGHPLSCGFASLVETYLGTALDKSESRTDWLARPLTARQCEYAAADVYYLLPLAEILTKKVQEAGCTQAAQEECALMVQRRIKQAEPTEVYKEFSGAGLLRPQQLACLQKLAQWRLEQARERDMAVNFVVREEHLWKVARYMPTSLGELDGLDFTGQEIRCHGKRVLAIVDECRDLDDSECPPPVENVSDHPLYRKTFKAIKARVTTLSETEQFSPELLASRRQINQYLNKVWDCKAQQGEPELLSGWRKPLLEALLAETVDEIQSLSGRAPDA

Flanking regions ( +/- flanking 50bp)

CGAGTATAATCATTTATTAATCACGTCGTTAAAGACTAAGAGAAGTTGTTTTGAATCATCAGTTGATTACCAGCGATACGCAGCTTGCTGCATTCTGTGAACAGGTTGCAGGCAAGCCATTTCTTGCTCTGGATACCGAATTTATCCGTATCCGGACATACTACCCGCACCTCGGTCTGGTTCAGCTTTACGACGGGGAACACCTTGCACTTGTCGATCCGCTGGGCATTACAGACTGGGCGCCATTACAACAACTGCTGACCGCCCCGGATATGGTGAAATATCTGCATGCAGGCAGCGAAGATATTGAAGTTTTCCTCAACAGCCTGAACTGTGTACCACACCCGATGGTGGATACTCAGATTCTGGCGGCGTTTGTCGGTCATCCGCTGTCCTGCGGATTTGCATCACTGGTGGAAACCTATCTGGGTACAGCACTGGATAAAAGTGAGTCCCGCACGGACTGGCTGGCGCGTCCGCTGACAGCAAGACAGTGTGAATACGCTGCGGCAGATGTGTATTATCTGCTGCCGCTGGCAGAAATACTGACAAAAAAAGTACAGGAAGCGGGCTGTACGCAGGCAGCACAGGAAGAGTGCGCCCTGATGGTACAACGGCGGATTAAACAGGCAGAGCCGACTGAGGTCTATAAAGAGTTCAGCGGGGCGGGATTATTGCGTCCGCAACAATTGGCCTGTTTACAGAAACTGGCGCAGTGGCGGCTTGAGCAGGCCCGTGAGCGGGATATGGCTGTCAATTTTGTTGTCAGGGAAGAGCACCTGTGGAAAGTGGCGCGTTATATGCCAACATCACTGGGTGAGCTGGACGGGTTAGATTTTACCGGGCAGGAGATCCGCTGCCACGGCAAACGGGTGCTGGCAATTGTGGATGAGTGCCGCGATTTGGATGACAGCGAATGTCCGCCACCGGTGGAAAATGTGTCCGATCATCCGTTATACCGTAAAACATTCAAAGCGATTAAAGCCCGCGTTACAACGCTGAGTGAAACGGAACAGTTTAGTCCGGAGTTACTGGCATCACGTCGTCAGATCAATCAATACCTGAATAAAGTATGGGATTGTAAAGCACAGCAGGGCGAGCCGGAGCTGCTCAGCGGCTGGCGTAAACCACTGCTGGAAGCACTACTGGCAGAAACGGTTGATGAAATTCAGTCATTATCAGGCCGCGCACCGGATGCATAAAACAGAAAAAGCACAGTGAGTTACCCCGCTGTGCATTCAGTTAGTATCAT