Gene detail

Detailed information of evm.model.Contig129.17 in Hemicorallium imperiale

Genomic Location: Contig129:49764...52176
NR annotation: OED37068.1, polyribonucleotide nucleotidyltransferase [PVC group bacterium (ex Bugula neritina AB1)]
Species Hemicorallium imperiale · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Contig129.17

ATGAAAACGACTGACAAAGATAAAATAATGAAGACATTTTCTAGAAAAGATGGGGATACTGGTTCTCCTGAGGTTCAAATTGCACTTCTGACTCATAGGATTGGGGACCTTACACAGCATTTTAACTTTCACAAAAAGGATCACAACTCAAGAAGGGGTTTATTTTTGCTCGTCGGTCGTCGTAGACGATTGTTAGAACATTTAAAAAAAATTGATAAAGATAAATATTTTGATGTTATTGGCAGATTAGGAAAGGAAGTTATTAGAGTGAATTCAGTCTCTTTTAAATTAGGAAAAAAAAATGTAAGTATTGAGACGGGATCTCTCGCTAAGCAAGCAAATGCCTCCGTTTTAGTTCGATGCGGGGAAACCGCTGTATTAGTAACAATTTGTGCGACAGATCAAGCAAAAGAGGGTTGTTCTTTTTTACCCTTGACTGTCGATTATAGAGAAAAACTTTATTCTGCTGGAAGAGTCCCTGGAGGCTTTTTTAAAAGAGAAGCTCGTCCAACGGACACCGAGGTTTTGGTCATGAGATTGACTGATCGTCCTTTAAGACCACTTTTCCCAGAAGGTTATCGCAATGAAGTTCAGGTTATGTCTCAAGTTCTTTCTTTTGACGGAGTGAACTCTCCAGATGTTCTTTCTATTATTGGAACTTCTTTTGCTGTAGCGATTTCCGATATTCCTGTTCAAAATCTTTTTTCTGCCGTTAGAGTAGCAATGATTGATGGCAAGTATGTCGTTGATCCTAGACAACAGGAATTAGAAAAAAGCACTTTAGATGTGATTCTTGCTGGGACTGCTGACAACTTGACTATGGTTGAAGGCTCTTCTTCCGAAGTCAATGAAGAGCAACTTTTAGAAGCTCTTTCCATTGGTCAAACAGCAATCACTTCTCTAATAGATTCTCAAAAGGAACTGATTCAATTATGTGGAAAAGAGAAAAAATCTTTTTCTCCTGTTCTTGTTAAAGACGATTCTTTTTACGACAAGATCAAAGAATCTTTTCTTCCTGCTGTGGATAAAGCGTTTGATGTTTTTACAAAAAAAGAACGAAAAGATCTTTTAGAAGAAGGCAAAGAAGCGACACTAGAACTTCTTGCTAAAGATGATAGTTTTGATGCAGAAGAGCATGATGTCGCTGTCATTTTTTCAGAGATCACTAAAATGCGAACTAGAGAGCTCATGTCTGAACAAAAGAGAAGAGCTGATGGTCGAAAATTTGATGAGATCAGAGCCATTTCTTCAGAAGCGGCATTACTTCCTCGCGTTCATGGTTCAGCTCTTTTTACAAGAGGGGAAACACAAGTTTTAGCAGCGATCACACTTGGATTTGTCACAGACGAACAAATGATTGATGGTTTGCAAGGCATGAAGAAAAAGAAATTTCTTTTGCATTACAATTTTCCTCCATTTTCCGTTGGAGAATGTAAGATGATTCGTTCTGTGAGCCGAAGAGAAATTGGTCACGGATTTTTAGTAGAGAGAGCTTTGTCTAGATCACTTCCTGAGTACAAAGATTTTCCTTATACAATTCGTCTTGTTGCAGAAGTTTTAGAATCCAACGGTTCTTCTTCTATGGCATCTGTTTGTTCTGGTTCTATGGCCTTAATGGATGCAGGAATCCCAGTCAAATCTGCGGTTTCTGGAATTGCGATGGGTCTTGTTAAAATGGAAAATGAAACAATCATTTTGTCTGATATTTCTGGGACAGAAGATTATTTTGGAGACATGGATTTCAAGATTGCTGGAACAAAAAAAGGAATCACTTCTTTTCAAATGGATATCAAAGTTGAAGGAATTCCTTTTGATATTTTAAAGAAAGCACTTCTTCAAGACAAAGAAGGTTGTTTATTCATTTTGGATAAAATGAAAGAGACCATTTCAGAGCCTAGAAAAAGTCTTTCTCAATATGCTCCTAAGATTCTTAGTTTTAAGATCCCCGTCGGAAAAATTAAAGATGTTATTGGATCAGGTGGAAAAGTTATCAAGGGAATCATTGAAAAAACTTCTGTCGATATTAATATCGAAGATAGTGGTGAGGTTGTTATCAGTAGTCCTCATCAAAAATCTCTTGATCAGGCTCATGCCATCATTCAAAAGTTAGTTCAAGAACCTCAAATTGGTCTTGTTTATGATGCTCGCGTTGTCAAAATCATGGATTTTGGTGCTTTTGTTGAGTTTCTTCCAGGAAAAGAAGGTTTGGTTCATATCTCTCAAATTGCTCGTGAAAGAATTCGTTCTGTTCGAGATGTGTTGACTGAAGGTGATATGATCAAAGCTAAGCTTATCGATATTGATAAGATGGGAAGAAAGTCTTTGAGTATTAAAGCTGCTATGGACAACAGATAG

Transcript

evm.model.Contig129.17

ATGAAAACGACTGACAAAGATAAAATAATGAAGACATTTTCTAGAAAAGATGGGGATACTGGTTCTCCTGAGGTTCAAATTGCACTTCTGACTCATAGGATTGGGGACCTTACACAGCATTTTAACTTTCACAAAAAGGATCACAACTCAAGAAGGGGTTTATTTTTGCTCGTCGGTCGTCGTAGACGATTGttagaacatttaaaaaaaattgataaaGATAAATATTTTGATGTTATTGGCAGATTAGGAAAGGAAGTTATTAGAGTGAATTCAGTCTCTTTTAAATTAGGAAAAAAAAATGTAAGTATTGAGACGGGATCTCTCGCTAAGCAAGCAAATGCCTCCGTTTTAGTTCGATGCGGGGAAACCGCTGTATTAGTAACAATTTGTGCGACAGATCAAGCAAAAGAGGGTTGTTCTTTTTTACCCTTGACTGTCGATTATAGAGAAAAACTTTATTCTGCTGGAAGAGTCCCTGGAGGCTTTTTTAAAAGAGAAGCTCGTCCAACGGACACCGAGGTTTTGGTCATGAGATTGACTGATCGTCCTTTAAGACCACTTTTCCCAGAAGGTTATCGCAATGAAGTTCAGGTTATGTCTCAAGTTCTTTCTTTTGACGGAGTGAACTCTCCAGATGTTCTTTCTATTATTGGAACTTCTTTTGCTGTAGCGATTTCCGATATTcctgttcaaaatcttttttctgCCGTTAGAGTAGCAATGATTGATGGCAAGTATGTCGTTGATCCTAGACAACAGGAATTAGAAAAAAGCACTTTAGATGTGATTCTTGCTGGGACTGCTGACAACTTGACTATGGTTGAAGGCTCTTCTTCCGAAGTCAATGAAGAGCAACTTTTAGAAGCTCTTTCCATTGGTCAAACAGCAATCACTTCTCTAATAGATTCTCAAAAGGAACTGATTCAATTATGTGGAAAAGAGAAAAAATCTTTTTCTCCTGTTCTTGTTAAAGACGATTCTTTTTACGACAAGATCAAAGAATCTTTTCTTCCTGCTGTGGATAAAGCGTTTGATGTTTTTACAAAAAAAGAACGAAAAGATCTTTTAGAAGAAGGCAAAGAAGCGACACTAGAACTTCTTGCTAAAGATGATAGTTTTGATGCAGAAGAGCATGATGTCGCTGTCATTTTTTCAGAGATCACTAAAATGCGAACTAGAGAGCTCATGTCTGAACAAAAGAGAAGAGCTGATGGTCGAAAATTTGATGAGATCAGAGCCATTTCTTCAGAAGCGGCATTACTTCCTCGCGTTCATGGTTCAGCTCTTTTTACAAGAGGGGAAACACAAGTTTTAGCAGCGATCACACTTGGATTTGTCACAGACGAACAAATGATTGATGGTTTGCAAGGCATGAAGAAAAAGAAATTTCTTTTGCATTACAATTTTCCTCCATTTTCCGTTGGAGAATGTAAGATGATTCGTTCTGTGAGCCGAAGAGAAATTGGTCACGGATTTTTAGTAGAGAGAGCTTTGTCTAGATCACTTCCTGAGTACAAAGATTTTCCTTATACAATTCGTCTTGTTGCAGAAGTTTTAGAATCCAACGGTTCTTCTTCTATGGCATCTGTTTGTTCTGGTTCTATGGCCTTAATGGATGCAGGAATCCCAGTCAAATCTGCGGTTTCTGGAATTGCGATGGGTCTTGttaaaatggaaaatgaaaCAATCATTTTGTCTGATATTTCTGGGACAGAAGATTATTTTGGAGACATGGATTTCAAGATTGCTGGAACAAAAAAAGGAATCACTTCTTTTCAAATGGATATCAAAGTTGAAGGAATTCCTTTTGATATTTTAAAGAAAGCACTTCTTCAAGACAAAGAAGGTTGTTTATTCATTTTGGATAAAATGAAAGAGACCATTTCAGAGCCTAGAAAAAGTCTTTCTCAATATGCTCCTAAGATTCTTAGTTTTAAGATCCCCGTCGGAAAAATTAAAGATGTTATTGGATCAGGTGGAAAAGTTATCAAGGGAATCATTGAAAAAACTTCTGTCGATATTAATATCGAAGATAGTGGTGAGGTTGTTATCAGTAGTCCTCATCAAAAATCTCTTGATCAGGCTCATGCCATCATTCAAAAGTTAGTTCAAGAACCTCAAATTGGTCTTGTTTATGATGCTCGCGTTGTCAAAATCATGGATTTTGGTGCTTTTGTTGAGTTTCTTCCAGGAAAAGAAGGTTTGGTTCATATCTCTCAAATTGCTCGTGAAAGAATTCGTTCTGTTCGAGATGTGTTGACTGAAGGTGATATGATCAAAGCTAAGCTTATCGATATTGATAAGATGGGAAGAAAGTCTTTGAGTATTAAAGCTGCTATGGACAACAGATAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
B5YHN2	Polyribonucleotide nucleotidyltransferase OS=Thermodesulfovibrio yellowstonii (strain ATCC 51303 / DSM 11347 / YP87) OX=289376 GN=pnp PE=3 SV=1
A8MFB4	Polyribonucleotide nucleotidyltransferase OS=Alkaliphilus oremlandii (strain OhILAs) OX=350688 GN=pnp PE=3 SV=1
Q74CS9	Polyribonucleotide nucleotidyltransferase OS=Geobacter sulfurreducens (strain ATCC 51573 / DSM 12127 / PCA) OX=243231 GN=pnp PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004215 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03725 all species →	RNase_PH_C	3' exoribonuclease family, domain 2	Domain	Interproscan
PF00013 all species →	KH_1	KH domain	Domain	Interproscan
PF01138 all species →	RNase_PH	3' exoribonuclease family, domain 1	Domain	Interproscan
PF03726 all species →	PNPase	Polyribonucleotide nucleotidyltransferase, RNA binding domain	Domain	Interproscan
PF00312 all species →	Ribosomal_S15	Ribosomal protein S15	Domain	Interproscan
PF00575 all species →	S1	S1 RNA binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR005290 all species →	Family	Small ribosomal subunit protein uS15, bacterial-type	Interproscan
IPR012162 all species →	Family	Polyribonucleotide nucleotidyltransferase	Interproscan
IPR036456 all species →	Homologous_superfamily	Polyribonucleotide nucleotidyltransferase, RNA-binding domain superfamily	Interproscan
IPR015847 all species →	Domain	Exoribonuclease, phosphorolytic domain 2	Interproscan
IPR036612 all species →	Homologous_superfamily	K Homology domain, type 1 superfamily	Interproscan
IPR004087 all species →	Domain	K Homology domain	Interproscan
IPR004088 all species →	Domain	K Homology domain, type 1	Interproscan
IPR012340 all species →	Homologous_superfamily	Nucleic acid-binding, OB-fold	Interproscan
IPR027408 all species →	Homologous_superfamily	PNPase/RNase PH domain superfamily	Interproscan
IPR020568 all species →	Homologous_superfamily	Ribosomal protein uS5 domain 2-type superfamily	Interproscan
IPR001247 all species →	Domain	Exoribonuclease, phosphorolytic domain 1	Interproscan
IPR000589 all species →	Family	Small ribosomal subunit protein uS15	Interproscan
IPR009068 all species →	Homologous_superfamily	uS15/NS1, RNA-binding domain superfamily	Interproscan
IPR036345 all species →	Homologous_superfamily	Exoribonuclease, PH domain 2 superfamily	Interproscan
IPR015848 all species →	Domain	Polyribonucleotide nucleotidyltransferase, RNA-binding domain	Interproscan
IPR003029 all species →	Domain	S1 domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11252 all species →	POLYRIBONUCLEOTIDE NUCLEOTIDYLTRANSFERASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003735 all species →	Molecular Function	structural constituent of ribosome	Interproscan
GO:0005840 all species →	Cellular Component	ribosome	Interproscan
GO:0006412 all species →	Biological Process	translation	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0004654 all species →	Molecular Function	polyribonucleotide nucleotidyltransferase activity	Interproscan
GO:0006402 all species →	Biological Process	mRNA catabolic process	Interproscan
GO:0006396 all species →	Biological Process	RNA processing	Interproscan
GO:0000175 all species →	Molecular Function	3'-5'-RNA exonuclease activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0006401 all species →	Biological Process	RNA catabolic process	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid binding	Interproscan

Search by domain instead of by gene. Any accession above (InterPro, Pfam, PANTHER, GO, KEGG) can be used as a query on the Functional Domain Search page, which searches all 148 annotated genomes at once.

KEGG pathway

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K00962	pnp, PNPT1; polyribonucleotide nucleotidyltransferase	EC:2.7.7.8	Transfer RNA biogenesis	ko03016	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.