Gene detail

Detailed information of gene01840.t1 in Actinoscyphia liui

Genomic Location: chr1:29022895...29034914
NR annotation: XP_020907797.1, U3 small nucleolar RNA-associated protein 4 homolog [Exaiptasia diaphana]
Species abbreviation ALIUI · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene01840.t1

ATGGTAGTAGACATGAAGTTCAAGGTTCATAGAGTTAGATTTGTGGATTATAAGCCACAGGCTATTCACTGCTTGGCGTTTGAAGATGTTAAAGTGAGACCACGTTTGGCTCTGTCCAGAGCTGACAGCAGCATTGAGATCTGGTGTCCAAAAGATAACTGGTATCAACAAATAATTATTCCTGGTTGCAGTGGAACATCAGTTGAATCACTGGTTTGGTGCGGAAGCAGAATCTTCTCTGGTGGTCTCCATGGTGAAATTACTGAATGGGATCTTGGAAGACTAGCACCAAAGGTTTCACAGAGTTCACTTGGAGGTGCTGTATGGAGTTTAGCAATCAACCACGCCAAGACTCACCTTGCGGCTGGTTGTGAAGATGGTTCAACAAGACTCTTTGAAATCACACCAGATGGGTTATTGTATTCTAGATCTCTTGACAAACAAGAAAGTAGAATCCTGTCCCTGAGTTGGCATGCCAGCGATAGTGTATTAGTGACAGGTTCATCTGACAGCACTGTAAGAGTTTATAACATCAAAACTGGGCAGTGTACATTGAGGATTACAATGGAAGAGTTTGAAGCAAGAAATACTCTGATATGGGATGTCTATATCACCAGGGATTTTACTATTATTACTGGAGATTCTCTTGGCAATACACAATTTTGGGATGGAAAGACAGGAACACTAATTGAGAGTTATAAAGCACACAAAGCTGATGTGTTATCCTTGTGTATTAATGAGACTGAAGACACTGTATTCTCTGCTGGAGTGGATAGCAATGTGGTGAGGTTCAAGCTAGCTGAAAAACAGGGCCAAAAACCTAAGTGGTTCAAGACAATGGCATCTAGGATTCATACTCATGACGTCAGAGCTCTCGCTATTCTGGGTGTAAAAGATACCCTAGTATCAGGAGGTGTAGATACGAAGCTTGGTATTTATTCTCTCTCCAAGTTTACAGAGAATAAACAGAGATTTATTAAATCATTTCCACAACACCCTATTGTTACTCTTGCATCAGAGTCCAATATATTAATGTATCAACATCAAGGTTCGTTACAGTTCTGGAAACTTGGAACAACAGATTCTGACAGCACAGTCCTACAATCACAGCCAGCTCATCTACTACAAATCAATGCCAAGGGAGACAACCATATTTTGTGCAGCGCAATCACAGCCTGCTCAAAGTGGGCAGCATTCTCAGACATCAATCACGTCAGCCTCTTTACAATCAACTTGACTACAGATGATGCAGCCAAGTTTAAAGTATCCAGAGTGTTGCCTCTACCACCAGATCTGTTGCCAGCACAAAGAATGTGTTTTACAAACAATGGAAGTAAATTAGTGTGCGCAACCAATCAACATTCTATACAGGTGTTGGATCTCAATGAGGAAGTTACACTAAATACAACCCTTCATTTGCCTGGCAATGACAAAGATCTCCCTGCCACGTGTTTGTTATCAGTCTCTGATGACGCAAGATGGGCTGCCTGTGTGGACAGTAAGAATGCTGTCAATGTATTCGACTTAAAGGATTGTAAGCATCACAGTACTCTTCCAACCTTTAGTAGTAACGTTACAGCCATGGCATTTCAACCAGGAACACAGCAATTGACAATTGTGTGTTCTGATAAACAGATATTTATATATAATACAAAACGAAGCAAACTCACAGACTGGTCCAAGCAAGCAGCCAAGACTGGATTACCAAAAGAATGGGTTCAAAGACACACTAAGGTGGTAGATGTCACCTTTAGTCCATTGCACACTGACTTAATGATGTTACAAGACCATGAAATATTTACTATTATTGACTTGAACCAGCCATTACCAGACCCAAACATAGATTTATTTGGCAAGAAATATCCATCAGAAGAAAGCAGGAAGAGAACAAGCAGCGGATCACTGGATGACCAAAGTGGAAAAAGAACAAAAGACGACAGGAAAGACAAACAGAAAGAACAGAAAAAGAAAGACGAGAAAACTGAGGAACATGACGACAGTACAGAGGATTCTTTTAAAATTTGCCATAAATATGAGTCGTTGTTATTTACTGGTTTCTGCCAAGACGGGTCTTTGGTGGTCGTTGAAAGACCTTGGCTCAAGATTTTAGAGTCGTTACCTCCGACGTTACACCGAAAACGCTACGGAAAATGCTAA

Transcript

gene01840.t1

ATGGCGGACGGAACGTGAAAGTTTTTCTTCATAAACATATCTTTGTATTTCGTGATCAGGGCGCTCGATTATTGATTTATGGTAGTAGACATGAAGTTCAAGGTTCATAGAGTTAGATTTGTGGATTATAAGCCACAGGCTATTCACTGCTTGGCGTTTGAAGATGTTAAAGTGAGACCACGTTTGGCTCTGTCCAGAGCTGACAGCAGCATTGAGATCTGGTGTCCAAAAGATAACTGGTATCAACAAATAATTATTCCTGGTTGCAGTGGAACATCAGTTGAATCACTGGTTTGGTGCGGAAGCAGAATCTTCTCTGGTGGTCTCCATGGTGAAATTACTGAATGGGATCTTGGAAGACTAGCACCAAAGGTTTCACAGAGTTCACTTGGAGGTGCTGTATGGAGTTTAGCAATCAACCACGCCAAGACTCACCTTGCGGCTGGTTGTGAAGATGGTTCAACAAGACTCTTTGAAATCACACCAGATGGGTTATTGTATTCTAGATCTCTTGACAAACAAGAAAGTAGAATCCTGTCCCTGAGTTGGCATGCCAGCGATAGTGTATTAGTGACAGGTTCATCTGACAGCACTGTAAGAGTTTATAACATCAAAACTGGGCAGTGTACATTGAGGATTACAATGGAAGAGTTTGAAGCAAGAAATACTCTGATATGGGATGTCTATATCACCAGGGATTTTACTATTATTACTGGAGATTCTCTTGGCAATACACAATTTTGGGATGGAAAGACAGGAACACTAATTGAGAGTTATAAAGCACACAAAGCTGATGTGTTATCCTTGTGTATTAATGAGACTGAAGACACTGTATTCTCTGCTGGAGTGGATAGCAATGTGGTGAGGTTCAAGCTAGCTGAAAAACAGGGCCAAAAACCTAAGTGGTTCAAGACAATGGCATCTAGGATTCATACTCATGACGTCAGAGCTCTCGCTATTCTGGGTGTAAAAGATACCCTAGTATCAGGAGGTGTAGATACGAAGCTTGGTATTTATTCTCTCTCCAAGTTTACAGAGAATAAACAGAGATTTATTAAATCATTTCCACAACACCCTATTGTTACTCTTGCATCAGAGTCCAATATATTAATGTATCAACATCAAGGTTCGTTACAGTTCTGGAAACTTGGAACAACAGATTCTGACAGCACAGTCCTACAATCACAGCCAGCTCATCTACTACAAATCAATGCCAAGGGAGACAACCATATTTTGTGCAGCGCAATCACAGCCTGCTCAAAGTGGGCAGCATTCTCAGACATCAATCACGTCAGCCTCTTTACAATCAACTTGACTACAGATGATGCAGCCAAGTTTAAAGTATCCAGAGTGTTGCCTCTACCACCAGATCTGTTGCCAGCACAAAGAATGTGTTTTACAAACAATGGAAGTAAATTAGTGTGCGCAACCAATCAACATTCTATACAGGTGTTGGATCTCAATGAGGAAGTTACACTAAATACAACCCTTCATTTGCCTGGCAATGACAAAGATCTCCCTGCCACGTGTTTGTTATCAGTCTCTGATGACGCAAGATGGGCTGCCTGTGTGGACAGTAAGAATGCTGTCAATGTATTCGACTTAAAGGATTGTAAGCATCACAGTACTCTTCCAACCTTTAGTAGTAACGTTACAGCCATGGCATTTCAACCAGGAACACAGCAATTGACAATTGTGTGTTCTGATAAACAGATATTTATATATAATACAAAACGAAGCAAACTCACAGACTGGTCCAAGCAAGCAGCCAAGACTGGATTACCAAAAGAATGGGTTCAAAGACACACTAAGGTGGTAGATGTCACCTTTAGTCCATTGCACACTGACTTAATGATGTTACAAGACCATGAAATATTTACTATTATTGACTTGAACCAGCCATTACCAGACCCAAACATAGATTTATTTGGCAAGAAATATCCATCAGAAGAAAGCAGGAAGAGAACAAGCAGCGGATCACTGGATGACCAAAGTGGAAAAAGAACAAAAGACGACAGGAAAGACAAACAGAAAGAACAGAAAAAGAAAGACGAGAAAACTGAGGAACATGACGACAGTACAGAGGATTCTTTTAAAATTTGCCATAAATATGAGTCGTTGTTATTTACTGGTTTCTGCCAAGACGGGTCTTTGGTGGTCGTTGAAAGACCTTGGCTCAAGATTTTAGAGTCGTTACCTCCGACGTTACACCGAAAACGCTACGGAAAATGCTAATGAGTACCGAAAACGCTACGGAAAATGCTAATGAGTACCGAACGCATGGAAAATGCTAATGACTACCGAACGCACGACACTGTGTAGACATAGTAATTTAATAAAGGAAATATTTTATAATAAATGGCTTTGAACGTACAAAACATGTAATAACCTGTTTCCAAGTAAAAAGCATCACATTTTGTTTTTATTTGTGTTATTAATTTAATAAATAATCAAGGAACAGTCGAAGATTTTATAAGCGCAGTAACGGTTATCACCAGTATTGAGGTGTTTTGTCTTCTTTCTCTTGGATTTGGGTTTCTTATTGTAACACTCACATCGCGCATTCCAAGTTTTCATAGCAATTTTCTTTATTTTCTTCTTGGTGTTTCCTTTCTTCTTGCTTACCCAATGGACCGCCATTGGAGAAGAAATGTGTCCAAGAAGTTGAATTTGCAGTAAATCCAGTTGTTAAAGAGAAACGATAATTTCTTCGAGATTGGCGGTCAGCCCACAGAGTTGTTCGACGTAACAGTACAGGGGACCTAGGCGTTTCCCTAGAACACGCTCTATATCGTATCC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q969X6	U3 small nucleolar RNA-associated protein 4 homolog OS=Homo sapiens OX=9606 GN=UTP4 PE=1 SV=1
Q8R2N2	U3 small nucleolar RNA-associated protein 4 homolog OS=Mus musculus OX=10090 GN=Utp4 PE=2 SV=3
Q06679	U3 small nucleolar RNA-associated protein 4 OS=Saccharomyces cerevisiae (strain ATCC 204508 / S288c) OX=559292 GN=UTP4 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006125 (this species only)
Ubiquitin family	UBD\|Other\|Beta-prp · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|CDC20 · all ubiquitin genes in this species
Ubiquitin family	E3\|E3 adaptor Cullin RING\|DWD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00400 all species →	WD40	WD domain, G-beta repeat	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR015943 all species →	Homologous_superfamily	WD40/YVTN repeat-like-containing domain superfamily	Interproscan
IPR001680 all species →	Repeat	WD40 repeat	Interproscan
IPR036322 all species →	Homologous_superfamily	WD40-repeat-containing domain superfamily	Interproscan
IPR011047 all species →	Homologous_superfamily	Quinoprotein alcohol dehydrogenase-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR44163 all species →	U3 SMALL NUCLEOLAR RNA-ASSOCIATED PROTEIN 4 HOMOLOG	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000462 all species →	Biological Process	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0030686 all species →	Cellular Component	90S preribosome	Interproscan
GO:0032040 all species →	Cellular Component	small-subunit processome	Interproscan
GO:0034455 all species →	Cellular Component	t-UTP complex	Interproscan
GO:0005515 all species →	Molecular Function	protein 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
K14548	UTP4, CIRH1A; U3 small nucleolar RNA-associated protein 4	-	Ribosome biogenesis	ko03009	deepkoala

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