Gene detail

Detailed information of gene23976.t1 in Actinoscyphia liui

Genomic Location: chr7:5788077...5804648
NR annotation: XP_020911601.1, ATP-dependent RNA helicase DDX54 [Exaiptasia diaphana]
Species abbreviation ALIUI · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene23976.t1

ATGGCGAAAAAGAAGGGTTTTCAGAAACCAAGTCAGGCTAAGTCAAAAGGCAAGAATAATCCTCTCTACAAACGAAAGAAAAAGGACAAAGAAGAGGAGGAATTAGAAGTTGTAGAGGTGAAAGACTTTGTGGAGGAAGAAGATCATGATGATGATGATGATGATGCTGCTATGGATAATACCGAAATTAGAAAAATGGTTTCACAACAAAAGAAAAAGAAAAAGAAATCGGGAGGTTTTCAGTCCATGGGTCTCAGTTCTCCTGTATATAAAGGTGTCATGAAGAAAGGTTATAAAATTCCAACTCCGATTCAAAGAAAGGCTATACCTGTTGTAATGGATGGCAAAGATGTGGTTGCTATGGCAAGAACAGGATCTGGCAAGACTGCTGCCTTTCTGATTCCTATGTTTGAAAAACTCCTGTCACATTCTGCAAAGACTGGCGCAAGAGCTCTAATTCTTTCTCCAACTAGAGAATTGGCTTTGCAGACCCTTAAATTCGTCAAAGAGCTTGGTCGTTTCACTGGAATTCGTTCTGCTGTGGTTCTTGGTGGTGACAGCTTTGAGAGTCAGTTTTCTGCCATACACAAGAATCCTGATGTTATTGTTGCAACTCCTGGTCGTTTCTTACATGTCATCACAGAGATGGACCTAAAGTTGTCATCAGTGGAGTATGTTGTATTTGATGAGGCTGATAGGCTGTTTGAGTTGGGATTTGCTGAGCAACTACATGAAATTATCCACAAACTGCCTGATGCCAGGCAAACCCTTCTATTCTCTGCAACATTGCCAAGACTTCTAGTGGACTTGGCGAAGGCTGGTTTAACAGACCCTGTACTCATCCGACTTGATGTCGACTCAAAAATAAGTGATCAGTTAAAGATGGCATTTCTTCACTGCCGTGCTAATGATAAACAAGCTATTCTGTTACATTTGCTTCAAAATGTCATCCTTCCCACTGAACAAACTCTGGTGTTTGCAGCAACTAAACATCATGTGGAGTATTTAAAAGAGCTTCTTCATGCAAATGGAATCACATGTTCACATGTCTACAGTTCACTGGACCAAACAGCTCGTACCATAAATGTGAGCAAGTTTCAAAACAGGAAGACCAAGGTGATGGTAGTAACAGATGTAGCGGCACGTGGAATTGACATCCCAATGCTGGATAACGTCATCAATTTCCATTTTCCTTCCAAATCCAAACTCTTTGTTCACAGAGTAGGGCGTGTTGCAAGGGCAGGAAGAACAGGAATGGCTTACTCTCTAGTAGCCAATGATGAGATGGCACACATGTTGGATCTTCATTTGTTTCTTGGTCGACCACTGAAAGTAGCGACTAAAGACTCAACCAGTGATGAAGCTGGTTTGTTTGGTAGCGTACCACAAAGAATTGTGGACGAAGAAGAAGATTTTTTACGAAGTGCACATCAACAGTCGCATGACCTGGTGTCTTTACAAAATGTCTATACAAACGCTTACAAACAGTATATACGGTCAAGACCCATTGCATCTTCAGAGTCAGTTAAACGATCCAAAGAGCTTGTTCTATCCACTATAGCTGTACATCCAGTTCTAGGATCAGCAGACGATCAGTCAACGATAACACAAGCACAGCTTTTGGATGGTGTACGGAACTTTAAAGCTCGACAGACGATCTTTGAAGTGGGACCAACTTCTAAATCATCAGGGCATCAAGTAATGAAGCGAAAACGACAGAGACATGGCAACGTCATTAAAAAAGCAAAACAAAGAAAACTCGACCAAGAATTACAGGACACTGTAAAGAATGATGGAGAGTCTACTGTGAAAGATGGTGAAATGGCAGACGATAATGATGTACAAGGTTTATTTACAACTATTATTGATTCCACTGACAAGAAACGAACTAAACATGGACCATCAAAGAGTTTTAGAGATGAAAACTATATCCCACACCGTTCATCGGACTATTATGCTGAAAAAGGGCTTGGACTTGAATTGAGTAACTTTGAAAAAGAAGCTGCTGGTTCAGTGATCGAAATGAAAGGCGATGATGACGTAACACTACGTAAAACCAAACACATAAAGAAATGGGATCGTAAGAAAAAAAAGTTTATTGGTGCCGATGAAAAGCATAAAAAGAAAATCCGAACAGAAAGTGGTGCACTTATCCCTGCTACCTACAAGAAGGACATCTATAAGAACTGGATCAAAAAAAACAAAATGGACGCACCAGGAGTCAATAGAAACATTGATGAGGATGAGCCAGGAAAACGCGGGAAAAAGGGTAAATTTGGAAAACGAGGATCAGGAAAAGGCGGGAATGCTGGATCCTCGCATTCTGAGATGAAGTCTAAAGAACAGATTTTCAAGGCGAGGAAGGCCAAAGACAAGCTAATGCAAAAACAGAAAATGGGAAAGCAAAAGAACCAGAGAAGAAAAATGACGAAAGACAAATAA

Transcript

gene23976.t1

CAAAAACCAATATGGCGGACGAAAATACTCTGAAAACACGTTTTATTTAGTCATTTGTAACGGAGTTTTTCACCCGATATCAAAACACGTCAGTCTTCTCTATAAGTTAAAAGTAAGCTATATTATCGAAGTTTCATTTCTAGGAATCATTTACTAAAGTTTTGCTAAAGTTCGTCGCCAACAATGGCGAAAAAGAAGGGTTTTCAGAAACCAAGTCAGGCTAAGTCAAAAGGCAAGAATAATCCTCTCTACAAACGAAAGAAAAAGGACAAAGAAGAGGAGGAATTAGAAGTTGTAGAGGTGAAAGACTTTGTGGAGGAAGAAGATCATGATGATGATGATGATGATGCTGCTATGGATAATACCGAAATTAGAAAAATGGTTTCACAACAAAAGAAAAAGAAAAAGAAATCGGGAGGTTTTCAGTCCATGGGTCTCAGTTCTCCTGTATATAAAGGTGTCATGAAGAAAGGTTATAAAATTCCAACTCCGATTCAAAGAAAGGCTATACCTGTTGTAATGGATGGCAAAGATGTGGTTGCTATGGCAAGAACAGGATCTGGCAAGACTGCTGCCTTTCTGATTCCTATGTTTGAAAAACTCCTGTCACATTCTGCAAAGACTGGCGCAAGAGCTCTAATTCTTTCTCCAACTAGAGAATTGGCTTTGCAGACCCTTAAATTCGTCAAAGAGCTTGGTCGTTTCACTGGAATTCGTTCTGCTGTGGTTCTTGGTGGTGACAGCTTTGAGAGTCAGTTTTCTGCCATACACAAGAATCCTGATGTTATTGTTGCAACTCCTGGTCGTTTCTTACATGTCATCACAGAGATGGACCTAAAGTTGTCATCAGTGGAGTATGTTGTATTTGATGAGGCTGATAGGCTGTTTGAGTTGGGATTTGCTGAGCAACTACATGAAATTATCCACAAACTGCCTGATGCCAGGCAAACCCTTCTATTCTCTGCAACATTGCCAAGACTTCTAGTGGACTTGGCGAAGGCTGGTTTAACAGACCCTGTACTCATCCGACTTGATGTCGACTCAAAAATAAGTGATCAGTTAAAGATGGCATTTCTTCACTGCCGTGCTAATGATAAACAAGCTATTCTGTTACATTTGCTTCAAAATGTCATCCTTCCCACTGAACAAACTCTGGTGTTTGCAGCAACTAAACATCATGTGGAGTATTTAAAAGAGCTTCTTCATGCAAATGGAATCACATGTTCACATGTCTACAGTTCACTGGACCAAACAGCTCGTACCATAAATGTGAGCAAGTTTCAAAACAGGAAGACCAAGGTGATGGTAGTAACAGATGTAGCGGCACGTGGAATTGACATCCCAATGCTGGATAACGTCATCAATTTCCATTTTCCTTCCAAATCCAAACTCTTTGTTCACAGAGTAGGGCGTGTTGCAAGGGCAGGAAGAACAGGAATGGCTTACTCTCTAGTAGCCAATGATGAGATGGCACACATGTTGGATCTTCATTTGTTTCTTGGTCGACCACTGAAAGTAGCGACTAAAGACTCAACCAGTGATGAAGCTGGTTTGTTTGGTAGCGTACCACAAAGAATTGTGGACGAAGAAGAAGATTTTTTACGAAGTGCACATCAACAGTCGCATGACCTGGTGTCTTTACAAAATGTCTATACAAACGCTTACAAACAGTATATACGGTCAAGACCCATTGCATCTTCAGAGTCAGTTAAACGATCCAAAGAGCTTGTTCTATCCACTATAGCTGTACATCCAGTTCTAGGATCAGCAGACGATCAGTCAACGATAACACAAGCACAGCTTTTGGATGGTGTACGGAACTTTAAAGCTCGACAGACGATCTTTGAAGTGGGACCAACTTCTAAATCATCAGGGCATCAAGTAATGAAGCGAAAACGACAGAGACATGGCAACGTCATTAAAAAAGCAAAACAAAGAAAACTCGACCAAGAATTACAGGACACTGTAAAGAATGATGGAGAGTCTACTGTGAAAGATGGTGAAATGGCAGACGATAATGATGTACAAGGTTTATTTACAACTATTATTGATTCCACTGACAAGAAACGAACTAAACATGGACCATCAAAGAGTTTTAGAGATGAAAACTATATCCCACACCGTTCATCGGACTATTATGCTGAAAAAGGGCTTGGACTTGAATTGAGTAACTTTGAAAAAGAAGCTGCTGGTTCAGTGATCGAAATGAAAGGCGATGATGACGTAACACTACGTAAAACCAAACACATAAAGAAATGGGATCGTAAGAAAAAAAAGTTTATTGGTGCCGATGAAAAGCATAAAAAGAAAATCCGAACAGAAAGTGGTGCACTTATCCCTGCTACCTACAAGAAGGACATCTATAAGAACTGGATCAAAAAAAACAAAATGGACGCACCAGGAGTCAATAGAAACATTGATGAGGATGAGCCAGGAAAACGCGGGAAAAAGGGTAAATTTGGAAAACGAGGATCAGGAAAAGGCGGGAATGCTGGATCCTCGCATTCTGAGATGAAGTCTAAAGAACAGATTTTCAAGGCGAGGAAGGCCAAAGACAAGCTAATGCAAAAACAGAAAATGGGAAAGCAAAAGAACCAGAGAAGAAAAATGACGAAAGACAAATAAAATTGTGCTTTTTTTATTTCTGAAATAACCCATTTCTTATTAATTTGAAATTGGCTACCTACTTTTTGAAAGTTCTTGGTCCTTTGTGGACTTTGGATTGGTAAGGTAAGACCAGAGGGTCCATCATCATTACAGTACGACCTAAAACATCTTGTCTGGTTGGAAAATAGGTGCACAATAAGCCAGTTCACGCTGTCGGCGGCCATTTTGAATTGGGACAAACGTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8K4L0	ATP-dependent RNA helicase DDX54 OS=Mus musculus OX=10090 GN=Ddx54 PE=1 SV=1
Q8TDD1	ATP-dependent RNA helicase DDX54 OS=Homo sapiens OX=9606 GN=DDX54 PE=1 SV=2
A2YV85	DEAD-box ATP-dependent RNA helicase 29 OS=Oryza sativa subsp. indica OX=39946 GN=OsI_028228 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003623 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08147 all species →	DBP10CT	DBP10CT (NUC160) domain	Domain	Interproscan
PF00270 all species →	DEAD	DEAD/DEAH box helicase	Domain	Interproscan
PF00271 all species →	Helicase_C	Helicase conserved C-terminal domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR014014 all species →	Domain	RNA helicase, DEAD-box type, Q motif	Interproscan
IPR027417 all species →	Homologous_superfamily	P-loop containing nucleoside triphosphate hydrolase	Interproscan
IPR012541 all species →	Domain	DBP10, C-terminal	Interproscan
IPR014001 all species →	Domain	Helicase superfamily 1/2, ATP-binding domain	Interproscan
IPR000629 all species →	Conserved_site	ATP-dependent RNA helicase DEAD-box, conserved site	Interproscan
IPR050079 all species →	Family	DEAD box RNA helicase	Interproscan
IPR001650 all species →	Domain	Helicase, C-terminal domain-like	Interproscan
IPR011545 all species →	Domain	DEAD/DEAH box helicase domain	Interproscan
IPR033517 all species →	Domain	DDX54/DBP10 family, DEAD-box helicase domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR47959 all species →	ATP-DEPENDENT RNA HELICASE RHLE-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003724 all species →	Molecular Function	RNA helicase activity	Interproscan
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0005524 all species →	Molecular Function	ATP binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	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
K14808	DDX54, DBP10; ATP-dependent RNA helicase DDX54/DBP10	EC:5.6.2.7	Ribosome biogenesis	ko03009	deepkoala

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