Gene detail

Detailed information of gene01965.t1 in Actinoscyphia liui

Genomic Location: chr1:31030581...31037530
NR annotation: XP_020910786.1, protein LSM14 homolog B [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gene01965.t1

GTAGTTTTCACTAGAGGTGTCTGAAAAGGTTTAGAATCTGGGCCATCCTTGGCCATCCTGCTCTCTGTTTAATATTTTGTCGTAAATATGAGTGGTGCAGATACTCCGTTTATAGGTAGTACCATTAGTTTGGTTTCTAATGCGGGAATACGGTACGAGGGTACACTATTTTGCATAGACACCAAAGAATCAACAGTGACGCTTGCCCATGTCCAATCTTTCGGAACCGAAAACCGAGAAGTCGAAAAGAAAGTTGCTGCTCGTCCAGATATCTATGAATACATAGTGTTCAGAGGGAAAGACATCAAAGATTTGACCGTAAAAAAATCGGGACCGGAAATACAAGTACAAGTACAAGACCCAGCAATTATTAAATCGGCAACAGTGGGCAGTACTCCAAGCCTACCACCTTACTCATCACCATACCAGACACCAGGAGTATTCAGTCCGTTTGGAGGACTACCTTATGGCAACTACCCTGTAGGATATCAGCCACCGACGCAGCAGTTCCAAGACAACCGTATGCCATCCATGCCACCTCGTGTCCCTGGCATCCAACCTGGTTTATTACCACACATCCCTACCCCTCCCATACTTGGTACAGGATTGTCAAGGACTAGTACCCCCTCCCCTGACATGTTGAACAAATCAGAAGTGAAGACTCAAGAGACGCAGACTAGGATGACTACACAGCAGTCGACACAAACTCCCAAAAAGAAGCCATCGTCAAGAAGGGGCTCTGTGGATAAGACACAGGAAAAAGAAAACAAAAACCCTGACCAGCCCAACCAAGATAAGAGTGAAGGGAGACCTAAGCAGGAGAGAAAGCCTTCAAGTGAGAACAAGCCTAGAGGAGGAAATCGCAGGGGAAGAAGAGGAGGCTACAGAGGCCCCCGAAAGGACTCGCTACCTAAAGAATTTGAGAATGATTATGACTTTCAAAGTGCTAATGCTCAGTTTAAGAAGGAGGAAATTGAAGAGGAGTTACAGAAGAAGCTTGGACTTGTGTCTATTAATGATGAGGTTGAGGTAGAAGGAGAAGAATGTGCAGCGGTCAACAATGTAGATCCTTTCTATGATAGAGGATCCTCATTCTTTGACACCATATCATGTGAAGCAGTTGACAGAGAAAAGAACAGGAGGAGCCATCCTTCCTGGCAAGAAGAAAGAAAGATCAACACAGAAACATTTGGAACTTCTGGATACCGTCGTGGCAGAGGAGGAAGAGGTCGTGGGCGTGGCAATTACAGAGGTCGTGGAGGTGGTAGAGGAGGTTACAGAGGCCGTGGTGGCTGGCGTGGTGGTAGAGGCGGAAGGGGAGGTTATAGAGGTAGTGCAAGCAGGGACTGGGTTGATTATCCATTGGATGCTGACACTTCAAAACTGCAGCAGAACTTACCTAGTGGAGGGACACCAGCTTCTCCGAGTCAAGCACCAGTACAAGCTTAATAAAGACTTGAGTCCATGGAGCTGTCTGTTGACAAAATTATAACCTGCAGTCTGGCTGCTTGTTGTTCTTGGAAATATATTTTCATGTTTGGTGTTGAAGAGCAAGGAGTAGCTCTAAATTTTTGCAATAGTACATGTATAATAATAATATTTTGTAAGACCACAATCTATTTTGTAGGAGTTATATTCATCACTACAGTATCAAATAATTTATGATCTGCCCTGTGTAGGCAGAGAAGAAGTACAAGATGGTCAAATTGTTCACATATCATTTCCCTTACTCAGTAAATGTAGTAATATTTGAAGGCATTATAAGTTGTAGCAAGTCGTCGTGAAATTCAAATTACAAACTAAGATACTTATGTGTACAATATACAGTGTATAGATTATTTAAGATGAGAAATGCCAATATACTCTACAGCTATTAATGGTTATTGCAAATCTACACTGCTCTAAGATTTCTGTTAGCATATTATTGAATTACATTTTGATCACTCAAGGAATAATAAATTTAGATTGGAACAAGTTACTGTGATCTCTGTTTTTATTGGAATAGTATTTCATGATGTCTTATCCTAGGTGCCAGGGGTTTATCGTTCTCGCTCAGGTAATCATTTAGTTAAATACTTTACTACAGGAGCAAAATAGAACCTCTGAAGCCTAGGATAACGATGTTTACACTTTACACAGGCTCTCTGAGGTTGATTGCATGATACTAATACCAGTTGCATTTCAGAATAAATTCATTCCTATAGACCACATTCGATATCTCAAATATTCTGCTTGATACTGAACCTCTGGAATAAAACAAAAGATGTGATGTCTTGCCTCGAGAGAATTGGAAGGTATTTCTTTTATTATATTCCCCAGGTCCCGGTTGCATGAAAGGTAGATAGACTGCTATCCGTTGGATAAATCCTCATCCATTGTATAAATCCTTATCCAGTGGATAAATGTATTGGATAACAGCATCATTTTATCCACTGGATAAGGATTTATCCAATGGATAGCGCTATCCAGAGCCTCTGTATCAGACAAGTAGAATATTTGAGATATCAAAAGAGGACTATTCCCATAAATTCCTATGTATGATATTTTACACAGGGTGTTTTGCCAGGAAAATAGTCTGCCAGCCAAGAATGTAATTTTTGAATCAGCTAAATCTTACCCTGAGGGAGTGACTTCATTCCAGTATCATGTAACAGGCACCCAAAACCTTTGAACTACAAACTATTTCAAAATAGAAATGCCACTCAAGACATAAGTAGGCTTTAAATGGAAACTAGCAAGTAAACTAGTATGGGCTGAGTCAGTGTGTAATGATACAAGATGGGTAAAAGGAAAACTGTAACCCGTGTGAAAAATAGTACTTAAAGGACCCGATAATGTCGTAGACTTTAGATTGCAAACAAACCCATGAAAAACTATTAATTAAAATATCACTAAGGCCTAGGTTGAATGTTGATCTTAATAGGTTTGCTTCGTGAAGTTCGACATTTGACCTGGGTCTATAAAGTGGTGCAAAATCCTTTGTTTTCTGTTGTTATTACTTTCTTCCAAGGTTATTGTCTGCACCGTAATTCCATTGGTAGCCGGGCAGTCCCCCTCCTCCCTCCTCCCTCCTCCAGGGCCAGCTACGCAGTCTATTCCATTGATTTCTATTGTGTCTGCTTGACTAGGGCACATTTCACATGACTGGGAAATGGTTACAATACGGTCCGTGCTGTGACCTTGCCAGTAGTATATATCTGAACATGCCGATTGGATAAGCAGTGATTTTGTTGAATAGATGACATTGATTCCATACAGTGACTGTAACTTTGTGTCATAGGTTTCCCACTCATAAGAAAACGACTATTACACACTAACTAGTAGTTCTATTTCGTGGGTAAGTGCCATCGCTGTGTAGAGGATTGTGTCAAATGTTGAAATTCACCAAGCTGAACTAAAAAAATAATCAAGCAACATTCTCTGATCTAATGTTGGCTCCTATAAATTTTAGCATTTGACCAAGGTCTAAGTTGGGTATTTCTGTGGCCAACTAATCTGTGAGTGGTTTTACATACAAATGTTTGTGACTATAATGGGTTTGTGAAGTTGTTGCCAGAGGTGGAATATGGCACTTGCTTCAGCTGTTTTTACTCTATCAGTACTAAAATAGTTTCCTAATACAGGCCATTTATGATGATTCCTGCCTGGATTCCTCTGTCATATTTACAGTGTGCCATCTTCATATGAAGATTACCCATTTACACCTGCAACTAAACATCTTTAATTAAACTGTTTAAATTTTTGTAAAAATATTTTGAACTTTGTGGCAGCAATTTTGTGTTTAGCTTCACAGAGTTAACATCTACCAAACACAGGCCGTGTTTAGACTAGAGCATTTACCTAAGTTTAGTTATATTTTGCTTGACTGGGATTGGTTAGGTTATATTTTGCTTGACTGGGATTGGTTAGGTTACTCTTCAACCTCAGTTAAATACTCTAGTCTAAACACAGCCACACATGGTTTAGAGCCAGCTAGTATGCAGCGTGATTGAATAGAATATTAAACTGGTTAAGTTAAACAACTTTTAAACATGTTTAGTTGCAGGTGTGAATGGGTATTTAGTCACAAACTTGAAGGATACTAGTTTTATGTTAAAAAAAAATTAAAATATTCTGTTCATTGTGTCTCTCCAATAAAGCTTTGTATCCTCTGTAGCAATTCTCGTTTAACTTCATCTGGTACTAGTG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6NVR8	Protein LSM14 homolog A OS=Xenopus tropicalis OX=8364 GN=lsm14a PE=2 SV=1
Q566L7	Protein LSM14 homolog B OS=Xenopus tropicalis OX=8364 GN=lsm14b PE=2 SV=1
Q8CGC4	Protein LSM14 homolog B OS=Mus musculus OX=10090 GN=Lsm14b PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007671 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF09532 all species →	FDF	FDF domain	Domain	Interproscan
PF12701 all species →	LSM14	Scd6-like Sm domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR047575 all species →	Domain	Sm domain	Interproscan
IPR025609 all species →	Domain	Lsm14-like, N-terminal	Interproscan
IPR025768 all species →	Domain	TFG box	Interproscan
IPR025762 all species →	Domain	DFDF domain	Interproscan
IPR010920 all species →	Homologous_superfamily	LSM domain superfamily	Interproscan
IPR019050 all species →	Domain	FDF domain	Interproscan
IPR025761 all species →	Domain	FFD box	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13586 all species →	SCD6 PROTEIN-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0000932 all species →	Cellular Component	P-body	Interproscan
GO:0003729 all species →	Molecular Function	mRNA binding	Interproscan
GO:0033962 all species →	Biological Process	P-body assembly	Interproscan
GO:0034063 all species →	Biological Process	stress granule assembly	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
K18749	LSM14, RAP55, SCD6; protein LSM14	-	Messenger RNA biogenesis	ko03019	deepkoala

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