Gene detail

Detailed information of evm.model.Ap14.1635 in Astrangia poculata

Genomic Location: Ap14:17738803...17764418
NR annotation: XP_022785243.1, lysine-specific demethylase 4A-like isoform X1 [Stylophora pistillata]
Species abbreviation APOCU · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap14.1635

atggcttcggaggggaataaaatcatggtgtttcgtccaactttatccgagttttccaacttccctgcatatatccgtaagatggaagaaatgggcgctcatcgagccggtgtagcgaaggttatacctccaaaggaatgggttcctcggaaaagttatgaagatatagatataacaattcctgctccaatacttcaagttgttaccggaacgcaaggacttttccagttgtttaatgtgcagaagaaggcaatgtcctttagtgaattcaagaaacttgccaacagtgagaggcataaacctcctacaggagatcctgatgagattgaaagaaagtactggaaaaatgtcacatttaacaacccaatttatgcagctgatatcccaggcactatttatgacaaggatgtcaatgaatggaacattggacggctaggaacaattcttgacttgatagaggacaactatggagttcatattgagggagtgaacacaccatatctttactttggtatgtggaaagccacgtttgcctggcacactgaagacatggacctgtacagtattaactatttacattttggagctcctaaaacatggtatgctattcctcctgagcacggccagcgtttggaaagacttgcttctgggttttttcctggaagtttccaaagctgctcccaatttcttagacataaaatgaccatcatctcccctcaagtactgcggaagttttctattccttatgataagatcactcaggaagccggtgaattcatgattacttttccttatggctaccattgtggttttaacaatgggtttaactgtgctgaatcaacaaattttgcttcagaaaggtggattgactttggaaagagagcacaagtgtgtatgtgtaaaaaagacactgtcaagatctgtatggatgtgtttgtcaagacatttcagcctgaccagtgggaagagtatcaaaaatccaaacacaaagacagcagtgacagtgatgaggaggaagacgaggacgaggaaggaaatcagaggaagaaaggtgacaaggaaaaaacgaaaaggaaacagaaagccaagtctcagggaattgatattgatgaggatatacctctcgccaagttgaaggatacattagcaaggaaatctttagagccgcgaaagtcagcagggaagcgacagccagtgattacaaaatcctttacagttcccagcagtgcaggcagacgaaagaaaatggaagaaaccaaaaaaggaaaaggtcgtaaacatcttgaggccaaagtcagtacatcaaataaaatcctcttgagcgttctcgacgggctgtggcagcatcagctaccaaattttgaactagaacaggctttcaatattgtctcatcacaacttgagcctcactgttctgtatgtagcttcttctctaaatcagaggatgatctgttagtacaccttcgtgaaaatcttcgccgaccactgtccagtctaaccgcagactcatctgatgtaactaacaaggtgtctgtacccagagtaccagagatctgtttcatgtcggacgactccagtcctgagagtatgagctcatggctagataacaaatttactgcggacaccgcaagtcctctcctgcgatgtgaatcatgcaaactgcttgtccatgcaagttgttatggagtaagcagtgccctgagcgatggccattggaaatgtcaacgatgtcaacaagaggatcaaaaggcagttgaaagtagttattgttcattatgcagattagggggaggtgccttgaagaagagtacaaataacagatgggttcatataggttgtgctgtggccatgcctgaagttttctttgtagacgtaaatcttagagaaggaattaacacagatcaaatcacatcagcgaggaaaaaacttaaatgtttctactgtcgatcaacgaccagcggtaaggataataacggcgcatgcgtacagtgttgtgctggaaagtgcgcagtctcctttcacgtcacatgcttagtcttggccgggtttgcactggaaccgagtgactggccacagccaacagaaaccttctgtgaaagacaccaaagaacaagatttaaaggaaaacagcgcgacttttccgtgattcattctggtgaatccgttgttgccaagcacaagaatggaagatattaccgtggtgtggtgctggacaccacatcagaggaatattacgtggtttcctttgatgacggctcgtactgtgataatttgccgccaacggacattgttagccatgatagcacaagaggcgatcttcctgtgggaaccgtcgttcaagtcaaatggggtgaagacgaggaactgtttaaggccagagtcaccggccgaagaataagcgttacctatcagattgaattcgaggacgactcctggttgagtgttcgcagggaggatgtatacaaagctaacgaagaacttcctctgaacgtacaacaacgactgtctacagccacagagagagccaatctgtcatactgggacgacatccctgaccacagtgccaagcgaccgaggagacaaaatccacgtttcctataa

Transcript

evm.model.Ap14.1635

ATGGCTTCGGAGGGGAATAAAATCATGGTGTTTCGTCCAACTTTATCCGAGTTTTCCAACTTCCCTGCATATATCCGTAAGATGGAAGAAATGGGCGCTCATCGAGCCGGTGTAGCGAAGGTTATACCTCCAAAGGAATGGGTTCCTCGGAAAAGTTATGAAGATATAGATATAACAATTCCTGCTCCAATACTTCAAGTTGTTACCGGAACGCAAGGACTTTTCCAGTTGTTTAATGTGCAGAAGAAGGCAATGTCCTTTAGTGAATTCAAGAAACTTGCCAACAGTGAGAGGCATAAACCTCCTACAGGAGATCCTGATGAGATTGAAAGAAAGTACTGGAAAAATGTCACATTTAACAACCCAATTTATGCAGCTGATATCCCAGGCACTATTTATGACAAGGATGTCAATGAATGGAACATTGGACGGCTAGGAACAATTCTTGACTTGATAGAGGACAACTATGGAGTTCATATTGAGGGAGTGAACACACCATATCTTTACTTTGGTATGTGGAAAGCCACGTTTGCCTGGCACACTGAAGACATGGACCTGTACAGTATTAACTATTTACATTTTGGAGCTCCTAAAACATGGTATGCTATTCCTCCTGAGCACGGCCAGCGTTTGGAAAGACTTGCTTCTGGGTTTTTTCCTGGAAGTTTCCAAAGCTGCTCCCAATTTCTTAGACATAAAATGACCATCATCTCCCCTCAAGTACTGCGGAAGTTTTCTATTCCTTATGATAAGATCACTCAGGAAGCCGGTGAATTCATGATTACTTTTCCTTATGGCTACCATTGTGGTTTTAACAATGGGTTTAACTGTGCTGAATCAACAAATTTTGCTTCAGAAAGGTGGATTGACTTTGGAAAGAGAGCACAAGTGTGTATGTGTAAAAAAGACACTGTCAAGATCTGTATGGATGTGTTTGTCAAGACATTTCAGCCTGACCAGTGGGAAGAGTATCAAAAATCCAAACACAAAGACAGCAGTGACAGTGATGAGGAGGAAGACGAGGACGAGGAAGGAAATCAGAGGAAGAAAGGTGACAAGGAAAAAACGAAAAGGAAACAGAAAGCCAAGTCTCAGGGAATTGATATTGATGAGGATATACCTCTCGCCAAGTTGAAGGATACATTAGCAAGGAAATCTTTAGAGCCGCGAAAGTCAGCAGGGAAGCGACAGCCAGTGATTACAAAATCCTTTACAGTTCCCAGCAGTGCAGGCAGACGAAAGAAAATGGAAGAAACCAAAAAAGGAAAAGGTCGTAAACATCTTGAGGCCAAAGTCAGTACATCAAATAAAATCCTCTTGAGCGTTCTCGACGGGCTGTGGCAGCATCAGCTACCAAATTTTGAACTAGAACAGGCTTTCAATATTGTCTCATCACAACTTGAGCCTCACTGTTCTGTATGTAGCTTCTTCTCTAAATCAGAGGATGATCTGTTAGTACACCTTCGTGAAAATCTTCGCCGACCACTGTCCAGTCTAACCGCAGACTCATCTGATGTAACTAACAAGGTGTCTGTACCCAGAGTACCAGAGATCTGTTTCATGTCGGACGACTCCAGTCCTGAGAGTATGAGCTCATGGCTAGATAACAAATTTACTGCGGACACCGCAAGTCCTCTCCTGCGATGTGAATCATGCAAACTGCTTGTCCATGCAAGTTGTTATGGAGTAAGCAGTGCCCTGAGCGATGGCCATTGGAAATGTCAACGATGTCAACAAGAGGATCAAAAGGCAGTTGAAAGTAGTTATTGTTCATTATGCAGATTAGGGGGAGGTGCCTTGAAGAAGAGTACAAATAACAGATGGGTTCATATAGGTTGTGCTGTGGCCATGCCTGAAGTTTTCTTTGTAGACGTAAATCTTAGAGAAGGAATTAACACAGATCAAATCACATCAGCGAGGAAAAAACTTAAATGTTTCTACTGTCGATCAACGACCAGCGGTAAGGATAATAACGGCGCATGCGTACAGTGTTGTGCTGGAAAGTGCGCAGTCTCCTTTCACGTCACATGCTTAGTCTTGGCCGGGTTTGCACTGGAACCGAGTGACTGGCCACAGCCAACAGAAACCTTCTGTGAAAGACACCAAAGAACAAGATTTAAAGGAAAACAGCGCGACTTTTCCGTGATTCATTCTGGTGAATCCGTTGTTGCCAAGCACAAGAATGGAAGATATTACCGTGGTGTGGTGCTGGACACCACATCAGAGGAATATTACGTGGTTTCCTTTGATGACGGCTCGTACTGTGATAATTTGCCGCCAACGGACATTGTTAGCCATGATAGCACAAGAGGCGATCTTCCTGTGGGAACCGTCGTTCAAGTCAAATGGGGTGAAGACGAGGAACTGTTTAAGGCCAGAGTCACCGGCCGAAGAATAAGCGTTACCTATCAGATTGAATTCGAGGACGACTCCTGGTTGAGTGTTCGCAGGGAGGATGTATACAAAGCTAACGAAGAACTTCCTCTGAACGTACAACAACGACTGTCTACAGCCACAGAGAGAGCCAATCTGTCATACTGGGACGACATCCCTGACCACAGTGCCAAGCGACCGAGGAGACAAAATCCACGTTTCCTATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q8VCD7	Lysine-specific demethylase 4C OS=Mus musculus OX=10090 GN=Kdm4c PE=1 SV=1
O75164	Lysine-specific demethylase 4A OS=Homo sapiens OX=9606 GN=KDM4A PE=1 SV=2
Q8BW72	Lysine-specific demethylase 4A OS=Mus musculus OX=10090 GN=Kdm4a PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006820 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF18104 all species →	Tudor_2	Jumonji domain-containing protein 2A Tudor domain	Domain	Interproscan
PF13831 all species →	PHD_2	PHD-finger	Family	Interproscan
PF02375 all species →	JmjN	jmjN domain	Family	Interproscan
PF02373 all species →	JmjC	JmjC domain, hydroxylase	Domain	Interproscan
PF13832 all species →	zf-HC5HC2H_2	PHD-zinc-finger like domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003349 all species →	Domain	JmjN domain	Interproscan
IPR040477 all species →	Domain	Lysine-specific demethylase 4-like, Tudor domain	Interproscan
IPR003347 all species →	Domain	JmjC domain	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR002999 all species →	Domain	Tudor domain	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR034732 all species →	Domain	Extended PHD (ePHD) domain	Interproscan
IPR001965 all species →	Domain	Zinc finger, PHD-type	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10694 all species →	LYSINE-SPECIFIC DEMETHYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000785 all species →	Cellular Component	chromatin	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006338 all species →	Biological Process	chromatin remodeling	Interproscan
GO:0010468 all species →	Biological Process	regulation of gene expression	Interproscan
GO:0032452 all species →	Molecular Function	histone demethylase activity	Interproscan
GO:0032454 all species →	Molecular Function	histone H3K9 demethylase activity	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
K06709	KDM4, JMJD2, JHDM3; [histone H3]-trimethyl-L-lysine9/36 demethylase	EC:1.14.11.66 EC:1.14.11.69	Chromosome and associated proteins	ko03036	deepkoala

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