Gene detail

Detailed information of gene29232.t2 in Actinoscyphia liui

Genomic Location: chr10:9793484...9819761
NR annotation: XP_031567611.1, lysine-specific histone demethylase 1A-like isoform X2 [Actinia tenebrosa]
Species abbreviation ALIUI · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene29232.t2

ATGCCCCGAGTAAAATCACAGAGAAAGCGCAAGAGAGACCAAGCAAGAGCGGCAGCTGCTAAGAAATGGGAAGAAAAAAGAAGTACGAGGGACAATGCCAAGCCGAAGAGAGAAAATGCTAACGGCCAAGACTCAAGATTGCTCGCCCAGAAATTCCTCAATGACGAGGCCTTTGGTAGGAGGACGAGCCAGCGTAAGAGAGCTAAAGTTGAATACACAGAAGTTGACGAGAAGCTTGCAACCTTGACAGATGATGAACTTAGTGATGATGATATAGCCATGAAAACCTTTGAACCACCACCGCCACCACCACCACCACCACCACCTCCTCCAGAACCAAAGCAGGAAGAGATACCAGAAGAAGAGGAAGAAGAGGATGACGATATTCCACAAGGTTTGGAGGGTGCTGCCTTTAGAAGCCGTCTACCATTTGACAAGATGACATCACAGGAGGCTTCCTGCTTCCCAGACATATCTCAGGGTCCACCCCATCTACAAAAACAATTTCTCTATATTAGGAATAGGCTGCTTCAACTATGGCTTGAAAATCCCAAGCAGCAGCTTCACTTTGAGAATTCCATGATGCAGATAGAACCACCACACAATAATGATCCAAGACTTGTTCAAAGAGTCCACGCATTTCTAGAAAGATATGGATCTATTAATTTTGGTGTTTATAAAATGGCGAAACACCCACAGCCATTGAAAAAATCTCCTAAGATAATAGTAGTTGGAGCTGGTATATCTGGTTTGATGGCTGCCCGGCAACTGCAGAGTTTTGGCATAGATGTTACGATTGTTGAATCTAGGGAAAGGGTTGGTGGTCGTGTTGCTACATTTCGTGAAGGACAATTCATTGCAGATTTGGGTGCCATGGTTCTTACTGGACTTGGTGGCAATCCACTGACAGTCCTTGGTCACCAAATAAATATGGAACTCCACAAAATCAAGCAGAAATGTCCTTTGTATGAGACACTTGGAAAACCGGTCATAAGAGATCATACCTGGCAGTTCAAAAACAATGGATCTCAAGCTATTAGGGTACCCAAAGACAAGGATGAGATGGTTGAAAGGGAGTTTAACAGACTTCTAGAAGCAACGTCCTATCTGTCACATCATTTAGATTTTAATTATATGAATGGAAAGCCTGTGTCGCTAGGGCATGCCCTAGAACTAGTTATCAAGTTACAAGAGAAACAAGTCAAAGAACAACAAATAGAACATTCTAAAAAGATTCTTTCTATCCAAGATTTAATGAAAGAAAACCTCGCCAAGATGTTATCTCTACAAGACAAAGGACGACAAACACACAATGAACACCAAGATGCTCTACAGAAAAAGACACAGACAAACTCGGGAACAATGGATGTAACTTCAGAATTCACCATAAAGAGCAAACAGAGAGATTTAAATGCAATCTGTAGAGAATACGATGAGCTTGCTGAAGAACAACAGAGACTTGATGAAAAACTAGAGGAACTAGAAAACAACCCACCAAGTGATGTTTACCTGTCATCAAGAGATCGTCAAATATTAGACTGGCATTTTGCCAATCTTGAATTTGCAAATGCAACGCCGCTTACAGCACTATCACTGAAACACTGGGACCAGGACGACGACTTTGAATTTAGTGGCAGTCACATGACAGTACGGAATGGCTACTCCTGTCTACCAGCAGCACTCGCTGAGTGTCTTGATATTAGATTGAATACTGCAGTCAAACATGTTAGATATAACAGATCAGGAGTTGAAGTAGTCACTCAAAGTACTGGCAAATCATCAATAAACACAACACAGACATTCAAAGGTGATGCTCTTCTAATAACGTTACCTCTTGGAGTACTAAAAGCCCACCCACCTGCTGTACAATTTCACCCAGCGCTGCCTGAATGGAAAATGGCGGCAGTACATAGAATGGGATTTGGGAACTTAAACAAGGTTGTACTATGCTTTGATCGTATCTTCTGGAATCCCAACACTAATCTATTTGGTCATGTTAGTGGAACAACTCAAAACCGTGGTGAGCTGTTCCTGTTCTGGAACCTCTACAGGGCACCAGTCCTTATATCACTAGTCGCAGGGGAAGCAGCAAATAAACTAGAAAATGTTCCTGATGATATCATAGTGGGGCGTGCTGTGGGTGTCCTTAGAGGCATATTTGGAGCTAGCACTGTACCTCAGCCCAAGAAATCGGTAGTAACGAGATGGAAATCAGATGAATGGTCGCATGGCTCGTACTCGTATGTCGCAGCAGGTTCATCAGGAAATGATTACGACTTAATGGCATCACCTGTAGCTCCACCCCCGATGGCAAACATCACGCCGGGTACACCCCAACCACCCAATCCACCACGAGTCTTCTTTGCCGGCGAGCACACCATCAGAAACTACCCTGCAACAGTGCACGGTGCTCTTCTTAGTGGATTACGCGAGGCTGGTCGCATTGCAGATCAATTTTTGGGACTCCCGTACGAAGTTAGAGGTGTGAGTCCACCCATGCAGCAGACTCGGTAG

Transcript

gene29232.t2

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q6ZQ88	Lysine-specific histone demethylase 1A OS=Mus musculus OX=10090 GN=Kdm1a PE=1 SV=2
O60341	Lysine-specific histone demethylase 1A OS=Homo sapiens OX=9606 GN=KDM1A PE=1 SV=2
Q9VW97	Possible lysine-specific histone demethylase 1 OS=Drosophila melanogaster OX=7227 GN=Su(var)3-3 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002920 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF01593 all species →	Amino_oxidase	Flavin containing amine oxidoreductase	Domain	Interproscan
PF04433 all species →	SWIRM	SWIRM domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR007526 all species →	Domain	SWIRM domain	Interproscan
IPR036188 all species →	Homologous_superfamily	FAD/NAD(P)-binding domain superfamily	Interproscan
IPR050281 all species →	Family	Flavin monoamine oxidase and related enzymes	Interproscan
IPR017366 all species →	Family	Lysine-specific histone demethylase	Interproscan
IPR036388 all species →	Homologous_superfamily	Winged helix-like DNA-binding domain superfamily	Interproscan
IPR002937 all species →	Domain	Amine oxidase	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10742 all species →	FLAVIN MONOAMINE OXIDASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000122 all species →	Biological Process	negative regulation of transcription by RNA polymerase II	Interproscan
GO:0003682 all species →	Molecular Function	chromatin binding	Interproscan
GO:0008134 all species →	Molecular Function	transcription factor binding	Interproscan
GO:0016491 all species →	Molecular Function	oxidoreductase activity	Interproscan
GO:0045944 all species →	Biological Process	positive regulation of transcription by RNA polymerase II	Interproscan
GO:0050660 all species →	Molecular Function	flavin adenine dinucleotide binding	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	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
K11450	KDM1A, AOF2, LSD1; [histone H3]-N6,N6-dimethyl-L-lysine4 FAD-dependent demethylase	EC:1.14.99.66	Chromosome and associated proteins	ko03036	deepkoala

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