Gene detail

Detailed information of gene09969.t1 in Actinoscyphia liui

Genomic Location: chr3:13613286...13654755
NR annotation: XP_028514487.1, LOW QUALITY PROTEIN: DNA-dependent protein kinase catalytic subunit [Exaiptasia diaphana]
Species Actinoscyphia liui · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

gene09969.t1

ATGGACAAGATTGTTGACAGATTTTCCGCCGTATCGCAATGGTCAGATTCGATGGATTCAGAGGAACAAACTTCTGGTGGGGGTCTAAGAAACGTACAAAATAACATTCAACGACAGAAGGTCTTGCTGCAGCTGAAAGTTGCCGAGACGGCCAAAGAACAGGCAAACTTTTCCGTCGCAATCAAGAATCTTCGTGAAGCATTTACAGTTATCAACGAGGGTCTAAAAGACGATGGTCTCCAGCTGCAATGGACACATGTGTACGCCGATGTGCAACATAAGAAATCACATGTCCTGACCGCTGTTGAATCAGTAGAAACATCGCTAAAAACCATCGGTGAACTTGAAAAGTTTTCCGATAACCAAGAACTGACAAGAAATCCAACGATGGCTTTACGTCACCACATACTTAAAGGCCGTACCTATGACATCATGATCAATGCTATTGATACCGAAGGGGATGGCGTCATCACATCGCTCGATGACCACCAACGTCAGCGTCTGATGTCACTGTGTGTTAAATCTGAGTCTGACTCTTCTGAGCAGATTGTAAGTCAATTGATGATTCATTCCTTCAAATCCTTACAAAGTGCTATTAAGTCAGCAAAGACCATCGAGGACAGAGAAAAGAATGGAGATTCCAGTTCTTCTATGGTGGAAGCCATGATGGCCATGGTCAAGTTTTGTGATTCCGCGTTACGAAAACGAGAAGACGATGCAGAAAATGCTCCTGAGATTGATGTGAAGCTTTTCCCTGGAATTGTAGTTCGCTACGTACTTAAAGCAATGACGTACTGTTCGGAAGAAGCTCGCCAAAGATTTCCTCGCCTGCTGCAACTTGTGGAAATTTACCCAGATACTCTTGAACCCTTCAGAAACAAGGCATCAGTTGTGCCTTGCTGGGTGTTCATTGGTTGGATTAATCAAATGGTTGCCTTGATGGACAAGAAGGAAGGCCTTGCTGTGCATGGCATCTTGAATGAAATAGCAACCACCTATCCACAGGCCCTGTGCTTCCCCTTTAAGATTAGTAGTGAGCAGTTCATCTTTGACAACACCAAAGAAGGCAAAGCAAATAAGGACGCTGTGGACAGATTGCGCTCTCTCCTAGAGAATCCTCTAGTTGATGATTTCATATTTGCTCTGGAGCATCTACAAAACCCAGAAATGGCCGCGAAGGACTGGTCTGACCAAATGAAATCTCTTCTGGGAGAAAAACAAAAAAGTGGAGTAAAGACTGATGTCAAAGAGAACTACCTTGAAATGTACAAGAGGTTACTGGATCTGAAAGGACAGAGGGGGAGAGGGTTGACGACCAGTGGGCACGAGCTGGGACCATACAGGCGCAGGTTTGCTCAGAAATTTGCAAAAGAGTTCGAGAAGAATTTCGGTAAAGACGGCGCCAAGCTGCAAAGCATGACGGTCAAGAAATTCGACGATGTTTGGAAGTCGCTCTATACTCAATTAGTTAACAAAGAGGAAAAGCCACCTGGAAATCTAAAAGAATATTCTGCATGGCTTGCTAACTTCCAGTCAAGTAACGATACTCAGAAACTTGAAATACCAGGACAGTACACAGGACGCTCTAAACCACTTCCCGAGTATCATGTCAAGATTGCAGGGTTCGACGAAAGGGTTTTAACTCTGCCGTCGCTTCGTCGTCCAAAGAGAATTACCATACGTGGACATGACGAGAAGGACCACATGTTTTTAGTGAAGGGAGGTGAAGACTTGCGACTCGATCAGCGTATTGAACAGCTGTTTTATATGATGAATGACATCTTAACCGCCGACTCAGCCTGCAAACAACGTAATCTGCGCCTGCGCACTTATCAAGTCATCCCCATGACTCCTCGTGTTGGTTTGATAGAGTGGATGTTGAATACCAAACCACTGAAGGGAGTTATATCTGGAGCCATGACTCCAACTGAGTTGCAACAGAATGCTAAAATGTCTGAATTGCAAGAAAGATGGATTAAAAATTATTGTTCCAATCCACAAGAACAGGCCAACATTACATTGAAATATGGAGCACTTTACAGCAAAGCCAGCCGCACTGAAACAGAAACGAAATTCGTGAAACAACAGGGACTTGTTCCATGGAATGTCTTAAGGCGAGCCTTTGAGCAGCTGTCAGCGTCCCCTGAGGCGTTCCTGATGCTCCGTACACACTTTGCCCGTACGCATGCGTGCCTCTGTATCTGTCAATACTTGCTGGGGATCGGTGATCGTCATTTATCAAACTTCATGATTGATACTGTTACTGGAGGTATGGTGGGGATCGACTTTGGTCACGCCTTTGGTTCTGCAACTCAGTTCCTGCCCGTTCCAGAGCTTATGCCGTTTCGTTTGACCCGTCAAATCGTCAACCTTCTTCTACCGTTGAAAGAGACGGGTTTGTTACGTAGCACTATGATTCACACGTTACGCGCTCTACAAGAAAACCACGAGTTACTACTCAACACCATGGACGTCTTTGTCAAGGAACCTTCACTGGACTGGAAGGAATTTGCTCATAAGCAAGCCCGTGCTCAAGGAATGAAAGAAGACGATGACAAAGACATTGCATGGTACCCTCGTGAGAAAGTGAACACAGCAAGAAAGAAGTGTCTAGGCGCCAACCCTGCTTACATTACCAGGGACGATATTCGTCTTGGTCACAAGACAAGGAAATGGATCAAAGAGATGGAAAATGTCTGTCTTGGTGACAAGAGAGTCAATATTCGTGCACAGCAGCCGGAGAAGGGTTTATCTGTAGAGACTCAGATTGATTGTCTTATCGACCAAGCTACGGATCCAAATATTCTTGGAAGAACATATTGTGGATGGGAACCTTGGATGTAA

Transcript

gene09969.t1

GTTAATTCAACTTGGCAAATGAAGGAAGGTTTATTGAAAGAGAAAGAAATATTGCAAACCTACATCACAGAGCAGTCCATCAGAGACAACAAAAGTGTTTCTGTCAGGTCTTCAGGACTAGTAGTAAGCAGTGATTGTGGATTTCTTGGTGCAAGCCCAGATGGTATTGTCACAGATCCTTCATGTGAAGAACCAGAAGGTCTTATTGAAATGAAGTTTATTCAAACTAATGATCAGGAATTATTAACAGATGCCCTTCTTCGAAAAAGAATTTGTGTCAAAGCAGACGACACCAATAGTTTAACTATTAACTCAAAACACCAGTACTTTTATCAGGTTCAGCAGTCTATGTTTGTTACTCATAAGAAATGGACTGACTTTGTTGTTATGGCCTCCCAGTCTCCTGGCATTTATATTGAACGTGTAAGATTTAATAGAGGTCGTTGGGAAGAAATTCACATAAAACTAGAGAATTTTTTTGACAGCTTCATTCTACCAGAGTTAGCTTACCCTAGAATTAAGTATGGTTTACCTAGGACAATTTAGAATGTCTTGTAAAGGGGGTGGTCACATATTGGAAATGCATGTCTATAATATTTAAATTCATTTCTGTCCTTCATTAAACCCTTGCTATTGTCATTGAAGTAGAGTACTAACTAGTAGAGTACTAACTAGTGATAAATAATATCTCTTTTCTGTCATTATTACTGCAGCTTTTATTTATTGTAAACAAAATAATGTAGTTGAGTTGAGTGTTTATACATGTACATGTATAATATTATTATTTATCTAACAGTTTGGATAGATGAAATACTAATAAACAACTATATTACAGTATATCCAGTTTTGAAATTTTATTCATATTTCTATTTTGCCAGAGTGATTTTATTTAATCCATGAAGAAAGATATATAGTTAGTGAGTAACAGTTAAACACAGATAAAAAGAAAACAATGGAATAAGTTTCTGCTACTAACTATTAAGCATTTATCAATGTTAAGCCAGAGGGGGGTCGGGCAGATGTGTGAAAATTGACAGACTTTTTTGTGGATTTTTGTTCAAATACCCCACCCTGGGGAATGGGAAATAAGTCAAATTTCCCCATTCCTGGCAACTAAAACAACTGAAATGGGGCAAAACTTGAGATCAAATTCCTCCGGCTTAACATTGATACATGCATTACAAGTACTTTTCACAGTTAGATAAAACCACTCTATTCATACAATTTTATGAAATTACATGAGGTAAACTAATCTTGATGGCCTCAATCTATACATTACTTAATCAAAGGTGGTAGAAAATTTGACAAGGCACATATTACAATAACAATATCAGATGCACACGTTGACATTGAAATTGGAATTCTCCTGTCTAATATGTGCCAGTTTTTTATGCGTTCCATTAATCTCTCCACGTGCACTCTAAGACTTGCTATGGCTTTATTCTTATTACTTTCTTCGACAGAAAACTGGGACTTGCCTTTCAGAAATTCTGGCCTAATCAATTCAACACCAATGCTCGCAAGTTCATCTTGAACATTGAAGCCCTTATCAGCCATGACTTGATCTCCACGTTGAACTCTGTCTAAAAACCCACTCATTAGAGTTATTTCCTTGTCTGAGGTACTTCCAGGATACAGTTCACTAACAAATCCAGTAACACCACTGGGTGTTATACCAATCAGGCATTTCATAGTTGGCCTGCTTTTATAGGACGAGTAGCATGCTGACTGTGAATTAAGTGCACTTGGCTTTTCCATCTCAATTTCCGTGCAATCTACAATCACTGAAACATTGGGACAGATCTCCTTGAAAGACTGTGGGCTGTAATATTTGATAATGTCTCTTGGAGGAATTCTTATCAGTGGCTCAAACTCAGATCTTAACAATCTAAGCCATGTCCTAACAATGATTGAAACTGATGCTTCAGATATCAAAAATCTATTAGCTAAGTCTTTTTCCAAAAGGCCAAGTCTCAGTCTCATTAACACCATTACAAACTCTTGAAAGGTTGTAAGACACCTACGTCTGCCAAGTGGTCGAGCATTTTCTTCTGAGTACAGTTTCTCATGAGTACCATAGCTCATAGTTTTTGCTGATTGTTCCACCATGTTATAGCATAATACAAGAGCTTCATAGCTACTGAATCCTGTGTAAAACTCTATGGTTTTGTCATTCTCCTTATATTTTTCAATGTCGAACCTCCAATTCTCCAACTGATATTTTTGGCTTTGAACTGTGAGTGATATTTGTCTGAGTTCCTCTTTCAGTTGAGTGTTTTCGTGTTCAAATTGATCGTTGATTTTCTTTATCTCTTCTCTCAAACTTCTGGCTTCTTTTTCCAATTGCTTAACCTTCATACAAACGGAAGAATACTCTCCGATGTCGACTTGCCCTGGTCGGTCATTAACATTTACAAAGCTACCTTTGTAGACAAATCTACAAACAGTTCGTTTCGAGTCGGATACATGCTCGTCGATCGAGTGTTCAAGGTCTGTTATAATTTCCTGTTCTGTAGTTTCTTTAGTCACTTGTGTTACGTCTTTTCTTACAAGCCTTCTTCTAAATTTCTTAGGGGATGTCCATGGAAAGACACTTGGTAAGTGACTTCGACTGAGCTTTACACCGCCATCCCAGTGAAGCGAGCAAATTCTTGTGTGTACGGAGTCCAATTTCAGTGTCTTGTTCCTGATCAGAGCCACATAAGTCTTTCGGAGTTTAGCATCGACAGGAATACGGTTAAATTTAACATCACCTGGCTTATTTCTATGTGAAATAAGGCAACCCGGAACGCAACAGTTGTATTTCGGCATACTCGTTTGTATACTCATAAATCGCGTCCCTTCAAACAATCCCAAGCGCCTTAGCGAGACTAAACTAGTCCCAATCCCCTGCTCGTTTCTAAAGTCGAGAATTGGCTGAGGTGGTGTACCTTTGGCGTCTACCACCACCACAATTACCGGGGTGACGCATTGCATACCATACTACTTGCGTTTATAGTTTTGCTCATTGTTGTTGCTGTTACTGGTTTTTAAAGATTTCAGAGGGAAACTGTACGATTTTCACTGAATAGGTATAAAGATTTATTATTGTTGTTGTTATTATTATTATTATTATTATTATTATATTTATTTTATATGTCTGTGCCGTGGGTTTCCACCTAAATAAAAAGTCTGGTCGTACTGTAGGGAAGAAGTAATTTTAGTATTCGTGGTAGTGGTTTTATCCTAATAGATCTCTTCTCCTATAGATGTGTGTTTATGGACAAGATTGTTGACAGATTTTCCGCCGTATCGCAATGGTCAGATTCGATGGATTCAGAGGAACAAACTTCTGGTGGGGGTCTAAGAAACGTACAAAATAACATTCAACGACAGAAGGTCTTGCTGCAGCTGAAAGTTGCCGAGACGGCCAAAGAACAGGCAAACTTTTCCGTCGCAATCAAGAATCTTCGTGAAGCATTTACAGTTATCAACGAGGGTCTAAAAGACGATGGTCTCCAGCTGCAATGGACACATGTGTACGCCGATGTGCAACATAAGAAATCACATGTCCTGACCGCTGTTGAATCAGTAGAAACATCGCTAAAAACCATCGGTGAACTTGAAAAGTTTTCCGATAACCAAGAACTGACAAGAAATCCAACGATGGCTTTACGTCACCACATACTTAAAGGCCGTACCTATGACATCATGATCAATGCTATTGATACCGAAGGGGATGGCGTCATCACATCGCTCGATGACCACCAACGTCAGCGTCTGATGTCACTGTGTGTTAAATCTGAGTCTGACTCTTCTGAGCAGATTGTAAGTCAATTGATGATTCATTCCTTCAAATCCTTACAAAGTGCTATTAAGTCAGCAAAGACCATCGAGGACAGAGAAAAGAATGGAGATTCCAGTTCTTCTATGGTGGAAGCCATGATGGCCATGGTCAAGTTTTGTGATTCCGCGTTACGAAAACGAGAAGACGATGCAGAAAATGCTCCTGAGATTGATGTGAAGCTTTTCCCTGGAATTGTAGTTCGCTACGTACTTAAAGCAATGACGTACTGTTCGGAAGAAGCTCGCCAAAGATTTCCTCGCCTGCTGCAACTTGTGGAAATTTACCCAGATACTCTTGAACCCTTCAGAAACAAGGCATCAGTTGTGCCTTGCTGGGTGTTCATTGGTTGGATTAATCAAATGGTTGCCTTGATGGACAAGAAGGAAGGCCTTGCTGTGCATGGCATCTTGAATGAAATAGCAACCACCTATCCACAGGCCCTGTGCTTCCCCTTTAAGATTAGTAGTGAGCAGTTCATCTTTGACAACACCAAAGAAGGCAAAGCAAATAAGGACGCTGTGGACAGATTGCGCTCTCTCCTAGAGAATCCTCTAGTTGATGATTTCATATTTGCTCTGGAGCATCTACAAAACCCAGAAATGGCCGCGAAGGACTGGTCTGACCAAATGAAATCTCTTCTGGGAGAAAAACAAAAAAGTGGAGTAAAGACTGATGTCAAAGAGAACTACCTTGAAATGTACAAGAGGTTACTGGATCTGAAAGGACAGAGGGGGAGAGGGTTGACGACCAGTGGGCACGAGCTGGGACCATACAGGCGCAGGTTTGCTCAGAAATTTGCAAAAGAGTTCGAGAAGAATTTCGGTAAAGACGGCGCCAAGCTGCAAAGCATGACGGTCAAGAAATTCGACGATGTTTGGAAGTCGCTCTATACTCAATTAGTTAACAAAGAGGAAAAGCCACCTGGAAATCTAAAAGAATATTCTGCATGGCTTGCTAACTTCCAGTCAAGTAACGATACTCAGAAACTTGAAATACCAGGACAGTACACAGGACGCTCTAAACCACTTCCCGAGTATCATGTCAAGATTGCAGGGTTCGACGAAAGGGTTTTAACTCTGCCGTCGCTTCGTCGTCCAAAGAGAATTACCATACGTGGACATGACGAGAAGGACCACATGTTTTTAGTGAAGGGAGGTGAAGACTTGCGACTCGATCAGCGTATTGAACAGCTGTTTTATATGATGAATGACATCTTAACCGCCGACTCAGCCTGCAAACAACGTAATCTGCGCCTGCGCACTTATCAAGTCATCCCCATGACTCCTCGTGTTGGTTTGATAGAGTGGATGTTGAATACCAAACCACTGAAGGGAGTTATATCTGGAGCCATGACTCCAACTGAGTTGCAACAGAATGCTAAAATGTCTGAATTGCAAGAAAGATGGATTAAAAATTATTGTTCCAATCCACAAGAACAGGCCAACATTACATTGAAATATGGAGCACTTTACAGCAAAGCCAGCCGCACTGAAACAGAAACGAAATTCGTGAAACAACAGGGACTTGTTCCATGGAATGTCTTAAGGCGAGCCTTTGAGCAGCTGTCAGCGTCCCCTGAGGCGTTCCTGATGCTCCGTACACACTTTGCCCGTACGCATGCGTGCCTCTGTATCTGTCAATACTTGCTGGGGATCGGTGATCGTCATTTATCAAACTTCATGATTGATACTGTTACTGGAGGTATGGTGGGGATCGACTTTGGTCACGCCTTTGGTTCTGCAACTCAGTTCCTGCCCGTTCCAGAGCTTATGCCGTTTCGTTTGACCCGTCAAATCGTCAACCTTCTTCTACCGTTGAAAGAGACGGGTTTGTTACGTAGCACTATGATTCACACGTTACGCGCTCTACAAGAAAACCACGAGTTACTACTCAACACCATGGACGTCTTTGTCAAGGAACCTTCACTGGACTGGAAGGAATTTGCTCATAAGCAAGCCCGTGCTCAAGGAATGAAAGAAGACGATGACAAAGACATTGCATGGTACCCTCGTGAGAAAGTGAACACAGCAAGAAAGAAGTGTCTAGGCGCCAACCCTGCTTACATTACCAGGGACGATATTCGTCTTGGTCACAAGACAAGGAAATGGATCAAAGAGATGGAAAATGTCTGTCTTGGTGACAAGAGAGTCAATATTCGTGCACAGCAGCCGGAGAAGGGTTTATCTGTAGAGACTCAGATTGATTGTCTTATCGACCAAGCTACGGATCCAAATATTCTTGGAAGAACATATTGTGGATGGGAACCTTGGATGTAATAGCAATGTTCGTCTCGTTGGCATTTGATGGCTTTACCTAATTATTAGTTCAATTTCGAAACCCGAACGTCTGTATGTCAAGATAAAAAAGCTTAATCTTCTGTAATGTTAGAGGGCTTATTTCCACCTTTATATTAAATACAAATGTCAAACACAGCAGACTTTGCATAAGAGTTATTCGAATAAACTTGTTCACTACT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P78527	DNA-dependent protein kinase catalytic subunit OS=Homo sapiens OX=9606 GN=PRKDC PE=1 SV=3
Q8WN22	DNA-dependent protein kinase catalytic subunit OS=Canis lupus familiaris OX=9615 GN=PRKDC PE=2 SV=1
Q8QGX4	DNA-dependent protein kinase catalytic subunit OS=Gallus gallus OX=9031 GN=PRKDC PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001501 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00454 all species →	PI3_PI4_kinase	Phosphatidylinositol 3- and 4-kinase	Family	Interproscan
PF02260 all species →	FATC	FATC domain	Family	Interproscan
PF02259 all species →	FAT	FAT domain	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR037706 all species →	Domain	DNA-dependent protein kinase catalytic subunit, catalytic domain	Interproscan
IPR018936 all species →	Conserved_site	Phosphatidylinositol 3/4-kinase, conserved site	Interproscan
IPR000403 all species →	Domain	Phosphatidylinositol 3-/4-kinase, catalytic domain	Interproscan
IPR003152 all species →	Domain	FATC domain	Interproscan
IPR003151 all species →	Domain	PIK-related kinase, FAT	Interproscan
IPR036940 all species →	Homologous_superfamily	Phosphatidylinositol 3-/4-kinase, catalytic domain superfamily	Interproscan
IPR011009 all species →	Homologous_superfamily	Protein kinase-like domain superfamily	Interproscan
IPR050517 all species →	Family	DNA Damage Response and Repair Kinase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11139 all species →	ATAXIA TELANGIECTASIA MUTATED ATM -RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004677 all species →	Molecular Function	DNA-dependent protein kinase activity	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0016301 all species →	Molecular Function	kinase activity	Interproscan
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0000723 all species →	Biological Process	telomere maintenance	Interproscan
GO:0004674 all species →	Molecular Function	protein serine/threonine kinase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	Interproscan
GO:0006468 all species →	Biological Process	protein phosphorylation	Interproscan
GO:0008630 all species →	Biological Process	intrinsic apoptotic signaling pathway in response to DNA damage	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

No KEGG orthology assignment for gene09969.t1.

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

Co-expression network

Genes whose expression across the transcriptome samples of Actinoscyphia liui tracks this one. Counts are over the whole network; the network view itself draws at most 100 partners per query gene (CNIDO_NET_TOP_K), so a hub gene can show fewer edges than the number below.

No co-expression network has been built for this species, so this gene has no partners to show. Networks are available for the species listed on the Network Analysis page.

Single-cell expression

Whether this gene can be visualised in the single-cell atlases of Actinoscyphia liui, and in which cell types it is a marker. Expression is stored per cell, so the violin plot and the cell-type means are computed in the viewer — open a dataset to see them.

No single-cell dataset has been published for this species. The atlases that do exist are listed in the Cell Atlas.

Epigenetic marks

Chromatin and DNA-methylation data covering this gene. Peak calls are listed per sample with the genomic region the peak falls in; DNA methylation is listed as sample availability only, because those tables are queried by the DNA Methylation page itself.

No epigenomic data has been deposited for this species. The assays that exist across the site are described in the Epigenomic Data module.

What you can do with this gene

Every tool below opens with this gene already entered, so you land on the analysis rather than on an empty form. Links open in a new tab.

Analysis	What it does	Status
Primer design	Design PCR / qPCR primers on this gene’s sequence with the published primer3 settings. Opens with the primers already computed.	template found	open →
BLAST	Search this gene’s sequence against the CnidoSite BLAST databases. The query is filled in and the species’ database is preselected — press Run to start.	template found	open →
Expression heatmap	Draw this gene’s expression as a heatmap across all RNA-seq samples, and compare it with the genes you add next to it.	no expression matrix	–
Gene family / orthogroup	Look this gene up in the single-copy orthogroups built from the high-quality cnidarian genomes, and see which other species carry an orthologue.		open →
Gene set analysis	Start a gene-set enrichment analysis with this gene as the seed list. Add more genes on that page before running it.		open →