Gene detail

Detailed information of KAK2553776.1 in Acropora cervicornis

Genomic Location: JARQWQ010000074.1:982031...1003146
NR annotation: XP_029214102.2, polycystic kidney disease protein 1-like 2 [Acropora millepora]
Species Acropora cervicornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

KAK2553776.1

ATGACTGAAAATACTATCGGTTCTGAGGAAAGAAGGGCGGTGCCACCAGCAAATTTGCAAAAAGGAGGCTGGAAGCGACATACAATGTATTGGGAATGTATTGTGATTCTTGCTACTGTTTGTATCTGTAAAGCCAACCAAACCTGTCTCGAAGATTGCACTCACGCTCTTGGTATGGAAAACCACACGATAAGGGACGCCCAAATATTTGGTAGATCTGCGTACAACAGCGATTACTCCATGTACGGCGCTGAGAATGCCAGACTACATAGCTCATGGGGACACAGGTCGGACCCAACTCTCAAAATAAAGGCAAACATTATAGGAATTAATTTGAGAAAGGAAATGGTGATTACAGGCATAGCGACTCAGGGTTATGGGGATCCTGTTGTTGCAGAATGGGTTGACAGCTTCAACGTAATTTACAAGGATTCATCTGGGAAACACCAAGGTGTCAAGAATACGCAAGGGAACTTGATGAATTTTCCTGGAAATACCGATAGCAATTCCGTTAAAAGAAATGATTTCCCGATACCTGTGCTGGCATCTGCTGTCTATATTCTACCTCTCAAGGTACACAACAACATCGGTCTGAGATTGGAACTGTATGGCTGTACAAGCGGTCATTATTTTATCGTCTGGCTGATGCTGAAGAAAACATTTTACAAGGTTGAGTTCTTGGATCCTTTAAGCAAAGAGTTTCAAGACGCTGTGTCAGTCACAGTAAATGGGATTGATGGCCTACTTGGAAATACGTGGGGATTTCTATTTGCTCGCACGCGTCAATTGAGTCCTCAGAGGTCTTCGTCGTTTTCAACGCTAGTAACAGCCATTGTCGAGATACACTGCCTACGATCTAGCGAGCAGCATTTGTTGACAAAACTGAAGTCCCTCATAGAAACCAAAGACACAGCATTCGAGCCAGATTATCTCAGGTCTCAGTACCCAAATCGATGTAGCTGTGCCCCACCAAGTGTCAAGCTTAGACTAAGCAAGACTACAAAGGAGGCGGAGAAAATCTGGATTTCGAAGTTACTCAGTAAATCCGCTTACGTAAAAGATTCATGCCCAGGAAGAGAAAATCTAATTTACGAGTGGAGACTATCAAGAATAGATCAGCAAACGGGGTATTTTGGCCCGTTCATGTCATTTCCAAGGTTTAAACGTTTACGACTTCCGTTAAAAGCGATTGGACTAGGACATAGCTATGTGCAGTGTACAGTTGAAAAATTGGGTGAGGATACTTCCATGGCCTTTGACTATGGGTATATAAAGGTTGTGCGTGCTCCACTGGTAGCAATAATAACAGATGTCAGACAATCGGTTGGTCTGAATAGTACTATAGAATTGAGTGCGGAGAAATCTTTTGATGCTGAACAGTCGTCCAATATTCATCTGGGATTAAATTACACATGGTTCTGCAGACTGGAAGATGACAAATTTCCACTTTCTCCAAAATGTGAAGTGGCTGACCTTTCCTCAAAACCTAGAAAGAGTCACGGTGGTTGCTTTGCTTTTGGATCAAGTGTACACTCTTCTAAGGATAAAGTACTTGTGGTAAATAGAGCGGAAATGGTGAAAAGCAACAAATACGTTTTTAAGTTGGTGGTATCGAAAGACACGAGAAATGCCAGTGCTGAATACGAGTTGAATGTCGCACCACAAGCCTCTCTCTTCATACGGTGCCTTTCGAATTGTGAACATAAGGTGACCCTTGAAGATAATCTAGAACTCGAGGTTCGTTGCAACGGAGATCAATGTGGCGAAGTTAAAAGTTACGCATGGAAACTATTTCAAATAAGGAGGACTGCCAATACGTGGACAGTTTCTGATGTCGTCAATGTTAGAGTGAACTCTCACATGAGTGGAAGACGGGTGATAATTAGTGACATTTTGAACTTACGAGATGATTCTGTCAGGAATATAGACTACACAGTAAGAGTTTTTGCTGAATTTGATTTCTATAACATGGTCACGGCAAACTTTTCGTTTGTCGTCAACTCTCCTCCCAGAGGTTTCACATCGGAGGCTGGTTGCGCAATAAGCCCAAAGGAAGGTGAAGCTATTTCCACCGATTTCTTCATCAGTTGTTGGGGATGGAATGACGAAGACATCCCTCTGACATACGAGTTTCGATATCAAAGTGCTTATGGCATACTTCTCATTCAAAGCGGAAATTTGCAGAATCTAAGCTCAAAACTTCCAATTGGAGATTCAGCTAAGGATTTCTTACTGGAACTGGAGGTGCTAGTGGGAGACACTTTAAATGCTTTTACTAGAAAGAAACTGTTTGTCAAGGTACGACCTCCAAGGCAGTCTGACTTCAGCGATAAATTTATTGATCAGCAAATCAACTATATTCGTGGTTTCGTAAAAGCTAAAGATTTTGACAAAGCAACCGAGTTGTCGCTCATCTTGATGTCCACAGTCAAAAGCTTCGATGATGGGACGTTTGACAAGAACGCAGGGGAAATTTTGAAGGAAATGAAAGACATCCAGGTTAAGAGCGCGGTTCACGTGACAAAAATTGCTGCCATCGTCATTATGGCAACAGAAAACACGAACCAAGTGTCACTTACATCACTGCGAAGCTCTGAAATTCTTCTCGAAAGATCCGCAACCTTCCTGGCCCTTCAATTCACCCCAGAGAGCACTTACGAACGAAATCTTGCTCAGAATGTCAGCATTATCCTTCTCAACGGTATTGGATGTCTTCTGCGTTCATCCTCATACAGTGCAAGACTGGAGACGAAGCAGGAGTCTTATAGAGCTGTCAGTATGAAGATGATTGAGTTAACAAGAAGCATTGTGAAATCTTTGTCTGCACTATTCCACAAGGGAAGGATGACTGTCAGTTCTAACTATATGGATATTGGGATCTTTAAAGAAAAACTGGGAGAGTTTAGGAGACAAAACATAGTTGTTGGAGGAGCCAGTTTCTATTTTCCTGATTTCCCCATATCAGTGTTACGAAAAAGTAACGAAAGACTTTTACTGGAGCTGATAGCATTTGGGGATAATCCATACACGTGGCATCCTACCTCTTCAATTGTTCGCTCCAAGGTGATTGACATTACTTTGCGAAATAGACTAGGAAAGGAAATTAAAATCGCTAACCTTAGCGAACCAGTGGGATTAAAGATGCCGATGAAAGAGAGGACTGTATCATCAATATCAAGCAAACGACAAGAACACCTATTTTTAAAGCCAGGTGTCATCCAATATCATTCTTTTGTAATGCCGTCTAGAGAACATCTTGTGAATTTGAGAGTCACAGCTCCAGCAGGTCAGCGCTTGGCTATCTATTCTGGACACGGATTTAAACCAAACACAACCAACTACACCTCTGTGGCAACGCTACCTGATTTTTCTTCCTGTCAAAATAATAAATTTGACCAATCATTTAACTGCACCATGGACCCTAATATTGTAACACTTTTTAACAATGGGTCAGGTCTCTACTTCGTTGGTATTACATTCGCTGACTCAAGAGACACACCACTTGCCAGAATACGAAGATCGTGCAACGATTTAAAGAAACGCAAAAAGAGATCTTGCTTGAGGGTAAAAGATCCGCCAACTAATCCTCCTCCAACTCCTAAGATAATAGTTCCGCTTTATGACCCATTGACGGACGTGAATTACACGTATTCTCTCACCATGACAACTTGTTTGTATTGGTCGGAGGAGGAACACAAGTGGTCTAGCAGAGGATGCAAGCTCGGTCCTGATGCTGTTCCTTCAAAAGTACACTGCTTGTGTAATCATCTCACTTCATTTGGTGGAGACTTCCTTGTAGTACCAAACAAAATTGACTTTGAGAAGGTGTGGACTGAATTTGGAAGATTGGAAGAGAGTAAAAACTATTCAGTTCTGGCTACTGTCTTCTCTATGTTGGGCTTTTACCTTGTTTGCTTACTTTTCGCTCGCCGGGCAGACAAAAGAGACGAACTTAAGGTAAATGATGCAGCTTCTTTTTGGAGATGGATGAAAGAAACTTTTGTTCCTGGGATGTACAATAACAGCTGGTACAATGGTCGTTCGTTTGAATACAATGAAGGATTTATTGGTAACAGAGAAAATTTCTTGGTTGGAATGCCTCGATTGAGACAAGTGAGAATTCGACCTGATAGAGATTGTGAAGTGATGTACAAAGAAAGGATGCTTGGCATGCCACGATGCCTTCCTTTCTATAGTGATGCTCTCCAAGAAAGAAACTCTTACAACATACCTGGATGGATCCCCATGCATAACAGCAGTGCCGTTCCAGGTATAGATTCACTGTGCCCCAAACCATGGCAATACCAAACTGCACAAGAGTTGAAAACGGAGCAAGTTCGAGGGAAAATGGCATTATATGGTGGTGGAGGTTATGTAGCAAATATTGGTTATGACTCCGATTCAGCGTTGAAAATCCTCGGAGATTTAGAAAAGGAACATTGGATTGATGATAAAACTGCAGCTGTACTTGTAGAATGCACTGTTTTTGAACCTTCTAACTACTTGTTCTGCGTTTTTAAGTATCTGTACGAAAGAAATCCGATGGGAGATGTATATGCCAGTGCCAAAATCAAAACGATGACTGTGTATCTTCCACAGGGTTCTAAAAATCAATTCTTCTATCAAATATGTCAAGTTCTGCTTACATTGGTAATCGTCGCATTTGCAACCAACGAGATCGGGAAAGCACTTCGCGAACCACGTGCATATTTCAAGCAGCTTTGGAGTTGGGTTGAAATAATGCTGTTATCCTTTGCTTCCTCTGCTGTTTACATAATGGTTTTAAAAGATAAATTTACACGGGAATATGTGAGGAATGTCCGTTCAAATCCGTTTGACAATTTCAGCGCAGATGAGATCGTGGCTTATTCCGAAATTGAAGATTATCTCCTAGCAAGTGTTATGTTACTTATTACTGTGAAATCACTGCGGCTCGCTCGATTCAACCCCCATATCTTCAGGATGCAAAAGACTTTAAGAGACTCGTTTGCCCCTCTTTGTTCCTACTCAGTGGTTTTTGGTGTAGTCATCTTCTCATTTGCTTCATTCGGGTCAATAGCATTTGGTTCGTCAGTAGTTGAATACTCGTCACTGATAGACGCTATTCTTTCATTACTTAAAATGCTCATTGGTGAAAAGTCCTCTTACTATCAACTAAAGGTTACCTCAGAAAGCTTTCTTGGCCCAGTTTTCCTCTTCGTGTACTTGGCTATCGCAGTCTTTCTTTTACTCAATGTCTTCATCGCCATATTGGACAAGTATTACACGGCGTCAAAAGAAGCAGCAAGGAAAGATATGGATCGAGTTACGTACACGGAAATTTTGCTTTACGCATGGAGATGCTTTCAGGCCATTATGTACTATTTATGTAACTTCCATTTCTTCTGTAAGGATGGTTTTAAACAAAGCGGAGAAAGTCGTTACTTGAACAGCCTTAATGGAGTACAAGTTGAGGATTGTGTGCCAAGACTGGCTTCCATAGAAAGTTTGGAAGACATCACAATAAGTGTGTCAGTAGCAAATACAATGATATACGAGGAGGCCGATGCAAAGATGTCAAAAGTTGGGATACAACTAACCAAGTTGTTTGATGAATGTGCGCAAGAGGATCCTGTAGTTGATGATATTGTTCAAGAGATTATATTTGACTCAGATACAGAATATGAATCAGAATCCAGCTTTTCCGATTCTGAGTTACATTTAAGGGCCAAGTGTGAAGGCTTCCTGGAGGGTTTCTTGTTGCGTTCTTCACACTCTTCAATTCCTTCCTTTCGGTCTAATGAGCCTTTTTATAAAGTTGACCAGCATTCTCTGGAGAGTTATGTTTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9U1S7	Polycystin-2 OS=Caenorhabditis elegans OX=6239 GN=pkd-2 PE=1 SV=3
Q6IVV8	Polycystin-2 OS=Danio rerio OX=7955 GN=pkd2 PE=1 SV=1
H2LRU7	Polycystin-2 OS=Oryzias latipes OX=8090 GN=pkd2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000050 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00754 all species →	F5_F8_type_C	F5/8 type C domain	Domain	Interproscan
PF20519 all species →	Polycystin_dom	Polycystin domain	Domain	Interproscan
PF01825 all species →	GPS	GPCR proteolysis site, GPS, motif	Motif	Interproscan
PF02010 all species →	REJ	REJ domain	Family	Interproscan
PF08016 all species →	PKD_channel	Polycystin cation channel	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR046338 all species →	Homologous_superfamily	GAIN domain superfamily	Interproscan
IPR000421 all species →	Domain	Coagulation factor 5/8 C-terminal domain	Interproscan
IPR046791 all species →	Domain	Polycystin domain	Interproscan
IPR000203 all species →	Conserved_site	GPS motif	Interproscan
IPR002859 all species →	Domain	PKD/REJ-like domain	Interproscan
IPR051223 all species →	Family	Polycystin	Interproscan
IPR008979 all species →	Homologous_superfamily	Galactose-binding-like domain superfamily	Interproscan
IPR003915 all species →	Family	Polycystic kidney disease type 2 protein	Interproscan
IPR013122 all species →	Domain	Polycystin cation channel, PKD1/PKD2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10877 all species →	POLYCYSTIN FAMILY MEMBER	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005262 all species →	Molecular Function	calcium channel activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0050982 all species →	Biological Process	detection of mechanical stimulus	Interproscan
GO:0005509 all species →	Molecular Function	calcium ion 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
K04988	PKD1L2; polycystin 1L2	-	Ion channels	ko04040	deepkoala

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 Acropora cervicornis 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 Acropora cervicornis, 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 →