Gene detail

Detailed information of FUN_003886-T1 in Acropora pulchra

Genomic Location: ntLink_8:16502713...16511597
NR annotation: XP_029197542.2, protein HGV2-like isoform X1 [Acropora millepora]
Species Acropora pulchra · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_003886-T1

TCGAATGTTTCATCATGGCTTCATCTTCCACAGAAGGCGGCGTTAGCGAGGATGTAACAAAGTTGATGGGGATGGGAAAACGACATCTACTTTGTAACGAAGTTGTCCAAGCTGTGAAATGTTTCGAGGAAGCCACTCAAACCCTAGACAACAAATATGGATCTGGGTCAGATGAATGTGGTGAAGCTTATCTTTTTTATGGAAAGGCATTATTAGAGCTGGCAAGGGCTGAAAATGGTGTCCTAGGAAATGCTCTAAAAGATGCTGAACCAAAAAGTGAGGAAAGTAGTGATGAAGATGAGGAGAAAATGGAGGCGGTTGGTCCAAAGATTAGTGAAATGAGTCCATCACAAAAAGAAAAAATCAGAGATGATGTGTACGATGCAATGGCAGAAAGAGAGGAAGGCATGGAAACTGAAGAAAAGAAGGAAAGTGACAAAGAACAAAGCACTGAAAAGGATAAGAGCAATGAAACGTCAAAGGATGATGACAAGCCAGGTCAATCAGAAGAATCTGGAACAAAGGAAGGAGTTGATGAAGAGATGAAAGAAGGCAAAGACAATGAAAGCAACAAGGAGAATGAGGACAAGGGAGAAGGTCAGGGTGAAGAGGAAGGAGAAGAAGGAAACGAAGACGAAGGAGAAGAGGAGAGTGAAAATGCAGAAGGTGGTGGAGATGCTGCCACTGCTGATACAGCAGAAGGACAAGAGGATGATGCAGATGTTCCGACTATGCAGTTAGCTTGGGAATTTCTGGAGTTGGCACGTCTTGTGTTCATAAGGAATGATGACAGGGAATCACAGTTGAATTTAGCTGAAGTTCACCTCAAACTTGGAGAGATTCAGCTAGAACAGGAACAATTTGTGGATGCTGAAACAGACTATCTTAAGTGTCTTGAGCTTCAAGAGAAGCATTTGGAACCAGATGACAGACTTATTGCAGAAACTGCCTACAGCCTTGGTTTGGCCTATAGTTTACAACCAAGTTATACTAAGGCAAAGGAATTCTACAGCAAGGCTTTGGCTGTGATTGAATTAAAAACATCCAAACTGGAAGCACGGCTTGCAGAATCAAAGGACAAAGGAAAAGGGAAGGCAACAGATGACGACCCATTTGTTGTTGACAGAAAGGAACTTGAGGAATTACAGAACTTGTATCCAGAGATCAAAGCAAGAGTGGATGATGCCCAAGAGATGATAAACTCTGCCGCCAATCAGCTAATGTCAATGACAGAAGAAGGTTTTGGATCAAGCAAACAAGGCAGTAGCGATGCCCCTGTAAACACGATACCGATAAAGAAAACAACCACTGAACAGCCAGTAAATGACGTCAGTCACTTAGTTCGCAGAAAGAGGAAGCCGGAGGAAGAGAGTGGTGACAGCACATCAGGGGAAACACAAATACCAGTGAAAAAAGCTCGGCAAGATGAGGAACAAGCAGCTTCAGAAATGAAAGAAAATGGACATGCAAAAAGCTAACTTGATTGACATTGTGTGCTGTAAATAGTGACAATTAATTAGGATATTTCTTGTATGTACAAAAAAAAAGTTAAGCTATTTTCACATTTGATGGCATTATTTCTTACAAGAGCTCTTTTCATGCACTCCCCTGCAATTCTAGTTGTGTTCAGTGTCCAGAAGGACACATCAATGGTTTCAATAAAACAAGCCCAGAAAGCTCATCAAAAGCAATATTCATTTGGCAAATTTACGGTAGGCATTATTCTGAGGTCAAATGCAGCAAGAGAGATGCAAGTGTGCATCTACCAGTCCTTCAAAATTAACTCAACATGACCTTTCTTTGTACAGAGCAAGTACTGTAGACCCAAATAAAACCTAGCATTAACAACAAAATCTATTATAAAATAAAGCTATTTATACTTATTGCTGAAGCTGAAAATTAGTAACACAAAAACTAATTTGAAAAAACGCCCAGGTCTTGCTGCCACAAAAAATAACTATCCCAGGAATTCCAAATCACCACTAGTCAGATAAAAAGCTACACTGCAGAGAATGACTATCTTCATCTCAAAATGCTTTGTAGCTAGAGCACATTTCCTATTGTGACCCAACCACCTTGCCTGCAGCTTCAACTATATTAACAGCCATTGGAAAAAAAGATCTAAAGTGCGCAGGTTTTTATTTTTCCTGGCTGTTGGTAGAAATACTACATTTATATTTTTGTGTCCTTGTTTCGCTCAGGTTACTGCACTTTCAAGTAAATTCTTTCACTTCTAGGAATCACAACAAAGGCATTAATTTTAACGGCCCCAATATTGACAGATGCTCCACAGTTTCAATAGTTAATCCCAACAGACAATGGAAATCCACAAAAGCATTCTTTCTGTAAAATGCCATGAAAATGAGTCTGATTTCTTCAAGTGGATGTTGCATAGAGGAGAAATTTAATGGATGTGGCTCAATTAAGGGGGAGACCAGGGCCCATGCAGTTGTTTAAAGCCCAATTAAGCTAATACTGGCTTACTGGAAATTTTAATTAT

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q02508	Protein HGV2 OS=Halocynthia roretzi OX=7729 GN=HGV2 PE=2 SV=1
Q66HD3	Nuclear autoantigenic sperm protein OS=Rattus norvegicus OX=10116 GN=Nasp PE=1 SV=1
P06180	Histone-binding protein N1/N2 OS=Xenopus laevis OX=8355 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003726 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF10516 all species →	SHNi-TPR	SHNi-TPR	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR051730 all species →	Family	Nuclear Autoantigenic Sperm-associated Protein	Interproscan
IPR019734 all species →	Repeat	Tetratricopeptide repeat	Interproscan
IPR011990 all species →	Homologous_superfamily	Tetratricopeptide-like helical domain superfamily	Interproscan
IPR019544 all species →	Domain	Tetratricopeptide, SHNi-TPR domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR15081 all species →	NUCLEAR AUTOANTIGENIC SPERM PROTEIN NASP -RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005654 all species →	Cellular Component	nucleoplasm	Interproscan
GO:0006335 all species →	Biological Process	DNA replication-dependent chromatin assembly	Interproscan
GO:0034080 all species →	Biological Process	CENP-A containing chromatin assembly	Interproscan
GO:0042393 all species →	Molecular Function	histone binding	Interproscan
GO:0005515 all species →	Molecular Function	protein 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

No KEGG orthology assignment for FUN_003886-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 Acropora pulchra 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 pulchra, 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 →