Gene detail

Detailed information of KAM7448086.1 in Porites harrisoni

Genomic Location: Scaffold0030:655642...682618
NR annotation: no NCBI-NR hit recorded
Species Porites harrisoni · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-g3913.t3

AGCTTTACATAGACAGATTTCGTTTTGTAAGTGGTCATAGTTTTTCACTGGACCAGTTAAAAGCTTATTAAGATCAGATATAGCTTATATTTGGCTAATAAAACTTTGTACACGAAGATTAACCGAACATGTCGTATTTCCTTGGTCAGCGGCCCTTTCTCACACAAAACCGCGggaattcaagatggcggttgAGCTAGAAGACGATGAAGCTGAAAATACAATGTCAATACTTGTCGCTACAGATTGTCATCTTGGGTACATGGAAAAAGATCAAGTTCGAGGGAATGACTCACTCGTAACATTCGAGGAAATACTGCAAATAGCAAAGGACAAAGATgTTGATTTTATTCTTCTTGGAGGGGATCTTTTTCATGAAAACAAACCTTCACGAAAAACCTTACACAACACATTGGCTTTACTCAGGAAATACTGCATGGGTGACAAACCTTGCCAGTTAGAATTTCTTAGTGACCAGTCCTTGAACTTCTCCAATTCTCGttttcctgtggtAAATTATGAGGATCCTAACCTTAACATATCCATTCCAGTCTTCTCAATTCATGGAAATCACGATGATCCAGCTGGGGATGGAAACCTTTGTGCACTGGACTTACTTAGTGTCTGTGGGTTTGTCAACTACTTTGGTAGAGCGGCATCTATTGATGACATCACAGTGTCACCCATCTTGATTCAGAAAGAACGAGTAAAGCTGGCCCTTTATGGTTTAGGATCTATCAGAGATGAGCGTCTTCACCGAACCTTTCTGAATGGGAATGTGAAAATGCTCAGGCCCAAGGAAAATCCCGATTCCTGGTGCAATGTATTTGTGCTTCATCAAAATAGGGTAAAGCATAGTGCAACAAACTACATTCCAGAGAAGTTCCTCAGCAACTTCCTTAACCTTGTGATTTGGGGACATGAGCATGAGTGTATTATAGATCCCAAAAATTCAGATGACCCAGACCTAGATTTTTACATCAGTCAACCTGGCTCCAGTGTGGCAACTTCACTCTGTGAAGGAGAAGCAAAAACTAAGTAAACATGTTGGAATTTTGGAGATCAGAGACGACACCAATTTCAGAATAAAAAAGATTAGATTGGAGACTGTGCGCCCTTTCTATATGGACGATGTAGTTTTAAGCAACACTGAAATTGACCCCACCCAGGAAGAGATGGTGATGGCTTACTTAGTCAACAAAGTAGAACAGTTGATTGAAAAGGCTGAGAGAGAACACAGTGGCAATCAACGACAACCTGACAAACCTCTGATAAGGATACGGGTTGAGTATAGTGGTGGTTTTTCGTCCTTCAATATTAGAAGATTTGGACAACAGTTTGTTGACAGAGTGGCCAATCCAAAGGATATTTTACATTTCTATCAGAGAAAAAAACCACCTACCAAAACTGACAAGAAGGGCAAAGAAGACAGCAGATTTGCTCAGTTCCGCCCAGAGGCACTGGACAGTATCAGAATGGAAGACTTGATCAAAGAATACTTAACTTCGAAAGATAATGCATTAGAGCTGCGCATTTTAACAGAGGGAAAAATGGCACAGGCACTTCGTGAGTTTGTTGAAAAAGACGAAAGAGATGCCATATCGACTGTTGTAAAGTGGCAGCTTGATCAAGCTCAGAAACACTTGAAGAAGAGGCAAAATGTACGGGAAGAGAACATTGAGACTGAAGTGTGTAAACATACAGAAGAGAttaggaagaaagaagacgACAATGATGAGGAGGATGCAGAAAGCATAAGAAAGGTCCTGGAAGAATCCCGAAGTAGCCAatcaagaaatgaaaataataatgctGATGATATGAGTGGGAGCAGTGACGACGACAGATCACCTGCTGTACCAAGTACAAGCAAAGGAAAAAAGGGTCGTGGCGATGTTGGCAACACATCTTCAAGCGGTACAGGTGGAGGGCGTGGTCGGGGCAGGGGCAGGGGAAGAGGTGGTGGacgaggaagaggaagaggagCATCGCAGGCAGGAGCAAACACTTCACGGACTATTATGGACTCCTTTGTCTCATCATCAAAAAGACGAAGACAACCAAGTGATGTGGTGGAGGAAGTAATTTCTGATGAAGATGACAATGATGAATTTAATGTCCCTCTGTCATCCTCTGTCAAGAAGACAAAGACATTCCAGCCCACTCAATCTCAGAAATCATCGAGAGGAAGACAAAGGAAAACTGTTGTGAATGTTGCTGTTGATGATGAAGAAAGTGAGGATTCAGACGACCCCTTCTCCATGCAACCAAGCAGTAAAAGAAGCAAACGATAGCAACAGATGAATCTCGCTATTGCCAATAGTGGTTACGTGACTGTGCATCTTTTGACCCTGTACTACTACGTCTTTGAATAGGTTCCACAGCGCTAAACCTTTACACTCTTTCAAGGGCTAAAAGTCAAAGTGCAATGGAAATTTCAAGGTGGATttaaaaaatctggaaaaatgaaatgataaaGCCACTTATTTTCGAGCACATTACGATTCGACAAGGGTGACGTCGATGAAAGCATCAGTGCAAAAGTGAAATAGAATGTGAATTTCTAGTATAGTGACAATGGTGTTGCTTGTGTTTATCTCCACTTTACAGGGGATCGAAGACAGTTTAGAATTcctgaacaaaacaaagttaTCACCCTATTTGCGCTAAATAAACATTAGCGGTACTGTTGGTAGGAAAACATCGGCCTATTGGCAAAGTCCAAAACTTGCACCCTCGGAGGGACAAGCTTAAAAGAACGAGAAATAATAtattaaaagattttttctagAGCGATTAAGGGAATAGTTTCAGTGGTCTACAGAAAGTAATATGTAGCGAATTTGTTGCGTACTAGGACGTAGCGAATTGGACACTTAGCGAAACCGGTTGTTACCGTGTGGCCTGGCAAGTTGCAGTTTACAGATAATTGCACATATGTCTTAATGTGTTTCATCAATCTGtatctatatttttttaagttaacaCATTGTCCCTTTAGTAAGTGTTATTTACAAATGTACATTGAATTTTATATTTTGAGATTAtagttaaaatatattttagaaaaaatgaaagaggttTAAGACAGA

Protein

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003734 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00149 all species →	Metallophos	Calcineurin-like phosphoesterase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR041796 all species →	Domain	Mre11 nuclease, N-terminal metallophosphatase domain	Interproscan
IPR029052 all species →	Homologous_superfamily	Metallo-dependent phosphatase-like	Interproscan
IPR004843 all species →	Domain	Calcineurin-like phosphoesterase domain, ApaH type	Interproscan
IPR003701 all species →	Family	DNA double-strand break repair protein Mre11	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10139 all species →	DOUBLE-STRAND BREAK REPAIR PROTEIN MRE11	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000014 all species →	Molecular Function	single-stranded DNA endodeoxyribonuclease activity	Interproscan
GO:0000723 all species →	Biological Process	telomere maintenance	Interproscan
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0006303 all species →	Biological Process	double-strand break repair via nonhomologous end joining	Interproscan
GO:0007095 all species →	Biological Process	mitotic G2 DNA damage checkpoint signaling	Interproscan
GO:0030870 all species →	Cellular Component	Mre11 complex	Interproscan
GO:0031573 all species →	Biological Process	mitotic intra-S DNA damage checkpoint signaling	Interproscan
GO:0035861 all species →	Cellular Component	site of double-strand break	Interproscan
GO:0042138 all species →	Biological Process	meiotic DNA double-strand break formation	Interproscan
GO:0097552 all species →	Biological Process	mitochondrial double-strand break repair via homologous recombination	Interproscan
GO:0016787 all species →	Molecular Function	hydrolase activity	Interproscan
GO:0004520 all species →	Molecular Function	DNA endonuclease activity	Interproscan
GO:0006302 all species →	Biological Process	double-strand break repair	Interproscan
GO:0008296 all species →	Molecular Function	3'-5'-DNA exonuclease 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

No KEGG orthology assignment for KAM7448086.1.

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 Porites harrisoni 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 Porites harrisoni, 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 →