Gene detail

Detailed information of ENSSYXP00000013135.1 in Micromussa lordhowensis

Genomic Location: chr4:37783905...37816409
NR annotation: XP_029209450.2, collagen alpha-6(VI) chain-like [Acropora millepora]
Species Micromussa lordhowensis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

ENSSYXT00000013884

ATGTTGGCTTACGTATACGTAGGTCTCTTGAGCATTGTTTTAACACTTCCAGTGTGTTTCAGCATCACTTGTAAACAATCTTACGATCCGAGCCGATACATTGGGAAAGCACGAGTGCCAGTGGATTGCAAGACAGAATCTTTGGGTTGTCCGCGCTCGTGGAAAGCGGGAGTACCAGAAATCAGCAGCGATTCCTCCAATGCCTTCGACGAAATGGTCCATACCAAATTTCTATACTGTCACGAAGGTTTTACGACGTGTGGTTATGTTCCCATCGATGCGAGAAATGGAGAGGTTCTCGGCCACAGTGGCGTCACGATTGGAGCAGGAATTGATCTCGGAACAAAGACGATCACTTCCTTCGTGGGCTTATCGAGTGATATCGTGCAAAAACTTGCACCATACTTCGGTTTGCAAAAAGATGAAGCCGCCTGTGCCATTATTCAAAATCCCTTTCGACTTTCACGCGAAGAAGCCACGACTACGACCAGCGTGATAAAAATGCAGACACTAATGTCGGTTCAAAGCAGATACAATCAAGACAAGAAAGCAGGTGCAAAGAAATTCGATTCATTGCCACGTGGAATCCGCACGGCGATTGTCAGCGTTTGGTTTCAGTTTGGTTTACCACCAAAATATCCCAAGTTCTGGGGTCATGTCACGGGAAATGAATGGGAAAAGGCGGTGAATGAACTGAGAAATTTTTACAGCAATCCCGGAGACCAAGCGCGCGGTGATTTGAAAAGACGGAACCACGAAGCGGACATAATCGAAGCAGCTCTTTCGAAATGCACGAGTTCAGTGGACCTCGTGTTTCTTCTTGACGAATCCGGAAGTGTTGGTGCCACTAACTTTCAAAAGAGCCTTGATTTCGTCCAACGCCTGATCGGATCATTTCCTGAAGAGAATTTACGTGGAGAAAATGGTACAAGGTTTGGTCTTTCAACTTTTTCCAGCAGCTACTCTACGGAATTCCACCTGTATAATTATACAAATCAACTTGGTTATTCGTCTGCAATAACAAGGGTCGGGTATTCCAGCGGAGGTACTCAACTTGGCTTTGCCCTTGGAAGGGTCTTAACAGATCAGTTCTCGGAGCAGCGCGGTCTACGTCCGAAAGCCGACGGCTTGCCACGAATACTTGTAGTGCTGACAGATGGACAATCGCATGATGACGtttcaacgccggcgaaaacaGTAAGAGATGATGAAATCACGATCTATGCAGTTGGAGTTGCCGGGTATGACTTAGAGCAACTTAAAGAGATCGCACCATCAGATCAACACGTCATCACCCTCGACTCGTTCTCAAAACTCGACGCTTTTGTTTCCACGATCACATCCTCGGCATGCTACGAGCCTCGGGCGTCGGGAAACAACGAAACCATCACAACGAACGTGAAAAAGGGCTCTTTTAAATATTTCAGCTACAAGGTGAATCCAGAAAAGAATCTCGAGGTAAGTGTGGACGATCTAGTTGGAAGTACCATGCTCTACGCATCTCGAACCACACCACATCCATATAAGTATGACCACGACTATAAGTTCGAGCGAGCGTCGCAGAAGGATAAAGTCATCGTGATAGTGGGGAATGCAACCTCCCCGCGACCGAAGCGATCGACTGGCAACAACCTTCAACCGATCTACATCGCCGTAACCTCAGACACCGACTCGGCAAAATTCGAGATCGTGGCGAACGAGTGCGATCCATCAGTATGCGTCGAAGGTACAAACGAGAGGTCAATTATAAACAAGAAGTCAGGATCGTCGAAGAATTACACAAAATTTCCTTGGGTGTTCCTTCTCGGAAGCATTGCATGCTTACGTGACgctccgccccgaggtccatccccttacccttttatatggcactttggcagaaaaggtaccccttttatataccttttattgaaaaaggtacccctttcacatacgtactttaggaagtcttgttctcattttcatgaaGGGCTTAATAAATaa

Transcript

ENSSYXT00000013884

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q21540	Cuticlin-6 OS=Caenorhabditis elegans OX=6239 GN=cut-6 PE=1 SV=2
Q80X19	Collagen alpha-1(XIV) chain OS=Mus musculus OX=10090 GN=Col14a1 PE=1 SV=2
P32018	Collagen alpha-1(XIV) chain OS=Gallus gallus OX=9031 GN=COL14A1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0007506 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00092 all species →	VWA	von Willebrand factor type A domain	Domain	Interproscan
PF16754 all species →	Pesticin	Bacterial toxin homologue of phage lysozyme, C-term	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR050525 all species →	Family	Extracellular Matrix Assembly and Organization	Interproscan
IPR036465 all species →	Homologous_superfamily	von Willebrand factor A-like domain superfamily	Interproscan
IPR023346 all species →	Homologous_superfamily	Lysozyme-like domain superfamily	Interproscan
IPR002035 all species →	Domain	von Willebrand factor, type A	Interproscan
IPR031922 all species →	Domain	Pesticin, C-terminal	Interproscan
IPR023347 all species →	Homologous_superfamily	Lysozyme domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24020 all species →	COLLAGEN ALPHA	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003796 all species →	Molecular Function	lysozyme 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 ENSSYXP00000013135.1.

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 Micromussa lordhowensis 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 Micromussa lordhowensis, 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 →