Gene detail

Detailed information of FUN_017856-T1 in Acropora pulchra

Genomic Location: ptg000012l:1137850...1143136
NR annotation: XP_015768874.1, PREDICTED: cathepsin L1-like isoform X4 [Acropora digitifera]
Species Acropora pulchra · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_017856-T1

ATGGCTCATCTTACTCTTCTATTAGTTATTATCTTTGCCTCTGCCACATTGTCAGATTTGTTGATCAAAGACAATGCATGGCATGCTTGGAAAGAATACTACAACAAGACTTACGCTTCAGATGATGAGGAGAGTTTACGTTACTCTATCTGGATAAACAACCTTAAAATAGTCAATCAGCATAACAGTGACAAGAGCAAGTCCTTTACAATGGAAATGAATCACTTAGGGGACATGACAGTCAAAGAGGTGCATTTGTTGTTGAATGGATACAACAGAAAGAAGAAGGAACCAAAATCATATGGTACTGATGCCGTCACTTTCCTTCCACCAAGTAATGTTGTCCTTCCAAAGGAAGTTGATTGGAGAACTAAAGGCTATGTCACACCTGTCAAGAATCAAGGCCAGTGTGGGTCATGCTGGGCATTTAGTGCTACGGGATCTCTTGAAGGCCAGCATTTCAAGAAAACTGGAAAGCTTGTATCTCTAAGTGAACAAAATCTCGTTGACTGCTCACAAAAGTTTGGCAATAATGGCTGTGGTGGAGGATGGATGGACAATGCATTCCGCTACATTAAGGCCAACAATGGAATTGACGCAGAAGCTTCTTATCCTTATATTGGTGTTAATGAGAAATGCAGCTTCAACAAGTCAAATGTTGGTGCAGATGCCACTGGCTATGTTGATGTCAAGTCCGGTGATGAAGATGCCTTAAAGGTGGCCGTTGCTACTGTGGGTCCCATCTCTGTGGCAATTGATGCACTTAGTTCGTCTTTTATGATGTACAAAGATGGTGTCTATGTGGAACCAGACTGCAGCACTACCTTTTTGGATCATGGTGTGTTAGCTGTTGGTTATGGTACCACTGAGGAAGGTCAAGATTATTGGCTTGTAAAGAACAGCTGGGGAACAGACTGGGGAATGAAAGGCTACATCAAAATGGCAAGAAACAAGCACAACATGTGTGGAATTGCTACAAAGGCAAGCTATCCTTTGGTTTGAAGGAACACAAGGAGACCTGATTATGAGCTGCTAAAGAAATTTCTTGAAATCTTGTTCTGGCCATGTGCACTGGGAACTCAATTCAGTGCGCATGCTCAGAGCAGTAAAGGCCGACTTGCTACCATATCAGTATTATGGTTGGAGTAACGAGGTGCAGGGGAACCTTAAATGTATGTGGTTAGTTATCTTGCAACCAGGTCGTATTCATACGCTGAGTGTCCTATTGTAATTTTGTGCATTGCAAACATTTCATTTATTGTTATATCAAATTGGAAAATCGAACCTCTGTCACACATGTAAAGTGGTCTTCAAATTTTTCCAATTGAAATTACATTTTCGGGGGTGGAAGCGGAATGATGAATGACGGCTTCTAAAATAAAACGAAGAAGGAATATTTAGGGTTTAGGCATTCGGAAAAAAGAATTATACGGTTTCTGTAAAAGAATAAACAACGGAATAATGAATATCGAGCAAAACTGAATAAGGAATAATGAATAACTCAGAAAAAAATGAATGGAATAATGAATAAGAGAGATCCAATTATTCCGCTTCCACCCCTGATACATTTACCGAACATCGTTCCTTTAACGTAATATTAACACAATAATGTAATACGTTACAATCAAGCTTGGTGTGTTTCACGTGTAGAATTTTGGTACAGGTATAACTGCCTTCAAACTACTCAGGTTTCCAAGTTGTACCTGGAATTCTCTTTCTGTCAAAGAAGTCCTTTTTGTACTTTTTTTTTTGTGAAAAGATCGACAATCCACACTCGCAGTGGTCAAACAAAAAAGGTTAAGTTTATTCAATTTGTTAATCAGCAGTTGTAAGATGGATATATGAGGATTTTAAGCTGAACCTAGTAGTTTCGGGCTTTTACTTGTTATCCATAGTTGATTAATGACAATAAAATTAATGTATTTGCATCTTAGATTCAGTATGAATATTGAACATCACTCCAGGGAAGGTTAACAGAAAAAGGGGAAACGAAAAAATGTCGACAGTTATCAAAATTAATGTTGCAGTGACACGAGAACAGACGTGATGGGAACCAAACCAAATGCTTTTCTCATATCTTAAAGTCCAAACCTGAAAGCCCAACATAGAAAATTCTGCTGACAATCCTAACCTTTTAGAAATTCTCCATGTTGTATGTACAATATTCCTTATGTCATTTCAATCGGTGAGAAGTAGCTTCGCTTAACCCCTTAACTGTCGAATGAGCGCTCAGGGCACTTCTACATTTTACTCTGTCTAACGCCAGACGATTTTACTCGTCGATGGGGAACCCCTTGAACGGGAAAGGGTTAATTTAAATTGCTACAAATTTATCAAAATGGAGGAAAAATGATCCTCGTATCTGTTTTGTATTGAATAACAAAGTCTAGGATTGCCATTGTAAGAGATGGTCCATTACTTCAACTCTTTTAAATGGCGAAATGAGTCGGTAGAACCCGAAGGGAGGGAACAGAAAGTAAACTTGGCGATTTTCCATCAGTAGTTCCGATCTCCATAAACCACTGATGCAATGACATCAGTGAAATAAGTTACGTTGTATCTTCAGTTTTGGAGTCAAGACATTGATAAAAATGAGGTCAGTGGTCCTATAATTTTGTGAAAGTAGAAAGCCGATTACATATCTAGTTTGAGTTTCATAAAGACCAAAAACTTTTATCTTCAAAAATTCTCGTCATGTTCTCAGAGGACAATGAAGTTCACAGCTCTCGCAACTTTGCTGTTGAAGAGCAAAACGTCACTTTTTTTTTCTTTTTCGTGGTTAATTTACTGACTATGATGAGTGACTGCTTAGCGCCGCAAAGGCCTGGGGCCCGTTTCTCGAAAGTCCCGAGAACTTTTCGGGCCCGAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
A0A1S4F2V5	Cathepsin L-like peptidase OS=Aedes aegypti OX=7159 PE=1 SV=1
Q26636	Cathepsin L OS=Sarcophaga peregrina OX=7386 PE=1 SV=1
Q95029	Cathepsin L1 OS=Drosophila melanogaster OX=7227 GN=CtsL1 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000595 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00112 all species →	Peptidase_C1	Papain family cysteine protease	Domain	Interproscan
PF08246 all species →	Inhibitor_I29	Cathepsin propeptide inhibitor domain (I29)	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000668 all species →	Domain	Peptidase C1A, papain C-terminal	Interproscan
IPR013201 all species →	Domain	Cathepsin propeptide inhibitor domain (I29)	Interproscan
IPR025660 all species →	Active_site	Cysteine peptidase, histidine active site	Interproscan
IPR038765 all species →	Homologous_superfamily	Papain-like cysteine peptidase superfamily	Interproscan
IPR013128 all species →	Family	Peptidase C1A	Interproscan
IPR000169 all species →	Active_site	Cysteine peptidase, cysteine active site	Interproscan
IPR025661 all species →	Active_site	Cysteine peptidase, asparagine active site	Interproscan
IPR039417 all species →	Domain	Papain-like cysteine endopeptidase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12411 all species →	CYSTEINE PROTEASE FAMILY C1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0006508 all species →	Biological Process	proteolysis	Interproscan
GO:0008234 all species →	Molecular Function	cysteine-type peptidase activity	Interproscan
GO:0004197 all species →	Molecular Function	cysteine-type endopeptidase activity	Interproscan
GO:0005615 all species →	Cellular Component	extracellular space	Interproscan
GO:0005764 all species →	Cellular Component	lysosome	Interproscan
GO:0006955 all species →	Biological Process	immune response	Interproscan
GO:0008656 all species →	Molecular Function	cysteine-type endopeptidase activator activity involved in apoptotic process	Interproscan
GO:0010952 all species →	Biological Process	positive regulation of peptidase activity	Interproscan
GO:0051603 all species →	Biological Process	proteolysis involved in protein catabolic process	Interproscan
GO:2001235 all species →	Biological Process	positive regulation of apoptotic signaling pathway	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
K01365	CTSL; cathepsin L	EC:3.4.22.15	Glycosylphosphatidylinositol (GPI)-anchored proteins	ko00537	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 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 →