Gene detail

Detailed information of g5067.t1 in Montipora capitata

Genomic Location: Sc0000097:431494...441052
NR annotation: XP_044173380.1, short transient receptor potential channel 4-like isoform X5 [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g5067.t1

atggaagctacggacattttcctccaagaattgaccgtcgacggagcggataaacaacccgaaaacaccaaattacaacgaaaacttttcaaggctacaagaagaggggatttggagaaaattaagaggcttatccaacttaaatgcgaaatcaactgcgtaagcaactctggtaaagcacttctacaggtggctgcggaactaggtgatgcctgcaagcgaaatgaagtgattacagccctgctaaatggcggagccgacttggaatttggcatattacacgctatacgagacactaacgtaaaagtagtgcaaacgctcttgtcattttactgctctgcgccaccgacatccccacgccccagaacttcactaacgtgccaaggacacatcacaccgctgattctggccgcatggttagataatttccaaattgtcaaacttctgctggatcgtggattcaccataagcgatcccgagtggcctgctggggattccagcagaaaggatggtgagaagctcggacccgccgtgtaccgattaaacagataccgcgcactcgccagtccagtgtacattgcgctgacatttcttcaaaacgtgcaagacggtccagaccccgtccacagagcatgcgtgcttaacaaggaacttcgtgacacggctgatcaagaatacgaatttagaaaagagtatttagagcttagtgatggttgtaaggagtttgctgtggcgctgctcaacgaatgcaggtcaatgaaggagataaggtgcgtaatggagatgactaacaaacgcacagatatgctgctcaacatgcaaggaaaatgtttgaacattttggagttagccatcgcaactagaaatgaaaagttcgtctgtcatccttacagtcaattagctttaaactcagaagtctacaaaagcgttccttatctggaaaaaagttctttgaaacaggctgggttgctacttttggcgtctgtcatgttccctttgttgttcatggtttggctagtatcggacctctattgtccaaatcataagctatccagaatgttccactcaccttgtgttaaattcctcattacctgtggttcctatcagacgttccttttctttctcgctttcacggcgttccattcatcccagagctcggaatttctggagtacagcatcgttgattggttggttctgtttttcgttattggcttgttagtagaagtcatcaaagatgtttaccaacaaggaaaagatcgcttttgttcggaccactggaactacttggcggtagctttgataacgtcgtttgccattcactactccgtctggtgggctggccgcgcactgctagcagagaaagtagacaccatggaatgggaaactcacactagggatggctacggagttatactggcttcctattgcttttttgcggtgggaatcctgttatcgtttacgcgcaatttgtccttcattcaagccaactctatcactggcccactgcttcatgcattcactcaaatgctggtagatgttgcacggttcttcctgtatttcgtttttgtgtttctggcgtttgccgtgagctttaccaaactgtacttgcaatatgacaaagcaagacgacacttccatgtcaacatagccagcccgaatcaaaccactgatcccttgaatctagaaagatttggaaacagcatgaaaacgatcttttggtccctgtttggtgaagtagacgacagcggtttccaaattgaagaggatggctatggtgcaatatggaaaacaggaatggttttctttggtgcttttaacattgttgcagttcttgttgcccttaacatgctgatcgcaatactcaatgaatcctacactcgcatatcggaagacttggacaccgagtggaaattcacgaggacaaagctgtggttaagttggatctacaaaaagggcgttctccctcctccactgaatattctatacgttttcttacctgtccgttgggtcgttgtgagtgtattcaccaaattccacacacaagaagcggccgagtttttctcccacacttcactaaatcggaagccaaagcccgtcaggagatcaaggatcgacgagaaggagagacgagaggtgattcgcaatcttgtactgaggtacctggccaagaagtcgtgccactcagagactgaaaccgagtcaagtgactcggaggaagaaaacgaggctgcgatgtcactgacaaacaacaaccccatcaatggaacttag

Transcript

g5067.t1

ATGGAAGCTACGGACATTTTCCTCCAAGAATTGACCGTCGACGGAGCGGATAAACAACCCGAAAACACCAAATTACAACGAAAACTTTTCAAGGCTACAAGAAGAGGGGATTTGGAGAAAATTAAGAGGCTTATCCAACTTAAATGCGAAATCAACTGCGTAAGCAACTCTGGTAAAGCACTTCTACAGGTGGCTGCGGAACTAGGTGATGCCTGCAAGCGAAATGAAGTGATTACAGCCCTGCTAAATGGCGGAGCCGACTTGGAATTTGGCATATTACACGCTATACGAGACACTAACGTAAAAGTAGTGCAAACGCTCTTGTCATTTTACTGCTCTGCGCCACCGACATCCCCACGCCCCAGAACTTCACTAACGTGCCAAGGACACATCACACCGCTGATTCTGGCCGCATGGTTAGATAATTTCCAAATTGTCAAACTTCTGCTGGATCGTGGATTCACCATAAGCGATCCCGAGTGGCCTGCTGGGGATTCCAGCAGAAAGGATGGTGAGAAGCTCGGACCCGCCGTGTACCGATTAAACAGATACCGCGCACTCGCCAGTCCAGTGTACATTGCGCTGACATTTCTTCAAAACGTGCAAGACGGTCCAGACCCCGTCCACAGAGCATGCGTGCTTAACAAGGAACTTCGTGACACGGCTGATCAAGAATACGAATTTAGAAAAGAGTATTTAGAGCTTAGTGATGGTTGTAAGGAGTTTGCTGTGGCGCTGCTCAACGAATGCAGGTCAATGAAGGAGATAAGGTGCGTAATGGAGATGACTAACAAACGCACAGATATGCTGCTCAACATGCAAGGAAAATGTTTGAACATTTTGGAGTTAGCCATCGCAACTAGAAATGAAAAGTTCGTCTGTCATCCTTACAGTCAATTAGCTTTAAACTCAGAAGTCTACAAAAGCGTTCCTTATCTGGAAAAAAGTTCTTTGAAACAGGCTGGGTTGCTACTTTTGGCGTCTGTCATGTTCCCTTTGTTGTTCATGGTTTGGCTAGTATCGGACCTCTATTGTCCAAATCATAAGCTATCCAGAATGTTCCACTCACCTTGTGTTAAATTCCTCATTACCTGTGGTTCCTATCAGACGTTCCTTTTCTTTCTCGCTTTCACGGCGTTCCATTCATCCCAGAGCTCGGAATTTCTGGAGTACAGCATCGTTGATTGGTTGGTTCTGTTTTTCGTTATTGGCTTGTTAGTAGAAGTCATCAAAGATGTTTACCAACAAGGAAAAGATCGCTTTTGTTCGGACCACTGGAACTACTTGGCGGTAGCTTTGATAACGTCGTTTGCCATTCACTACTCCGTCTGGTGGGCTGGCCGCGCACTGCTAGCAGAGAAAGTAGACACCATGGAATGGGAAACTCACACTAGGGATGGCTACGGAGTTATACTGGCTTCCTATTGCTTTTTTGCGGTGGGAATCCTGTTATCGTTTACGCGCAATTTGTCCTTCATTCAAGCCAACTCTATCACTGGCCCACTGCTTCATGCATTCACTCAAATGCTGGTAGATGTTGCACGGTTCTTCCTGTATTTCGTTTTTGTGTTTCTGGCGTTTGCCGTGAGCTTTACCAAACTGTACTTGCAATATGACAAAGCAAGACGACACTTCCATGTCAACATAGCCAGCCCGAATCAAACCACTGATCCCTTGAATCTAGAAAGATTTGGAAACAGCATGAAAACGATCTTTTGGTCCCTGTTTGGTGAAGTAGACGACAGCGGTTTCCAAATTGAAGAGGATGGCTATGGTGCAATATGGAAAACAGGAATGGTTTTCTTTGGTGCTTTTAACATTGTTGCAGTTCTTGTTGCCCTTAACATGCTGATCGCAATACTCAATGAATCCTACACTCGCATATCGGAAGACTTGGACACCGAGTGGAAATTCACGAGGACAAAGCTGTGGTTAAGTTGGATCTACAAAAAGGGCGTTCTCCCTCCTCCACTGAATATTCTATACGTTTTCTTACCTGTCCGTTGGGTCGTTGTGAGTGTATTCACCAAATTCCACACACAAGAAGCGGCCGAGTTTTTCTCCCACACTTCACTAAATCGGAAGCCAAAGCCCGTCAGGAGATCAAGGATCGACGAGAAGGAGaGACGAGAGGTGATTCGCAATCTTGTACTGAGGTACCTGGCCAAGAAGTCGTGCCACTCAGAGACTGAAACCGAGTCAAGTGACTCGGAGGAAGAAAACGAGGCTGCGATGTCACTGACAAACAACAACCCCATCAATGGAACTTAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9QUQ5	Short transient receptor potential channel 4 OS=Mus musculus OX=10090 GN=Trpc4 PE=1 SV=1
O35119	Short transient receptor potential channel 4 OS=Rattus norvegicus OX=10116 GN=Trpc4 PE=1 SV=2
P79100	Short transient receptor potential channel 4 OS=Bos taurus OX=9913 GN=TRPC4 PE=2 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000603 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00023 all species →	Ank	Ankyrin repeat	Repeat	Interproscan
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan
PF08344 all species →	TRP_2	Transient receptor ion channel II	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002110 all species →	Repeat	Ankyrin repeat	Interproscan
IPR036770 all species →	Homologous_superfamily	Ankyrin repeat-containing domain superfamily	Interproscan
IPR013555 all species →	Domain	Transient receptor ion channel domain	Interproscan
IPR002153 all species →	Family	Transient receptor potential channel, canonical	Interproscan
IPR005821 all species →	Domain	Ion transport domain	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10117 all species →	TRANSIENT RECEPTOR POTENTIAL CHANNEL	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
GO:0005262 all species →	Molecular Function	calcium channel activity	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0070588 all species →	Biological Process	calcium ion transmembrane transport	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0015279 all species →	Molecular Function	store-operated calcium channel activity	Interproscan
GO:0034703 all species →	Cellular Component	cation channel complex	Interproscan
GO:0051480 all species →	Biological Process	regulation of cytosolic calcium ion concentration	Interproscan
GO:0070679 all species →	Molecular Function	inositol 1,4,5 trisphosphate binding	Interproscan
GO:0005216 all species →	Molecular Function	monoatomic ion channel activity	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	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
K04967	TRPC4; transient receptor potential cation channel subfamily C member 4	-	Ion channels	ko04040	deepkoala

Searching by KO or pathway ID across all species is available on the KEGG Pathway page.

Expression pattern (RNA-seq)

Transcript abundance of g5067.t1 across 48 RNA-seq samples of Montipora capitata. Values are TPM (transcripts per million) from the StringTie quantification; one bar is one sample, grouped and coloured by condition, sorted by expression within each group.

48Samples

12TPM > 0

3Conditions

0.5Max TPM

0.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	4	0.08	0.46
whole organisms · low pH treatment	15	4	0.09	0.55
whole organisms · extra low pH treatment pH treatment	12	4	0.06	0.31

Per sample · hover a bar for the full sample record · show / hide the sample table

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	0.46
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	0.46
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	0.44
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	0.26
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	0.00
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	0.00
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	0.00
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	0.00
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	0.00
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	0.00
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	0.00
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	0.00
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	0.00
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	0.00
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	0.00
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	0.00
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.00
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.00
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	0.00
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	0.00
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	0.00
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	0.55
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	0.33
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	0.23
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	0.22
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.00
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.00
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	0.00
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	0.00
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	0.00
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	0.00
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	0.00
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	0.00
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	0.00
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	0.00
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	0.00
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	0.31
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	0.22
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	0.11
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	0.05
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	0.00
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPI_TPM, StringTie quantification over 48 runs), joined to SRA sample metadata. Samples whose tissue/treatment is not recorded in the source metadata are grouped by the descriptor carried in the expression matrix itself.