Gene detail

Detailed information of g5058.t1 in Montipora capitata

Genomic Location: Sc0000097:217168...226633
NR annotation: XP_015765945.1, PREDICTED: short transient receptor potential channel 3-like isoform X1 [Acropora digitifera]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g5058.t1

atgacaatggatcaagcttatgagcaagatacatcttctgttattctcgacgatctaacggattctccatcaaatgatagcgttttgagcgaagatctgagtggctttcttgacgcagttcgagacggaaatgattccgaggtgcgactgtacgttttgcagaaatcagtcgatgtcaattgcacgaacttgatcggagaaactgcactgcaaatagcggcaaacaatgaccatcatgatgttgccaagttccttgttgaacaaggagcagatgtgacatccgcccttcttcaagccgtggttaacgaatcgacagtttgggttaaggcgttactcgattttgtagaggattcaaatacacagaaccatgccaattcattcgagcagaacacttcctttggattcgcgaagtcatacagttcgtatatttcgcccttgatgttggcagcccaaaatggcagtacagagattgttcagctattccttcaaaggggctttacaattgaagaaccgtttttgcataatagatcgtgcaaatgcgacaagtgtgaaagcttaggaaagcgaataggtcgctcaatttatcgtttacacagctaccgagcgctcgcaagtcctgtttacttatgcatgtcctatttgctagataattcgacggaggagcaaaacatcaaatcgtccagagaccctatggtgcgcgcctttctactaaaccgtgagtttgagaacttcgtggaagcggagtacgaattcaagagcgattacaaaaggctctctaaccaatgtgaagaatttgctgtgtccctccttcagaaatgtcgatcaatggacgaaataggcagcgtaatggccgttcccggaatcgagcaattgaaacatgttaaagtgcgtggaggaaaagaagcccagaagctcagtgtgttgaattttgctattgccaacaaaaacgagaagtttgtggcccatccttacagccagttgatgctgaattctgtactctaccaagatttgggtgtatgggaggatcgaggatttttctccaagatggtctttggcttgctcttttcatctctgcttcctttgtgggcactggtttattttgtggctccaaagagcaaccttagccagcagttagaaaaacctttttttaagtttttgaaccatgctggttcattcgtctggtttcttgcgttacttatttgttcctcagttcaagacaaatttttcaatgtcctggaattttcacccttggattttctaataacggtgtggatcgctggtatgctggtccaggaggccaaagaagcgtatcagcagggaaaagaacgctacttgtcccagtactggaattcaatcaatctgtacatgttaggcttttttgtaatttcaggagttttctggctcattggctatttcatgaatgtagagcaacagaacgcctggcagatacccgttgatgttgtttttaaccaaagcgccaaagaggttgcttatcgattggtactcttgtccaacgctttcttttctgttggtctggtgctaagttttattaacttctccaatttcttccaagtcagttactctatcggtcctctgcaattatcgcttgtgaatatgattcgagatatcggcaaatttttgttgctgtttctgctgttattcgtctcgtttggactcgcggagagaaaggtgtattctcgctatgttcaggccacagaaaaattttctggaaacacaacggaacacgaatttgccaaagtaggaggaagcttgcgatatttgttttggtatgtgtttggaatgtcggacttgaaagacttgcaaactaccgaagactttgtcatcacacagtacattggggaggtgttgctgggactttacgccattgcttcagttctggtggcaattaatatgttgatagctatgatgtcaaacacttatcagaatgttgtgaacgacgcggacatccaatggaaattctccagaactcgaatgtggatgccatatttagatgaaggcaatgtgatgccaccgcctttcaatcttgtgcctccgccacacgtggtgttcaaattttgtcgacgactctttacgcatggatgtcgtgggcgacaaggcgtcacagcgtctagaattagagatgtcgtggtggacgcacaaaatcgccgcaaagtgatgaagctcttgatccagcggtatcttgtaagttttaagaagacaaggaaccatgcctccgttcctgacctgccaaccgacaatcaggcaactgagctttga

Transcript

g5058.t1

ATGACAATGGATCAAGCTTATGAGCAAGATACATCTTCTGTTATTCTCGACGATCTAACGGATTCTCCATCAAATGATAGCGTTTTGAGCGAAGATCTGAGTGGCTTTCTTGACGCAGTTCGAGACGGAAATGATTCCGAGGTGCGACTGTACGTTTTGCAGAAATCAGTCGATGTCAATTGCACGAACTTGATCGGAGAAACTGCACTGCAAATAGCGGCAAACAATGACCATCATGATGTTGCCAAGTTCCTTGTTGAACAAGGAGCAGATGTGACATCCGCCCTTCTTCAAGCCGTGGTTAACGAATCGACAGTTTGGGTTAAGGCGTTACTCGATTTTGTAGAGGATTCAAATACACAGAACCATGCCAATTCATTCGAGCAGAACACTTCCTTTGGATTCGCGAAGTCATACAGTTCGTATATTTCGCCCTTGATGTTGGCAGCCCAAAATGGCAGTACAGAGATTGTTCAGCTATTCCTTCAAAGGGGCTTTACAATTGAAGAACCGTTTTTGCATAATAGATCGTGCAAATGCGACAAGTGTGAAAGCTTAGGAAAGCGAATAGGTCGCTCAATTTATCGTTTACACAGCTACCGAGCGCTCGCAAGTCCTGTTTACTTATGCATGTCCTATTTGCTAGATAATTCGACGGAGGAGCAAAACATCAAATCGTCCAGAGACCCTATGGTGCGCGCCTTTCTACTAAACCGTGAGTTTGAGAACTTCGTGGAAGCGGAGTACGAATTCAAGAGCGATTACAAAAGGCTCTCTAACCAATGTGAAGAATTTGCTGTGTCCCTCCTTCAGAAATGTCGATCAATGGACGAAATAGGCAGCGTAATGGCCGTTCCCGGAATCGAGCAATTGAAACATGTTAAAGTGCGTGGAGGAAAAGAAGCCCAGAAGCTCAGTGTGTTGAATTTTGCTATTGCCAACAAAAACGAGAAGTTTGTGGCCCATCCTTACAGCCAGTTGATGCTGAATTCTGTACTCTACCAAGATTTGGGTGTATGGGAGGATCGAGGATTTTTCTCCAAGATGGTCTTTGGCTTGCTCTTTTCATCTCTGCTTCCTTTGTGGGCACTGGTTTATTTTGTGGCTCCAAAGAGCAACCTTAGCCAGCAgttagaaaaacctttttttaagtttttgaaCCATGCTGGTTCATTCGTCTGGTTTCTTGCGTTACTTATTTGTTCCTCAGTTCAAGACAAATTTTTCAATGTCCTGGAATTTTCACCCTTGGaTTTTCTAATAACGGTGTGGATCGCTGGTATGCTGGTCCAGGAGGCCAAAGAAGCGTATCAGCAGGGAAAAGAACGCTACTTGTCCCAGTACTGGAATTCAATCAATCTGTACATGTTAGGCTTTTTTGTAATTTCAGGAGTTTTCTGGCTCATTGGCTATTTCATGAATGTAGAGCAACAGAACGCCTGGCAGATACCCGTTGATGTTGTTTTTAACCAAAGCGCCAAAGAGGTTGCTTATCGATTGGTACTCTTGTCCAACGCTTTCTTTTCTGTTGGTCTGGTGCTAAGTTTTATTAACTTCTCCAATTTCTTCCAAGTCAGTTACTCTATCGGTCCTCTGCAATTATCGCTTGTGAATATGATTCGAGATATCGGCAAATTTTTGTTGCTGTTTCTGCTGTTATTCGTCTCGTTTGGACTCGCGGAGAGAAAGGTGTATTCTCGCTATGTTCAGGCCACAGAAAAATTTTCTGGAAACACAACGGAACACGAATTTGCCAAAGTAGGAGGAAGCTTGCGATATTTGTTTTGGTATGTGTTTGGAATGTCGGACTTGAAAGACTTGCAAACTACCGAAGACTTTGTCATCACACAGTACATTGGGGAGGTGTTGCTGGGACTTTACGCCATTGCTTCAGTTCTGGTGGCAATTAATATGTTGATAGCTATGATGTCAAACACTTATCAGAATGTTGTGaacGACGCGGACATCCAATGGAAATTCTCCAGAACTCGAATGTGGATGCCATATTTAGATGAAGGCAATGTGATGCCACCGCCTTTCAATCTTGTGCCTCCGCCACACGTGGTGTTCAAATTTTGTCGACGACTCTTTACGCATGGATGTCGTGGGCGACAAGGCGTCACAGCGTCTAGAATTAGAGATGTCGTGGTGGACGCACAAAATCGCCGCAAAGTGATGAAGCTCTTGATCCAGCGGTATCTTGTAAGTTTTAAGAAGACAAGGAACCATGCCTCCGTTCCTGACCTGCCAACCGACAATCAGGCAACTGAGCTTTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9MYW0	Short transient receptor potential channel 6 OS=Bos taurus OX=9913 GN=TRPC6 PE=2 SV=2
Q9Y210	Short transient receptor potential channel 6 OS=Homo sapiens OX=9606 GN=TRPC6 PE=1 SV=1
Q61143	Short transient receptor potential channel 6 OS=Mus musculus OX=10090 GN=Trpc6 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001051 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan
PF08344 all species →	TRP_2	Transient receptor ion channel II	Family	Interproscan
PF12796 all species →	Ank_2	Ankyrin repeats (3 copies)	Repeat	Interproscan
PF00023 all species →	Ank	Ankyrin repeat	Repeat	Interproscan

InterPro

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

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0005216 all species →	Molecular Function	monoatomic ion channel activity	Interproscan
GO:0006811 all species →	Biological Process	monoatomic ion transport	Interproscan
GO:0016020 all species →	Cellular Component	membrane	Interproscan
GO:0055085 all species →	Biological Process	transmembrane transport	Interproscan
GO:0005262 all species →	Molecular Function	calcium channel activity	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:0070588 all species →	Biological Process	calcium ion transmembrane transport	Interproscan
GO:0070679 all species →	Molecular Function	inositol 1,4,5 trisphosphate 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 g5058.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of g5058.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

46TPM > 0

3Conditions

11.3Max TPM

4.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	20	4.43	9.32
whole organisms · low pH treatment	15	15	5.00	11.27
whole organisms · extra low pH treatment pH treatment	12	11	4.55	9.36

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	9.32
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	8.94
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	8.30
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	7.58
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	5.14
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.11
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	4.99
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	4.71
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	4.71
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	4.56
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	4.41
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	4.26
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	3.82
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	3.81
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	3.25
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	2.72
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	2.37
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	2.28
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	2.27
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	0.45
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	0.00
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	11.27
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	7.45
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	7.20
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	7.19
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	5.54
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	5.46
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	5.39
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.47
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	4.05
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	3.74
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	3.40
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	3.39
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	2.89
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	1.80
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	1.71
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	9.36
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	7.66
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	6.74
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	4.78
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	4.78
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	4.47
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	4.36
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	3.38
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	3.24
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	3.23
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	2.59
SRR11452220	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.