Gene detail

Detailed information of g17870.t1 in Montipora capitata

Genomic Location: Sc0000828:95823...107155
NR annotation: CAH3190642.1, unnamed protein product [Porites evermanni]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g17870.t1

atgttttttaaacttgccacgcagaaagatgggccaagtggaacaaccatagaagtgactccatcaaatacaacagtcctacgtggttcttctctctcgataaactgtaccacagatgccaaccctgtggctcatgtgtttcaattctaccttgacaatgtctacattgggaacagcagctcaggcgtgtacactgtcactgttactgcaggtggagcgtatgcgtgtgttcctgtcaacacagtcggtaaagaagaaaatgcaactgttgtcatcagtacagtttatgcgccctcagtgaaagtccatcctacatcctcagtcgttgtggagggacacaacatcacgttgaactgcgtggcatctggtagacctgaacctgtcttatcttggaccaaagttggtgaatctggtcaggtgttgtcagaaaatccctccttgattctttcaaacatgcacagacctggaactcttgacaacatgatacagtatcaatgcacagcggagaatggggtagagaatccggcattcgccattgctaatataaccgttcactatgggccaagtggaacaaccatagaactgagtccatcaaacacaacagtcctacttggttcttctctctcaataaactgcagcacagatgccaaccctatggcccatgtgtttgaattctaccttgatgatgtctatattgggaacagcagctctggcgtgtacaatgtcactgttagtgcagatggagtgtatacgtgtgttcctgtcaacacagtcggtaaagaagaaaatgcaactgttgtcatcagtacagttgatgccccctcagtgaaagtccatccaacatcttcagtcgttgtggagggacacaacatcacgttgaactgcgtggcatctggtagacctgaacctgtcttatcatggaccaaagttggtgaatctagccaggtgttgtcaaaaaattcctccttgattctttcaaacatgcgtagacctggaactcttgacaacacgatacagtatcaatgcacagctgagaatggggtagagaatccggcattcgccattgctaatataaccatccactacgggccaagtggaacagccatagaattgactccatcaaacacaacagtcgtacgtggttcttctttctcgataaactgtaccacagatgcaaaccctgtggcccatgtgtttcaattctaccttgatgatgtctatattgggaacagcagctcaggcgtgttcaatgtcactgttactgcagatggagcatatacgtgtgttcctgtcaacacagtcggtaaagaacgaaatgcaactgttgtcatcactacagttgatgcgccctcagtgaaagtcagtccaacctcttcagtcgttgtggagggacacaacatcacgttgaactgcgtggcatctggtagacctgaacctgtcttatcatggaccaaagttggtgaatctggtcaggtggtgtcagaaaatccctccttgattctttcaaacgtgcgtagatctggaactcttgacaacatgatacagtatcaatgcacagcggagaatggagtagagaatccggcattcgccattgctaatataaccgttcactatgggccaagtggaacaaccgtagaactgaccccatcaaacagaacagtcctacgtgattcttctctctcgataaactgcaccacagattccaaccctatggcccatgtttttcaattctaccttgatgatgtctatattggaaacagcacctcaggcgtgtacaatgtcactgttactgcagatggagcatatacgtgtgttcctgtcaacacagttggcaaagaacaaaatgcaactgttgtcatcagtacagttgatgcgccctcagtgaaagtccatccaacatcttcaattgttgtggagggacacaacatcacgctgaactgcgtgtcatctggtagacctgagcctgtgttatcatggaccaaagttggtgaatctggtcaggtgttgtcagaaaattcctccttggttcttccagacgtgcgtagacctggaactcttgccaacatgatacagtatcaatgcacagcggagaatggggtagaaaacccggcattcgccattgctaatataatcgtccactatgagcctacagtatcactccagcagtgtccaagtcacatagttgaaggaaacgacgccgtgctgttctgtaatgcgactggtaatcctgctccgaaggtcgcatgggtggaactacaaacgggagctatactccacagcagtgaaagccttatgctaaaaaccattgatcgcaatcaagctggaggctatcagtgtcatggtttcaacggaattggcaggaattccactaaaacgtgctatctggatgtcttctatgggccaagtggaacaaccatagaattggctccatcaaacacaacagtccgtcgtggttcttctctctcgttaaactgcagcacacatgccaaccctatggcccatgtgtttaaattctaccttgatgatgtctatattgggaacagcagctcaggcgtgttcaatgtcactgttactacagatggagcgtatacgtgtgttcctgtcaacacagtcggtaaagaagaaaatacaactgtggtcatcagtacagttgatgcaccctcagtgaaagtccaccctacattttcagtagttgtggagggaaacaacatcacgttgagctgcgtggcatatggtagacctgaacctgtcttatcatggaccaaagttggtgaatctagtcaggtgttgtcagaaaatccctccttgatcctttcaaacgtgcgtagacctggaactcttgacaacatgatacagtatcaatgcacagctgagaatggggtagagaatccggcattcgccattgctaatataaccgtccactatgggccaagtggaacaaccgtagaactgaccccatcaaacacaacagtcctacgtggttcttctctctcgataaactgcagcacagatgccaaccctatggcccatgtttttcaattctacctcgatgatatctatattggaaacagtacctcaggcatgtacaatgtcactgttactgcagatggagcgtatacgtgtgttccggtcaacacagtcggtaaagaagaaaatgcaactgttgtcatcagtacagttggtaagtggaatcgacatgcataa

Transcript

g17870.t1

atgttttttaaacttgccacgcagaaagATGGGCCAAGTGGAACAACCATAGAAGTGACTCCATCAAATACAACAGTCCTACGTGGTTCTTCTCTCTCGATAAACTGTACCACAGATGCCAACCCTGTGGCTCATGTGTTTCAATTCTACCTTGACAATGTCTACATTGGGAACAGCAGCTCAGGCGTGTACACTGTCACTGTTACTGCAGGTGGAGCGTATGCGTGTGTTCCTGTCAACACAGTCGGTaaagaagaaaatgcaactGTTGTCATCAGTACAGTTTATGCGCCCTCAGTGAAAGTCCATCCTACATCCTCAGTCGTTGTGGAGGGACACAACATCACGTTGAACTGCGTGGCATCTGGTAGACCTGAACCTGTCTTATCTTGGACCAAAGTTGGTGAATCTGGTCAGGTGTTGTCAGAAAATCCCTCCTTGATTCTTTCAAACATGCACAGACCTGGAACTCTTGACAACATGATACAGTATCAATGCACAGCGGAGAATGGGGTAGAGAATCCGGCATTCGCCATTGCTAATATAACCGTTCACTATGGGCCAAGTGGAACAACCATAGAACTGAGTCCATCAAACACAACAGTCCTACTTGGTTCTTCTCTCTCAATAAACTGCAGCACAGATGCCAACCCTATGGCCCATGTGTTTGAATTCTACCTTGATGATGTCTATATTGGGAACAGCAGCTCTGGCGTGTACAATGTCACTGTTAGTGCAGATGGAGTGTATACGTGTGTTCCTGTCAACACAGTCGGTaaagaagaaaatgcaactGTTGTCATCAGTACAGTTGATGCCCCCTCAGTGAAAGTCCATCCAACATCTTCAGTCGTTGTGGAGGGACACAACATCACGTTGAACTGCGTGGCATCTGGTAGACCTGAACCTGTCTTATCATGGACCAAAGTTGGTGAATCTAGCCAGGTGTTGTCAAAAAATTCCTCCTTGATTCTTTCAAACATGCGTAGACCTGGAACTCTTGACAACACGATACAGTATCAATGCACAGCTGAGAATGGGGTAGAGAATCCGGCATTCGCCATTGCTAATATAACCATCCACTACGGGCCAAGTGGAACAGCCATAGAATTGACTCCATCAAACACAACAGTCGTACGTGGTTCTTCTTTCTCGATAAACTGTACCACAGATGCAAACCCTGTGGCCCATGTGTTTCAATTCTACCTTGATGATGTCTATATTGGGAACAGCAGCTCAGGCGTGTTCAATGTCACTGTTACTGCAGATGGAGCATATACGTGTGTTCCTGTCAACACAGTCGGTAAAGAACGAAATGCAACTGTTGTCATCACTACAGTTGATGCGCCCTCAGTGAAAGTCAGTCCAACCTCTTCAGTCGTTGTGGAGGGACACAACATCACGTTGAACTGCGTGGCATCTGGTAGACCTGAACCTGTCTTATCATGGACCAAAGTTGGTGAATCTGGTCAGGTGGTGTCAGAAAATCCCTCCTTGATTCTTTCAAACGTGCGTAGATCTGGAACTCTTGACAACATGATACAGTATCAATGCACAGCGGAGAATGGAGTAGAGAATCCGGCATTCGCCATTGCTAATATAACCGTTCACTATGGGCCAAGTGGAACAACCGTAGAACTGACCCCATCAAACAGAACAGTCCTACGTGATTCTTCTCTCTCGATAAACTGCACCACAGATTCCAACCCTATGGCCCATGTTTTTCAATTCTACCTTGATGATGTCTATATTGGAAACAGCACCTCAGGCGTGTACAATGTCACTGTTACTGCAGATGGAGCATATACGTGTGTTCCTGTCAACACAGTTGGCAAAGAACAAAATGCAACTGTTGTCATCAGTACAGTTGATGCGCCCTCAGTGAAAGTCCATCCAACATCTTCAATTGTTGTGGAGGGACACAACATCACGCTGAACTGCGTGTCATCTGGTAGACCTGAGCCTGTGTTATCATGGACCAAAGTTGGTGAATCTGGTCAGGTGTTGTCAGAAAATTCCTCCTTGGTTCTTCCAGACGTGCGTAGACCTGGAACTCTTGCCAACATGATACAGTATCAATGCACAGCGGAGAATGGGGTAGAAAACCCGGCATTCGCCATTGCTAATATAATCGTCCACTATGAGCCTACAGTATCACTCCAGCAGTGTCCAAGTCACATAGTTGAAGGAAACGACGCCGTGCTGTTCTGTAATGCGACTGGTAATCCTGCTCCGAAGGTCGCATGGGTGGAACTACAAACGGGAGCTATACTCCACAGCAGTGAAAGCCTTATGCTAAAAACCATTGATCGCAATCAAGCTGGAGGCTATCAGTGTCATGGTTTCAACGGAATTGGCAGGAATTCCACTAAAACGTGCTATCTGGATGTCTTCTaTGGGCCAAGTGGAACAACCATAGAATTGGCTCCATCAAACACAACAGTCCGTCGTGGTTCTTCTCTCTCGTTAAACTGCAGCACACATGCCAACCCTATGGCCCATGTGTTTAAATTCTACCTTGATGATGTCTATATTGGGAACAGCAGCTCAGGCGTGTTCAATGTCACTGTTACTACAGATGGAGCGTATACGTGTGTTCCTGTCAACACAGTCGGTAAAGAAGAAAATACAACTGTGGTCATCAGTACAGTTGATGCACCCTCAGTGAAAGTCCACCCTACATTTTCAGTAGTTGTGGAGGGAAACAACATCACGTTGAGCTGCGTGGCATATGGTAGACCTGAACCTGTCTTATCATGGACCAAAGTTGGTGAATCTAGTCAGGTGTTGTCAGAAAATCCCTCCTTGATCCTTTCAAACGTGCGTAGACCTGGAACTCTTGACAACATGATACAGTATCAATGCACAGCTGAGAATGGGGTAGAGAATCCGGCATTCGCCATTGCTAATATAACCGTCCACTATGGGCCAAGTGGAACAACCGTAGAACTGACCCCATCAAACACAACAGTCCTACGTGGTTCTTCTCTCTCGATAAACTGCAGCACAGATGCCAACCCTATGGCCCATGTTTTTCAATTCTACCTCGATGATATCTATATTGGAAACAGTACCTCAGGCATGTACAATGTCACTGTTACTGCAGATGGAGCGTATACGTGTGTTCCGGTCAACACAGTCGGTaaagaagaaaatgcaactGTTGTCATCAGTACAGTTGGTAAGTGGAATCGACATGCATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
D3YXG0	Hemicentin-1 OS=Mus musculus OX=10090 GN=Hmcn1 PE=1 SV=1
Q8NDA2	Hemicentin-2 OS=Homo sapiens OX=9606 GN=HMCN2 PE=1 SV=4
Q6WRI0	Immunoglobulin superfamily member 10 OS=Homo sapiens OX=9606 GN=IGSF10 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000552 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13927 all species →	Ig_3	Immunoglobulin domain	Domain	Interproscan
PF13895 all species →	Ig_2	Immunoglobulin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR003599 all species →	Domain	Immunoglobulin subtype	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46958 all species →	B-CELL RECEPTOR CD22	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005769 all species →	Cellular Component	early endosome	Interproscan
GO:0005887 all species →	Cellular Component	plasma membrane	Interproscan
GO:0009897 all species →	Cellular Component	external side of plasma membrane	Interproscan
GO:0019903 all species →	Molecular Function	protein phosphatase binding	Interproscan
GO:0030888 all species →	Biological Process	regulation of B cell proliferation	Interproscan
GO:0033691 all species →	Molecular Function	sialic acid binding	Interproscan
GO:0042113 all species →	Biological Process	B cell activation	Interproscan
GO:0042609 all species →	Molecular Function	CD4 receptor binding	Interproscan
GO:0050859 all species →	Biological Process	negative regulation of B cell receptor signaling pathway	Interproscan
GO:0055037 all species →	Cellular Component	recycling endosome	Interproscan
GO:0070062 all species →	Cellular Component	extracellular exosome	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 g17870.t1.

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

Expression pattern (RNA-seq)

Transcript abundance of g17870.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

48TPM > 0

3Conditions

58.9Max TPM

10.9Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	10.86	58.86
whole organisms · low pH treatment	15	15	10.88	24.14
whole organisms · extra low pH treatment pH treatment	12	12	10.97	32.61

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	58.86
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	28.76
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	22.01
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	14.01
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	12.98
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	10.02
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	9.94
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	8.96
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	8.44
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	7.83
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	7.04
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	6.01
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	5.92
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.27
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	4.74
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	4.29
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	4.25
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	3.80
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	2.39
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	1.49
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	1.08
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	24.14
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	19.32
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	17.89
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	16.74
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	14.48
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	14.21
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	13.94
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	10.03
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	9.74
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	5.04
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.92
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.63
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	3.09
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	2.56
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	2.44
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	32.61
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	16.59
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	14.72
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	13.11
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	11.03
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	10.34
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	8.50
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	6.32
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	5.53
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	4.83
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	4.25
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	3.80

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.