Gene detail

Detailed information of evm.model.Ap8.1474 in Astrangia poculata

Genomic Location: Ap8:16626329...16643455
NR annotation: KAJ7371584.1, Hemicentin-1 [Desmophyllum pertusum]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap8.1474

atgaagcgtttaatccggtggcctgtcttcgcatgtatccttgtgggtctgcttcctatgtgcgcatgtttctcgtggacacaggaaccaaacaaacccacacaagcaagtccaggttccacaagtgttctccaatggaattttgagcctgccggcgacagtttctggtttcttttggtatccaggaacacttccacatcaaataattcaagtgaagaagacatcgcattaaaattatcaaatggaagcacacatgtttatgatgagttcaagagccgagcggagttgattaatcaggccactctggttttacacgacattaaagattccgacgtggggagatattgctgtaaggctttcttcatgcaaggaatgtacacaagttgtgtggatttattagttctggcaagtttttcgtggacacaggaaccaaacaaacccacacaagcaagtccaggttccactagtgttctccagtggaattttgagcctgccggcgacagtttctggtttcttttggtatccaggaacacttccacctcaagtaattcaagcgaagaagatatcgcattaaaactatcaaatggaagcacacatgtttatgatgagttcaagagccgagcggagttgattaaccaggccacccttgttttacacgacattaaagattccgacgtgggaagatattgctgtaaggctttcttcatgcaaggaatgtacacaagttgtgtagatttattagttctggcccctccggccattgtcattcctccaattaacacgaccatcatagaattcaatgaagtgctgtccttctgcaatgcctctggtgagccacgccctacgatcacctggcgcaggggagataaagaactggtgttccctccgggagaatacttcacacttcctaacgtttccagagatgataccggattgtacgaatgcatagcacagaacagtgttggacaagtgtcagcgcagtttaggataaacgtgctttaccaaccaacggcgcacgtcatcccggaaaatcttactgtcaatcaaagtgacatgataacacttacatgtctgacgtcaggaaatccctctcctaatgtcacgtggacagtggacggtaacacgtcagcgattctgtcagctgataataaacttgaaatgattgcaacaagcaaggcaaacgaagggagataccgctgtacagcttcaaatggaattggttttcccagcatctcaacagcatatgtatttgttaaacaccatcgtccgattaatacatcattcatttcctgttcatccgataacacggcctgggtaaatgatggtattgtattcacctgttcctcagtcagtagtccatctccagctacgtttgtgatatatcataacggcaagatcattaagaaaaataaatccggatatcataaaatatgcaacgtcaaactacaccatgccggtacctacacgtgtgaaccaagaaatacttttggtgtcggagagaggagaagtatgcgcttaactgtttatgaaaaggtcgctgttcacgtgatcccacgtgtagtgaacgtgacagaaggaagttctgttcttttaatatgtaaagccacaggaagcccaccacccaacatcacgtggacatccatgtccagcggagaaatctacaacggaggcaaacttgaaatgaaaagtgtccaaagaaatgacaccggcgattatgaatgttcagcaagtaatggaatgtcaaaccccgtcaaagatactgcgtttcttaatgtatattacgctcctacaatcaccaacactgccggaccaaacgttatagtcaacgagggcagcacactacaactctattgccatggcgacggaaaccctcagccaattataacttggaaattactgggcaccaatcaatctctgcatggagaagaggaacgacttatgatgcaaaatacacagaaatcacaagcaggagtttatctgtgcacggcaaataatttcttggggaacgattctaaaacaatagttgtggatgtttggtacaaacccttcaacaccagtttacagtcatctgtaaaatccagcatgatgaaatttaactcttcagtgacaattacatgcagaacaaactccatcccgccacctcatatttacactttctacaaagatggtgtcgttgtgcagaaagggaccgcagaatcttttaatattgctcaagttggctatcatgaccaaggttcctatgaatgcgttgcagagaatgcgcctgggcgtgactttagtgctgtgttaaatctcacggtgcaacgccctccgtttgtcattgatggaccacgcaatcaaacaatcaacgaaagtgatgcattgttgctgacttgtaatgttggtggcaatccaactccaaatatatcttggtttgatgacagtaataaagaattagcaacagggagtgttttgtttatcagtcacgccaacagaagtcacgctgggagttatcggtgtatcgcttctaatgggcttggtaatgctgttagttctcaagccacagtactcgtcaactataaaccaatagtactttccggtaagaaaaatatcagctcatggattggagatgagactcaaatccagtgccgcgcggagggcttccctctgccaaccattcactggtctgcgaaaggcgtggtgactactctcaaactctcaaagacaactgcacatagtacattaactgtaacaccaacgagccaatcagatttcaccatttactcctgttacgcacagaataaacttggatacgacagtgaaagctttatacttgaacaacttgtaacttctgatcctccagttataacgcatttggaattcggaagttccttcatccgagtgacttggaaagctcctgtaagcaatataggagaacctgtgactagctacatagttcaagcagtcgacgaaaagaacccaaataatgtgtttaactgttctgatgttacccacaatagttgcaccatatatggattagaacccgagacaacttacctcgtccgaatacaagccacaaacgtcgagggtcacagtttttcagcgcatgaaaaagttgtgacaaagtataaaggttattcaaagagcaaagaaagagaaacggaaaatgaaggaaataaaggaatttcaacaaccatgtttataagcgtgctagcagggattggtggagttattgtattcatagttgtggtttctttgttggtgaaacaccggaggtctactgggaaagcaacaatcactaaggaataa

Transcript

evm.model.Ap8.1474

ATGAAGCGTTTAATCCGGTGGCCTGTCTTCGCATGTATCCTTGTGGGTCTGCTTCCTATGTGCGCATGTTTCTCGTGGACACAGGAACCAAACAAACCCACACAAGCAAGTCCAGGTTCCACAAGTGTTCTCCAATGGAATTTTGAGCCTGCCGGCGACAGTTTCTGGTTTCTTTTGGTATCCAGGAACACTTCCACATCAAATAATTCAAGTGAAGAAGACATCGCATTAAAATTATCAAATGGAAGCACACATGTTTATGATGAGTTCAAGAGCCGAGCGGAGTTGATTAATCAGGCCACTCTGGTTTTACACGACATTAAAGATTCCGACGTGGGGAGATATTGCTGTAAGGCTTTCTTCATGCAAGGAATGTACACAAGTTGTGTGGATTTATTAGTTCTGGCAAGTTTTTCGTGGACACAGGAACCAAACAAACCCACACAAGCAAGTCCAGGTTCCACTAGTGTTCTCCAGTGGAATTTTGAGCCTGCCGGCGACAGTTTCTGGTTTCTTTTGGTATCCAGGAACACTTCCACCTCAAGTAATTCAAGCGAAGAAGATATCGCATTAAAACTATCAAATGGAAGCACACATGTTTATGATGAGTTCAAGAGCCGAGCGGAGTTGATTAACCAGGCCACCCTTGTTTTACACGACATTAAAGATTCCGACGTGGGAAGATATTGCTGTAAGGCTTTCTTCATGCAAGGAATGTACACAAGTTGTGTAGATTTATTAGTTCTGGCCCCTCCGGCCATTGTCATTCCTCCAATTAACACGACCATCATAGAATTCAATGAAGTGCTGTCCTTCTGCAATGCCTCTGGTGAGCCACGCCCTACGATCACCTGGCGCAGGGGAGATAAAGAACTGGTGTTCCCTCCGGGAGAATACTTCACACTTCCTAACGTTTCCAGAGATGATACCGGATTGTACGAATGCATAGCACAGAACAGTGTTGGACAAGTGTCAGCGCAGTTTAGGATAAACGTGCTTTACCAACCAACGGCGCACGTCATCCCGGAAAATCTTACTGTCAATCAAAGTGACATGATAACACTTACATGTCTGACGTCAGGAAATCCCTCTCCTAATGTCACGTGGACAGTGGACGGTAACACGTCAGCGATTCTGTCAGCTGATAATAAACTTGAAATGATTGCAACAAGCAAGGCAAACGAAGGGAGATACCGCTGTACAGCTTCAAATGGAATTGGTTTTCCCAGCATCTCAACAGCATATGTATTTGTTAAACACCATCGTCCGATTAATACATCATTCATTTCCTGTTCATCCGATAACACGGCCTGGGTAAATGATGGTATTGTATTCACCTGTTCCTCAGTCAGTAGTCCATCTCCAGCTACGTTTGTGATATATCATAACGGCAAGATCATTAAGAAAAATAAATCCGGATATCATAAAATATGCAACGTCAAACTACACCATGCCGGTACCTACACGTGTGAACCAAGAAATACTTTTGGTGTCGGAGAGAGGAGAAGTATGCGCTTAACTGTTTATGAAAAGGTCGCTGTTCACGTGATCCCACGTGTAGTGAACGTGACAGAAGGAAGTTCTGTTCTTTTAATATGTAAAGCCACAGGAAGCCCACCACCCAACATCACGTGGACATCCATGTCCAGCGGAGAAATCTACAACGGAGGCAAACTTGAAATGAAAAGTGTCCAAAGAAATGACACCGGCGATTATGAATGTTCAGCAAGTAATGGAATGTCAAACCCCGTCAAAGATACTGCGTTTCTTAATGTATATTACGCTCCTACAATCACCAACACTGCCGGACCAAACGTTATAGTCAACGAGGGCAGCACACTACAACTCTATTGCCATGGCGACGGAAACCCTCAGCCAATTATAACTTGGAAATTACTGGGCACCAATCAATCTCTGCATGGAGAAGAGGAACGACTTATGATGCAAAATACACAGAAATCACAAGCAGGAGTTTATCTGTGCACGGCAAATAATTTCTTGGGGAACGATTCTAAAACAATAGTTGTGGATGTTTGGTACAAACCCTTCAACACCAGTTTACAGTCATCTGTAAAATCCAGCATGATGAAATTTAACTCTTCAGTGACAATTACATGCAGAACAAACTCCATCCCGCCACCTCATATTTACACTTTCTACAAAGATGGTGTCGTTGTGCAGAAAGGGACCGCAGAATCTTTTAATATTGCTCAAGTTGGCTATCATGACCAAGGTTCCTATGAATGCGTTGCAGAGAATGCGCCTGGGCGTGACTTTAGTGCTGTGTTAAATCTCACGGTGCAACGCCCTCCGTTTGTCATTGATGGACCACGCAATCAAACAATCAACGAAAGTGATGCATTGTTGCTGACTTGTAATGTTGGTGGCAATCCAACTCCAAATATATCTTGGTTTGATGACAGTAATAAAGAATTAGCAACAGGGAGTGTTTTGTTTATCAGTCACGCCAACAGAAGTCACGCTGGGAGTTATCGGTGTATCGCTTCTAATGGGCTTGGTAATGCTGTTAGTTCTCAAGCCACAGTACTCGTCAACTATAAACCAATAGTACTTTCCGGTAAGAAAAATATCAGCTCATGGATTGGAGATGAGACTCAAATCCAGTGCCGCGCGGAGGGCTTCCCTCTGCCAACCATTCACTGGTCTGCGAAAGGCGTGGTGACTACTCTCAAACTCTCAAAGACAACTGCACATAGTACATTAACTGTAACACCAACGAGCCAATCAGATTTCACCATTTACTCCTGTTACGCACAGAATAAACTTGGATACGACAGTGAAAGCTTTATACTTGAACAACTTGTAACTTCTGATCCTCCAGTTATAACGCATTTGGAATTCGGAAGTTCCTTCATCCGAGTGACTTGGAAAGCTCCTGTAAGCAATATAGGAGAACCTGTGACTAGCTACATAGTTCAAGCAGTCGACGAAAAGAACCCAAATAATGTGTTTAACTGTTCTGATGTTACCCACAATAGTTGCACCATATATGGATTAGAACCCGAGACAACTTACCTCGTCCGAATACAAGCCACAAACGTCGAGGGTCACAGTTTTTCAGCGCATGAAAAAGTTGTGACAAAGTATAAAGGTTATTCAAAGAGCAAAGAAAGAGAAACGGAAAATGAAGGAAATAAAGGAATTTCAACAACCATGTTTATAAGCGTGCTAGCAGGGATTGGTGGAGTTATTGTATTCATAGTTGTGGTTTCTTTGTTGGTGAAACACCGGAGGTCTACTGGGAAAGCAACAATCACTAAGGAATAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
D3YXG0	Hemicentin-1 OS=Mus musculus OX=10090 GN=Hmcn1 PE=1 SV=1
Q96RW7	Hemicentin-1 OS=Homo sapiens OX=9606 GN=HMCN1 PE=1 SV=2
Q8NDA2	Hemicentin-2 OS=Homo sapiens OX=9606 GN=HMCN2 PE=1 SV=4

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0000332 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF13895 all species →	Ig_2	Immunoglobulin domain	Domain	Interproscan
PF00041 all species →	fn3	Fibronectin type III domain	Domain	Interproscan
PF13927 all species →	Ig_3	Immunoglobulin domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR003599 all species →	Domain	Immunoglobulin subtype	Interproscan
IPR036179 all species →	Homologous_superfamily	Immunoglobulin-like domain superfamily	Interproscan
IPR013783 all species →	Homologous_superfamily	Immunoglobulin-like fold	Interproscan
IPR007110 all species →	Domain	Immunoglobulin-like domain	Interproscan
IPR003961 all species →	Domain	Fibronectin type III	Interproscan
IPR003598 all species →	Domain	Immunoglobulin subtype 2	Interproscan
IPR036116 all species →	Homologous_superfamily	Fibronectin type III superfamily	Interproscan

PANTHER

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

Gene Ontology

GO term	Category	Description	Source
GO:0005515 all species →	Molecular Function	protein binding	Interproscan
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 evm.model.Ap8.1474.

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

Expression pattern (RNA-seq)

Transcript abundance of evm.model.Ap8.1474 across 49 RNA-seq samples of Astrangia poculata. This gene has no row in the species' RNA-seq expression matrix, so every value below is shown as zero — the matrix simply does not cover this transcript. 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.

49Samples

0TPM > 0

4Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
whole organism · cold control	14	0	0.00	0.00
whole organism · heat control	12	0	0.00	0.00
whole organism · cold challenge	12	0	0.00	0.00
whole organism · heat challenge	11	0	0.00	0.00

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study
SRR10674714	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674715	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674724	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674733	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674734	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674735	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674736	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674737	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674739	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674743	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674746	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674747	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674748	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674750	whole organism · cold control	whole organism	not recorded	cold control	SRP237293
SRR10674706	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674707	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674708	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674717	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674718	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674720	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674721	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674725	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674731	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674741	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674752	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674753	whole organism · heat control	whole organism	not recorded	heat control	SRP237293
SRR10674711	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674712	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674713	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674722	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674723	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674730	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674732	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674738	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674740	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674744	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674745	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674749	whole organism · cold challenge	whole organism	not recorded	cold challenge	SRP237293
SRR10674709	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674710	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674716	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674719	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674726	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674727	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674728	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674729	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674742	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674751	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293
SRR10674754	whole organism · heat challenge	whole organism	not recorded	heat challenge	SRP237293

Source: CnidoSite RNA-seq expression matrices (APOCU_TPM, StringTie quantification over 49 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.