Gene detail

Detailed information of evm.model.Ap1.690 in Astrangia poculata

Genomic Location: Ap1:6708389...6720456
NR annotation: KAJ7388458.1, Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 3 [Desmophyllum pertusum]
Species Astrangia poculata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

evm.model.Ap1.690

atgagtgaaattcgcagtgaagatgcggagctcaaacaggaaagtggatcttgtgaatcgatcgacaaattgcaatcagatctggcgtgtaatgaagttgaagaaccggcaacggacggaaaatgcgttgaacaatctatcgctaccgaaaatgaatccgaagacgattcacctaaggaaaaaagaactagcgaatcttcttacggaacggaaaactcgattttgtcttcgcatttgagtctgcaagcgctacaagcgctgaacgacggaaatgcgcaaagcgatgatgaaatgcggagtgctgtggaaatgtgccttttcgaacaaggaccgttaaatgaaattgcaaccgaagaaaatcctgaagctttcattcgtgaattcgactcgacgtgtagtagtccgcttctaaatggccatgcagtagataatgatgttcatatcacaacagaaaaaccacaagaaaataattcggaaagaaacattcacgtaaagaacagagggaaaaagattatttcgttcttcagcaggaaaccgcgcacatcgcgaatgaactcaaaaagatccaacggcgatgttattattacaattgacactgatgaagtgagcgtccttgatccgcgaccgaaaccaaagccctcctttaatgatcgtttgaaaggctggcttcaacccatggataacaaaatgaacatgaaagtttttggaagtaggaaagctatggcagaggaactcttacggtacaagaaggctggttggataattcacccgacaagtgccttcaggctctattgggatcttatgattctttccttgttgattgtgaatatgttcgtcctgccggtcgccattgcgttctttactgacgattttagtacctcttggatcgtttttaacagcttatccgatggactttttctcttggacattgttttgaactttaaaactggagtgctggttcatggcactccgaacaaatttatcttagatccaaagaaaattgcaatacggtacgcgaggacatggtttctgatagatcttatatcttcgtttccatttgattacgtcgtttcgtcggctagcagttcgggatctgggcgactactcggcgcatctcgggcgctacgtatcctgcgcatggctaaactgctcagtctactgcgcctgctcagaatatcgcgtcttgttcgttacgtccatcagtatgaagagattctgaatgtaactcgttctgtaatccggtttgtaaacctgatcagcctgatgatgctggtagcccactggaatggctgtatgcaatatctcgtaccagttctcgacgattttccggatgactcgtgggttatgatccacggcttacgggacaaggcatggaccgagcaatatctatgggcgcttttcaaggccttatctcacatgttatgtattggttatgggcgtcacccgccacaaaacatccctgagacctgcgtcacgatatcaagcatgatgacaggagcgacattttacgcgctgttcattgcttattctattaacgttatacagacgatggattctcctggtcgcagctataaggagaagatacaacaaatcgaggagtacatggctcaccggaagctgcctgttaatctcagagacaaaattacgaagtattatgagcacagatttcaaggaaaactatttgaagaggagaaacttctggccgaggtgtctcgaccattgcgaaaggccatcgtcaattataactgccgagagctcgtgcgtgctgtaccattcttctatgacgctgatccagacttcgtgtcggccataataacaaaactagagttcgaagtctacctggaaggtgacgtcatcattcgcgagggagagttcggaacagagatgtattttcttaagtcaggggtcgtgggcgtgagttgtgatgggttaaccactgacgatttgactgatggctcatattttggagaaatctgtctcttgacaaacgccagacgcactgcgaccatcgtagcgaaatctctgtgcgacatattcattctacacgcggaggactttagggaggtagtggatgaatacccggagatgcgacaagtcatggagtcagtggcgactcaacgattgagcagaatgggcaaatcagtggacttttcggcttgtccgtcaagagagaatctattggcacagcttcggagcagctccagacctagcagtatatgcggcagttgctccaacttactacagccgcgggaaaatcatccggagattgtaattactagggactattcatctgacgacggcatgtgtgataacaacgaaatcatttaa

Transcript

evm.model.Ap1.690

ATGAGTGAAATTCGCAGTGAAGATGCGGAGCTCAAACAGGAAAGTGGATCTTGTGAATCGATCGACAAATTGCAATCAGATCTGGCGTGTAATGAAGTTGAAGAACCGGCAACGGACGGAAAATGCGTTGAACAATCTATCGCTACCGAAAATGAATCCGAAGACGATTCACCTAAGGAAAAAAGAACTAGCGAATCTTCTTACGGAACGGAAAACTCGATTTTGTCTTCGCATTTGAGTCTGCAAGCGCTACAAGCGCTGAACGACGGAAATGCGCAAAGCGATGATGAAATGCGGAGTGCTGTGGAAATGTGCCTTTTCGAACAAGGACCGTTAAATGAAATTGCAACCGAAGAAAATCCTGAAGCTTTCATTCGTGAATTCGACTCGACGTGTAGTAGTCCGCTTCTAAATGGCCATGCAGTAGATAATGATGTTCATATCACAACAGAAAAACCACAAGAAAATAATTCGGAAAGAAACATTCACGTAAAGAACAGAGGGAAAAAGATTATTTCGTTCTTCAGCAGGAAACCGCGCACATCGCGAATGAACTCAAAAAGATCCAACGGCGATGTTATTATTACAATTGACACTGATGAAGTGAGCGTCCTTGATCCGCGACCGAAACCAAAGCCCTCCTTTAATGATCGTTTGAAAGGCTGGCTTCAACCCATGGATAACAAAATGAACATGAAAGTTTTTGGAAGTAGGAAAGCTATGGCAGAGGAACTCTTACGGTACAAGAAGGCTGGTTGGATAATTCACCCGACAAGTGCCTTCAGGCTCTATTGGGATCTTATGATTCTTTCCTTGTTGATTGTGAATATGTTCGTCCTGCCGGTCGCCATTGCGTTCTTTACTGACGATTTTAGTACCTCTTGGATCGTTTTTAACAGCTTATCCGATGGACTTTTTCTCTTGGACATTGTTTTGAACTTTAAAACTGGAGTGCTGGTTCATGGCACTCCGAACAAATTTATCTTAGATCCAAAGAAAATTGCAATACGGTACGCGAGGACATGGTTTCTGATAGATCTTATATCTTCGTTTCCATTTGATTACGTCGTTTCGTCGGCTAGCAGTTCGGGATCTGGGCGACTACTCGGCGCATCTCGGGCGCTACGTATCCTGCGCATGGCTAAACTGCTCAGTCTACTGCGCCTGCTCAGAATATCGCGTCTTGTTCGTTACGTCCATCAGTATGAAGAGATTCTGAATGTAACTCGTTCTGTAATCCGGTTTGTAAACCTGATCAGCCTGATGATGCTGGTAGCCCACTGGAATGGCTGTATGCAATATCTCGTACCAGTTCTCGACGATTTTCCGGATGACTCGTGGGTTATGATCCACGGCTTACGGGACAAGGCATGGACCGAGCAATATCTATGGGCGCTTTTCAAGGCCTTATCTCACATGTTATGTATTGGTTATGGGCGTCACCCGCCACAAAACATCCCTGAGACCTGCGTCACGATATCAAGCATGATGACAGGAGCGACATTTTACGCGCTGTTCATTGCTTATTCTATTAACGTTATACAGACGATGGATTCTCCTGGTCGCAGCTATAAGGAGAAGATACAACAAATCGAGGAGTACATGGCTCACCGGAAGCTGCCTGTTAATCTCAGAGACAAAATTACGAAGTATTATGAGCACAGATTTCAAGGAAAACTATTTGAAGAGGAGAAACTTCTGGCCGAGGTGTCTCGACCATTGCGAAAGGCCATCGTCAATTATAACTGCCGAGAGCTCGTGCGTGCTGTACCATTCTTCTATGACGCTGATCCAGACTTCGTGTCGGCCATAATAACAAAACTAGAGTTCGAAGTCTACCTGGAAGGTGACGTCATCATTCGCGAGGGAGAGTTCGGAACAGAGATGTATTTTCTTAAGTCAGGGGTCGTGGGCGTGAGTTGTGATGGGTTAACCACTGACGATTTGACTGATGGCTCATATTTTGGAGAAATCTGTCTCTTGACAAACGCCAGACGCACTGCGACCATCGTAGCGAAATCTCTGTGCGACATATTCATTCTACACGCGGAGGACTTTAGGGAGGTAGTGGATGAATACCCGGAGATGCGACAAGTCATGGAGTCAGTGGCGACTCAACGATTGAGCAGAATGGGCAAATCAGTGGACTTTTCGGCTTGTCCGTCAAGAGAGAATCTATTGGCACAGCTTCGGAGCAGCTCCAGACCTAGCAGTATATGCGGCAGTTGCTCCAACTTACTACAGCCGCGGGAAAATCATCCGGAGATTGTAATTACTAGGGACTATTCATCTGACGACGGCATGTGTGATAACAACGAAATCATTTAA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
O88703	Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 OS=Mus musculus OX=10090 GN=Hcn2 PE=1 SV=1
Q9JKA9	Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 OS=Rattus norvegicus OX=10116 GN=Hcn2 PE=1 SV=4
Q9UL51	Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel 2 OS=Homo sapiens OX=9606 GN=HCN2 PE=1 SV=3

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001629 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08412 all species →	Ion_trans_N	Ion transport protein N-terminal	Family	Interproscan
PF00520 all species →	Ion_trans	Ion transport protein	Family	Interproscan
PF00027 all species →	cNMP_binding	Cyclic nucleotide-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR000595 all species →	Domain	Cyclic nucleotide-binding domain	Interproscan
IPR018488 all species →	Conserved_site	Cyclic nucleotide-binding, conserved site	Interproscan
IPR013621 all species →	Domain	Ion transport N-terminal	Interproscan
IPR005821 all species →	Domain	Ion transport domain	Interproscan
IPR018490 all species →	Homologous_superfamily	Cyclic nucleotide-binding domain superfamily	Interproscan
IPR051413 all species →	Family	Potassium/sodium hyperpolarization-activated cyclic nucleotide-gated channel	Interproscan
IPR014710 all species →	Homologous_superfamily	RmlC-like jelly roll fold	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR45689 all species →	I[[H]] CHANNEL, ISOFORM E	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:0003254 all species →	Biological Process	regulation of membrane depolarization	Interproscan
GO:0005249 all species →	Molecular Function	voltage-gated potassium channel activity	Interproscan
GO:0035725 all species →	Biological Process	sodium ion transmembrane transport	Interproscan
GO:0071805 all species →	Biological Process	potassium ion transmembrane transport	Interproscan
GO:0098855 all species →	Cellular Component	HCN channel complex	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
K04955	HCN2; hyperpolarization activated cyclic nucleotide-gated potassium channel 2	-	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 evm.model.Ap1.690 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.