Gene detail

Detailed information of g2491.t2 in Acropora digitifera

Genomic Location: chr2Alt:515404...523044
NR annotation: XP_044174396.1, cryptochrome-1-like [Acropora millepora]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

chr2Alt.g2491.t2

ATGGAAGCCTGTGAAACAAGTGTAACCCTGAGACCGGTCTTCTTTATTGACCCTGACTACGTGAAACATGGAAACATGGGCTTCAATCGATGGCGATTCCTCATAGAGTCGCTCAACGATATAAACGACAGTTTGGAAAAAATCGGTTCTAGATTATTTGTTGTGCATGGAAAGCCTGAAATAGAATTTCCAAAGCTGTTCAGGAAGTGGGAAGTCACAAAATTGACATTTGAATTTGATCATGAGCCTGATGGACGAGCAAGGGATTCAAAGATAACGAAACTAGCCGCTCAAAATGGCATCGAAGTTCAGACAAGAATCTGTCATTCATTGTACGACTTAGACGAGATTATTGAAAAGAATGATGGAAGAGCTCCTCTAACTTATAAGAGGCTCTGTTCTGTTGTTTCATCTCTGGGGCCACCATCAAAACCTGTACCAACCGTTGATCAGGAAACATTCAAAGGCTGCTCTACTCCAGCAAGTGAAAGTGATGAGAAAGATTACCATGTGCCAACACTTGAGGAGCTTGGAATTGAAAGACCTCATCAGACAAGTGGCATTCTCTTTCCTGGTGGCGAAACTGAAGCATTAAGACGTTTAAACGAACACATGGAGAAAGAGGACTGGGTCAACAAATTTGAAAAGCCCAACACTTCTCCTAACTCCCTTGAACCTAGCACCACTGTGCTTAGTCCTTACGTGATGTTTGGTTGCCTCTCAGCCAGATTGTTTTATCATAAATTATCTGAAGTGTATGCCAGGGCCAGAAAACATTCTCAGCCACCAGTTTCACTCCATGGACAGCTTTTGTGGAGGGAATTTTTCTACACGGTGGCATACAGAACTCCAAACTTTAATAAGATGAAAGACAATCCTGTGTGCTTGCAAGTGAATTGGGACAAAAATGAAGAGTTTATTCATGCATGGACAGAGGCACGCACTGGGTATCCATTCATTGATGCCATCATGACTCAACTTAGAAGGGAAGGGTGGATACACCACTTGGCTCGTCATGCTGTTGCTTGTTTCTTGACCAGAGGAGATTTATGGATAAGCTGGGAGGAGGGATTGAAGGTGTTTGAAAATCTTCTTCTTGATCATGATTGGAGTTTAAATGCTGGTAACTGGTTGTGGCTGTCTGCTAGTGCCTTTTTTCATGCCTATTTCAGAGTCTACAGTCCTGTGGCATTTGGCAAAAAAACTGACCCCAATGGACAGTACATCAAAAAATATTTACCAGCACTGAAAAAGTACCCAGCAAAATACATCTACGAACCCTGGAAAGCCCCTCTCACTGTTCAGCAAGCTGCAGGATGTTTGATTGGGAAGGACTATCCTAAACCCATTGTGGATCACACAAAGGTAGTGAAGGTCAACCTTGCTAAGATGAAGGACGCCAGAGAAAAGCAGTATGGTGGTTCCTCAGAACAAGGTGCAAAAAAAGATGAGAAAAGCAGTTCTCTAAAAAGAAAGATGAGGGAAAAGCCACCCTCTCCTGAGAAGAAGATGAAGAAAATTACTGATTTCCTGAAAGGATAGTGTCATCCACAAAATACATCGAGGGTTGGCATTAAATTATGACCAATAACAGAGAAACAATGTTGTAGTTAAATCTTAAAAGGTGCTCATTTTTTACTAAAGAAAGAAATTGAGAATTCTCTATTTTCCAATTCCCCATAATGCACTCTGTTTGCCCCCCAAATTTTGCATAAACTATTGTTGGGGAATGCTCTTGGGAATATGCAGACCTCCCAAGAGTATCTCACAACAATAGTTTATGCAAAATTTGGGGGGCAAACAGAGTGCATTACGGACAATTGGAAAATAGTGAATAAGGAATGACTTGGTTTGAAAGGAAAGGGTTGAAGTTTGTCACTTTGGCAGCTCAAGTTGTTGGTGCTGTATCTGTGTCTAGGATATCTAGTCTGGCTTTTTGCATTGAGCAGTAGTTTTATTCATTTATTGTAAACTTTCAATAAATATGTTTTATCACG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q16526	Cryptochrome-1 OS=Homo sapiens OX=9606 GN=CRY1 PE=1 SV=1
Q6ZZY0	Cryptochrome-1 OS=Sylvia borin OX=73324 GN=CRY1 PE=2 SV=1
Q8WP19	Cryptochrome-1 OS=Macaca fascicularis OX=9541 GN=CRY1 PE=2 SV=1

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00875 all species →	DNA_photolyase	DNA photolyase	Domain	Interproscan
PF03441 all species →	FAD_binding_7	FAD binding domain of DNA photolyase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036134 all species →	Homologous_superfamily	Cryptochrome/DNA photolyase, FAD-binding domain-like superfamily	Interproscan
IPR006050 all species →	Domain	DNA photolyase, N-terminal	Interproscan
IPR005101 all species →	Domain	Cryptochrome/DNA photolyase, FAD-binding domain	Interproscan
IPR002081 all species →	Family	Cryptochrome/DNA photolyase class 1	Interproscan
IPR014729 all species →	Homologous_superfamily	Rossmann-like alpha/beta/alpha sandwich fold	Interproscan
IPR036155 all species →	Homologous_superfamily	Cryptochrome/photolyase, N-terminal domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11455 all species →	CRYPTOCHROME	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003904 all species →	Molecular Function	deoxyribodipyrimidine photo-lyase activity	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	Interproscan
GO:0032922 all species →	Biological Process	circadian regulation of gene expression	Interproscan
GO:0043153 all species →	Biological Process	entrainment of circadian clock by photoperiod	Interproscan
GO:0071949 all species →	Molecular Function	FAD 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

KO	Enzyme	Enzyme ID	Pathway	Map ID	Source
K02295	CRY; cryptochrome	-	Circadian rhythm	ko04710	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of g2491.t2 across 39 RNA-seq samples of Acropora digitifera. 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.

39Samples

0TPM > 0

1Conditions

0.0Max TPM

0.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	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
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 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.