Gene detail

Detailed information of XP_068745366.1 in Montipora capricornis

Genomic Location: chr3:39784150...39789238
NR annotation: XP_029212918.2, cryptochrome DASH-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068889265.1

ttaacaatcaacgcaagaTCGCAAGATCGCATGTTTCATGCAACACGTAGTCGCCGTTGTTTCTCGCTGTTTTTCGATCTGTTGATTGGAGGAAGAGGCCCATTCCAGTCTATGGTAGGAAGGCAGAGAACAAAGACAAAACAGGTTATGGCGACCAAAAATAGCAATTCCATAGTAATCTACCTGATGAGGAATGACCTTCGTTTACACGATAACGAGTGCTTGAACTGGGCTCAACTGAATGCAGACTTTGTGGTTCCTTTGTACTGCTTTGACAAGAACATATTTGGGCATAATGCTCTGACATGGCATTTTAAGTTTGCAAAGACTGCAATTCACAGAGCTAAATTCATACTTGAGAGTGTTAAAGACTTGAGAGACTCTTTAGAGAAATGTGGTAGCACACTACTGGTATGCAGCAGGCAGACAACTAAAGATGCTGTTTCAGAAATCATTCAGTTTTGCCATAAGGAAAATTACCAGAATCTTTCACTTGTTTATCAGAGAGAAATCACTAAGGAGGAGACAGATATTGAGGCTGAGTTGATGGAGCTCTGTAGGAaagaaaatgtgacagtgaagtcATTTTGGGGCTTAACACTGTACCATTTTGAAGACCTTCCTTTTTCATCATTGCGCCATTTACCTGATACCTATACAGAATTTAGAAAAAATGTAGAGGCCAGATGTAGAGTGCGACCAGTGATATCTGTTCCAAAGATGTTAAAGCCAGTTCCGGACTTTATCACAAGTGATCATATAGGCAGCATTCCCACCTTAAAGGAACTCATGAAAGATCAATCAATCATACCAGATGAAAGGACAGCTTTTCCATTTTGTGGAGGAGAAACTGCTGCACTTGAGAGGATTAATCATTACCTCTGGGGGACAGACAATGTGTCTAGATACAAAGAGACTCGCAATGGGCTAATTGGAGCAGAGTACTCGACAAAACTGAGCCCATGGCTGGCTGTTGGTGCTCTATCTCCTCGTAAAATATTTGAGTGTGTCAGACAGTATGAGATGGAACGCACAGCAAACCAGTCAACATACTGGGTCTTATTTGAGCTTCTGTGGCGTGATTACTTCAAGTTTGTCTGTTTTAAGTTTGGTGATTCTGTCTTTTATCTATCAGGCATAATGAGGAAAGTTGGGTTGCCATGGAAGCAAGACATGTCCTCCTTTGACAAGTGGCGCTATGGGCAGACTGGGGTCCCATTTGTAGATGCCAACATGAGAGAGCTTTTCTACACTGGCTGGATGTCTAATCGTGGTCGTCAAAATGTTGCAAGCTTTCTGGTTAAGGATCTTGGACTTGACTGGCGCCTTGGAGCTGAATGGTTTGAGTCTCTTCTCCTGGATCATGATGTGTGCAGCAATTATGGGAACTGGAATTATTCCGCAGGCATCGGCAACGATCCAAGAGAGAACCGCAAATTCAACATGATAAAGCAAGGCCTTGATTATGATCCAGATGGAGATTTTGTGAGACTCTGGGTTCCAGAGCTGGCTGGTTTGAAGGGAGCTAAAATTCACACACCATGGAAATTGACCTTATCAGAACTTAAGCATGCTGGAGTAACTCTTGGAGGAAGTTACCCTCGTCCTATTGTCAACCCCCCAGAATGGGACCGTCACACACCAAAAGTGAAAGGAACTGGGAACGCTTCAAGAAAGCAAAACAGAGGAATTGATTTTTATTTCAAGTCTCCAAAGGATGCAAGTTCATCGAAGAAAAGATTCTAGAAAATGCCAacttacaaaataatatttttatgtcATTGAATTGCCAAGACTTGGGCAACTAACTTCCGGCCAAGGGAAAGAACTCTCTTCATGTGTGAGATTTCATCTTCTGTGACAATATGTTAACGTTCAAATTATAATGCAGTCAGATAACTAAATATGGCTATTTATTTGAAAGCCAGCAGTTAAAAATTTGGTTAGTTTATTTTTAAGGAtgcatagaccctttgcataaatggcaatgtacatcctaagcctcacattcatgtgaaaaatcctttgtctagaGACACAagtacgaggctaaggatgtacaaggtattgttattcaaatttaagTGCCGTTTATGCAAAGAGTCTATTGTTAACTGTGTGGATAGTGTATTGCAGACTTGCAGAGGAATTTTTTGTGCATTGTTTTATATGTACTTCTGAGGTATTTTGCATTCTTGTAAGTTACCAACCTTTTGGTTTAGCCATCTGATCATTCACTACAGTTGAAAGAGTGTTAAAGACAGGAAAGGAATGTATCATGCCATATGTCTGGTAATGGCTGACATACTTGATAATTTCTTCATACAGCAATGTGCTTTCAGGAATAGTGAATactatttcaaattttaaaatttgggCTAATGTCAAAATGTTGGCAAATTCAAACTAGCTGAATTTCATGCATCATGGTTCTTGTAGAAAAGTCAGTCTGCAAGACAACCGttaaatgaaagaaagtgaaaaagccctgaaaagaaaaactgtcaCCCTTTCATTTCTGTGTCACTGTCCCCACTTGGAGACCAAACCATACCAGGTGAAAATCCAACCTggttttacagttttttttccctGAAAGTATGCTTCAGAAAAGGAATGGAACTTTAtttaacccattaactcctCAGGTGACCCAGGACAACCCCAGGTGACGAAtgaaattgtctggtgttaaacagagtaaaatctgttaagtcttgcgcccaggagtcaatgggttaagatataataataataaataataattgaaacttatatagcgcatttttcaTGCCGAACatgatcaaatgcgctttacaatttaataaaaattaatgaataaaaataaatgaaattacaAGCAGTTatgattaaaaataaattaatgtatagatgataataataataataataatgataataataatgatgataataataataataataatagtaataattacaaggtaaacaataaatatttgacGAATTAAAATGTATAAGAATTCCAAATTAAAAGCTTGTTTAAAAAGATGTGTTTTGAGCTGGCACTTAAAACTTGAAAGAGAGTCAAGACTAGATATTTTACAGGGCAGATTGTTCCAAAGCTTTGGGGCTgcgtaacaaaaaaaaaaaaaaaaagagtgtagtAGTagtcttctagtgctggagctcTAATTGGGGATATGgataaactgaaatcaacaaattaacacaaatcaaaccAAATGTTGGTCTTTAACTACCCCTAACAGCAAAGTGCCTTTTGTGGATTAGGTGTTCCAGTTATTATCAAGTTGTTTTTCTGGGTTCCTTGATTACATTTAGCCTGGTTGCACCATCTACCACATTTCGTTTTAACACCTACATGGTGTGTATGAGCTGTTTGGTCTCCCTATTCCCTACATTTTGCCCAATTTGGGTGTGCAACTAAAATACCAGTAATCATTATTTCTTATTGCATAAAAAAGGACTTAACCAGAGAATACAGCTccttttgggaaaaaaaaattactcctTTAGCaaagtatttattattattcaaactaTTTGGCGCTTTACTGAACTACATGTAAGCTGCCATTGGAGCTTCAGGCATACATTAATTTAGGATCAACTGAGataatacatgtagttcacTGAACAGCAGACTATCATCTTCTTATCATTTTTCCAATCAGTCCGAAACCAAAATCCTTGAGGTAGATTAGTTGCTGCAAATCTAGGGATCTGGATGTTGCAGTATGGATCTCAGCTATGGTCCATTCCATTATTGTCACAATTTTCACAAAACATGTTATTAACCCACCTTGGTCTGTCTTTAAAGGTGCTATAAATAATTTGTGCCTCATACAGACCTCTCTGCCATCGAGCAACATATACTTCCCCTTGTTCCTAACTTAAATAGAATAATTTTATTAACCCATGGACATCTCAAACGAACTTGGACGCTCCCAGTTGACGAATGAattcgtctggtgttagacagtaaaatctgttaaattTCACTCTCTGAGGTGCATGCATGTTATGTGcaattgatgaagaaaattTTCAATGGTAGCCaaacttgaaacaaacaatacagttccacaaattattttttgcAGTTTGCATGCAAAGATGAGTACCACAGGAGCAATATGACtatcaacaataataattttattatttaatcaGTTATGCAACTTTCATCGCTTGCATTTTAGTCATGATTTGATTAAACatcatttaaaattttata

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q4KML2	Cryptochrome DASH OS=Danio rerio OX=7955 GN=cry-dash PE=2 SV=2
Q75WS4	Cryptochrome DASH OS=Xenopus laevis OX=8355 GN=cry-dash PE=2 SV=1
Q7NMD1	Cryptochrome DASH OS=Gloeobacter violaceus (strain ATCC 29082 / PCC 7421) OX=251221 GN=cry PE=3 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0009620 (this species only)

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
IPR006050 all species →	Domain	DNA photolyase, N-terminal	Interproscan
IPR014729 all species →	Homologous_superfamily	Rossmann-like alpha/beta/alpha sandwich fold	Interproscan
IPR002081 all species →	Family	Cryptochrome/DNA photolyase class 1	Interproscan
IPR036155 all species →	Homologous_superfamily	Cryptochrome/photolyase, N-terminal domain superfamily	Interproscan
IPR014133 all species →	Family	Cryptochrome DASH	Interproscan
IPR005101 all species →	Domain	Cryptochrome/DNA photolyase, FAD-binding domain	Interproscan
IPR036134 all species →	Homologous_superfamily	Cryptochrome/DNA photolyase, FAD-binding domain-like superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11455 all species →	CRYPTOCHROME	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003913 all species →	Molecular Function	DNA photolyase activity	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0000719 all species →	Biological Process	photoreactive repair	Interproscan
GO:0003677 all species →	Molecular Function	DNA binding	Interproscan
GO:0003684 all species →	Molecular Function	damaged DNA binding	Interproscan
GO:0003904 all species →	Molecular Function	deoxyribodipyrimidine photo-lyase activity	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
K25656	cry, CRYD; cryptochrome	-	Others	-	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068745366.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples

28TPM > 0

1Conditions

45.9Max TPM

8.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	28	8.12	45.94

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	45.94
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	14.05
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	14.02
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	14.00
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	13.86
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	13.71
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	13.69
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	13.40
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	13.37
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	12.89
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	12.31
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	11.75
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	9.51
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	7.98
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	7.65
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	7.50
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	7.29
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	6.87
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	6.82
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	6.73
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	5.94
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	5.50
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	5.24
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	5.20
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	4.93
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	4.37
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	4.30
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	3.55
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	0.00
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.