Gene detail

Detailed information of XP_068758366.1 in Montipora capricornis

Genomic Location: chr7:22373153...22394613
NR annotation: XP_044182420.1, protein artemis-like isoform X1 [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068902265.1

ACATTTGAGAGAAAGGCCGCCATATTTGATTTCGttcagtttctgtttttttttttacggcaAAATGACATGACATTTTGATGTTTTCCTGCTGTGAGGACTACGAAGGGAACAAAAGATGAGTTCTTTTACCGGAAAGTTTAGAGAATATCCCCTGATTTCGGCGGATAACTTTGAGAAAGAGAATCTCGATAGCTTGGCGTTTTTTCTTTCGCATTGCCACAAAGATCATATGTCTGGGCTAGATTCAAAAGCATTTCATGGAAGACTTATTGGAAGCAAAACTGTGTTTGTGTACTGCTCAGAGACAACTGAAAATCTCTTGATGTGTAACCCTGAATATGTTCATCTAAAGGAGCACATTCGTAGCATACCATTGGAGCAACAAACAATGATTCCTCTTTTTGACGAGAACACTGCAGAGGAAAGCTCTATCTGTGTAACTTTGCTTCCTGCTGGGCATTGTGTGGGTTCTGTTATGTTCTTATTTGAAGGCCAGCATGGGAATATCCTTTACACAGGTGATTTTCGATTGTCAAAAGGAGACGTTAAGAGAATACCATTCTTCCACGCAAACGGCAGAATAAAAGATATCAAAAGCATTTACATCGACACAACTTTTTGCCTGCCAAAGACGAGTTCTCTTCCAACACGGGAACAAAGCCGAGATGCCATCATTGAGCTAATAAACAGGTGGTTTTCGCGTGGCCCTGAATACGTTGTCAGCTTGTTGTGCAAAGGGATGTACGGTTTTGAGTATCTGCTGAAAGAAGTGGCCATGAACTTCAAAACCAAGATCCATGTGAGCGCGGATCGACTGCGCATGTACAAGTATCTTCCAAACATGACACCGTATTTCACTGCCGATGGTCGATCAACAAAGATTCATGCATGCAAATGGCAGTCCAACCGACATTCAGAATCTGACCTTCCCTGTGGAGAGTCAATCCATCCTTCGCGTAAGATGAAAGTGCTACGGATTAAGCCGGCCACAATGTGGGTCGCACGAGGCACTGAAGCAATGCCTCCCGACTATAAAAGATATGACAAAGGGAAAAGAATGTGGCGGGTCGTACATTCGATGCACGCGTCAATGGAGGAGGTTCAAGATCTTGTTGGTTATCTCAAACCTTATCATGCTTATCCCAACGTACCACCAGCCGGCCTGGACACACTGGAAGATGCGTTTGAAAGGTTGAAGGGACTTACTCGTCTTCAAGAATGCAACTCTTGCAACCAAGATGAATCTGACGAATGTCACTTCAACGAAAAAGATTCAAGTCATTGTACGGAGGAGCAGAAACCACAGATTTCGACAATCGATTCTCTCCGGTCGGTGACTCGGCCAGCTCCAGACGAGAAAGTCTTGGCACAATGTAAAGAACTGGGGATCGAAGAAGAGCAATGTATTGCACCGGTTCCAAAACGACGAAGAGGCAAGACTTTGAACCCAGTTTTGGATGAAATAACGGCCAATGCTTTGCAGCAACGGACAGAAGCATCGACCTCGTATTGTCATGGCGTTTATAGAACGCGAAAAGGAGAAGTTGAAAGTGGTGTTCAGATTGGAGAAAGATCGCTAAAGCGGAACTGCAAAACGGAAGCGAGAACTGAGGATCTTTACAAGAACCGTATTGAAGGTGGGAAGTCTGAGTCGTGTGAAGGTGCTTTGAAAGAATACAGCGGGGACAATTTCTTCGACGAAGAGTCAGTTCTGTCTAAAACGAACGATTCTTCGGATGACACTAATAATAACTTTCCCGAACAAACCACGGAGACAAAACGCCCGTCTCCACCCTGGACAGTTTCCGGGTCTCAATCAGAGGAAGGGGTCGCTGGGGAGTGGTTTAGAAGTAAGTCTAATTTTAATGTCCCTCCCTCCCCAGGCCATATAAAGCCTCGCCCAGAGAAAGTATCCATCATTCACCGAATGATTCAACGTGGACAAACGATAGCTGTGAAAAACGTCAGCGAAGACAAGGGTTAATAGCCCACGCTCCTCTATCAATTTTGAGACTAGACTCCGATTATTTCACAATTATATGGTTTCGCTTTAGTTGGATACGAGCTGGCAAACCGCCAAACGGTTGGCGCTAACCAATCCCTTCTTCCACGCAAAGTCAGTAGAggattgaaaatttgaatttatctatttatttacttttttttatgaCCTTCTGGACGTTGCAAGAAAGTCAATGTAAATACTGATTATATCGAACGAGGGCCACAGTATTAtataaaatgattttatttctGTATATTTTGCAATACATTCAAACATCGCTTTCATATTATATCTCATTCTTCGACTGCCCCAGAAAATACATATAAACCTCGTTCTAACAATAAATTCTATAAACGTACTCACTTAAAAATTTTTTAATTGCGTAGTGCCCTGGCCTTTGGATGAAAGCGAGACTGGTAATCGTACCTTACTTTTTAACTATGTCGATTCAAGCAAACTGCAAGAGGTCGCGTTCCTAATTAAACCAAAACTAAGGCACTGGTAGGAATAGTCTAATTCCCAAGAGATTAGtacgggacaccaacatggcgggcGTGACGTCATACGCATAACCTACGCAGAAAACTGTGATGTTTGCATCGCAAAGACAATTTCATCCAGCTTTGCTGCCACCCCTTGGCCAGGTCACTAAGCAATTAACTGTAACACTTGGATTGTTGTTTGCGTCCACCTCGCTGTGCTCTAACAGAGGAAAATGCTAGGactttaagtgctactatgaccaaaaaaccaattcttcttgttctttggatttcaaaactatgttaattaaacactacgtgacccaagttttaaaccttgtttatttttacgtaaattttcctttttaacggtccgccattactaactttaaaatcttgagagagctgggtcaaGGAGAAAAAGACATCGAAGACTCCTCAGTTCgaccgaattaatatgcagcaaggGAGTTCCGGGCACTTGcatttataataagctgcatttacaagctgaatttttaagctagtgagtaaatgacatcacttttccgTAGATCCAACCCTCAGTTGttaacgtgagtaatggtggacagtgaaattcaaaacttacactcgAAGTAAACAGCTTaaatttttgccagtcaggtgtaaggcaaacacactttcaaaatctgaacaaaaaaaggaagtgatttttgatcatagtagcactttactTTGAACCAGAAATGTTTCAGAGCCTTCCGTGCCTGCAACGGAAAGAGCACCCTTTCATACGTTGCAAATGCGAATCAAAATAATGTAGTAATAAGAACGCCTCAAAGAATAACAGCTATCGACTTTCTTATGGTTAAATGATGCCGAGGCTTCACTTGTCAGCGTAATCTAACCCAGTAGATATTTTAAATTCGTCCCCAGTCTCCCATCAGTTGCTGGGTTGTCACAGGTTACCCATAAAAGGACTTCTTATTATGCATTGATTTCATCAGGATCTTCCGTgcaaatgatttcatttgtcTAGTACCCATGAAATAAAAAACAGCCTGCAAAAAGTCA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q5XIX3	Protein artemis OS=Rattus norvegicus OX=10116 GN=Dclre1c PE=1 SV=1
Q8K4J0	Protein artemis OS=Mus musculus OX=10090 GN=Dclre1c PE=1 SV=2
Q5R6Z9	Protein artemis OS=Pongo abelii OX=9601 GN=DCLRE1C PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004448 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF07522 all species →	DRMBL	DNA repair metallo-beta-lactamase	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036866 all species →	Homologous_superfamily	Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	Interproscan
IPR011084 all species →	Domain	DNA repair metallo-beta-lactamase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR23240 all species →	DNA CROSS-LINK REPAIR PROTEIN PSO2/SNM1-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000723 all species →	Biological Process	telomere maintenance	Interproscan
GO:0003684 all species →	Molecular Function	damaged DNA binding	Interproscan
GO:0006303 all species →	Biological Process	double-strand break repair via nonhomologous end joining	Interproscan
GO:0035312 all species →	Molecular Function	5'-3' DNA exonuclease activity	Interproscan
GO:0036297 all species →	Biological Process	interstrand cross-link repair	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
K10887	DCLRE1C, ARTEMIS, SCIDA; DNA cross-link repair 1C protein	EC:3.1.-.-	DNA repair and recombination proteins	ko03400	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_068758366.1 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

18.2Max TPM

4.7Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	28	4.72	18.15

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	18.15
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	10.53
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	10.50
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	9.56
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	8.81
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	8.54
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	8.06
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	8.03
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	7.56
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	6.20
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	6.18
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	6.08
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	6.04
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	5.87
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	5.63
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	5.55
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	5.48
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	4.64
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	4.40
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	4.12
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	3.95
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	3.66
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	2.75
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	2.55
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	2.21
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	2.05
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	1.45
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	1.43
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
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR27940192	Polyps	Polyps	not recorded	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.