Gene detail

Detailed information of g14301.t1 in Montipora capitata

Genomic Location: Sc0000521:147164...149698
NR annotation: XP_029211848.2, 5' exonuclease Apollo-like [Acropora millepora]
Species Montipora capitata · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

g14301.t1

atgaacggtgctgtaattccaaataccccaatcgctgttgacttttggagagtgaggcgatgtcctcactccaggattttctttctttctcacatgcacgccgatcatacagccggcctcacatcttcgtggagttcatacactatttattgctcagaagtgacaaggaagcttgcaatagcgaaacttcgtgtcaaaagtgaactggttgttggactgccgctcaatgatcccgtgacaataaatttagatgaagctgggaaagaaacaatgactgtgacactcctagatgcaaaccactgccctggatccgtgatgtttattttccaggggtactttggaacaatcctctataccggggacttccgtttctgtgaacatctcttgacacactctgctattaagggaaagcagttcgacattttgtaccttgataacacatattgccacccaaagtgtttttttccaacgcggccttgtgctacaattgctataatggagatcattcgaaatcatccccagcacaaaattgtcattggtcttcattccttaggaaaagaagccctgttgcattccattgcaatttcttgcaaatgttggattggagtggacccctcaagaaaagagactttggaacttcttggaatgccacatgtgtttacttgtgatgtggacaggacaagaatccgtgttgtcaattttcaggaagttaacaagggaaacattcatctttggaacataacagagccaactattgcaattttgccaacttgcctttttgtcggagaagtttataatccatatgagaatgtgccaaatgtgtttgttgttccatactctgatcattcttcatttgaagaactgaagacatttgtgaagggtatcaggccacgtaagatcataccaatagttcacaaacacagactttcagcagatgaaaccttcaacagtagagtaaacatgaatattttccaagcactaatggattcttcttcatcacaagggttcagtataccccactctgtagaatgcttcatgtcaccagagatgaggcaagatgtcaagaaaagggtgaaagcaggaactaaagctggcacaaggaaaattgccaagatgaaaaaagcatgcggcattgtgtttcctcccagtcaggatctttgtgtggaacaggattgtggtggtttggtcaatggagagttgaaggataaactacaggtggacagtgatgtatatcatggtgtgggagagaaggttaggattcaggaaagaaaggcagtcatgtctttttctgttaaaaatgaatgtgagtctggacagaaagtcaagtcagaggaggacggaggttacaaagatgtccccattcctggtgagaagttaagtgacaaagtaagaccattcaatttcttcgtcaaacaggatgttctgataaatgagaaagtgaatgaatgccaaaacaagaaagttatggcagaggacaccaaccatacagagagtgcacttggattttttactatcaaaccagctggtgatgtcaaaaaggaagaggttggaggagatgataaacatactgaaatggtagatgagatgacaagtgcagagggtagtaaatttgctgttttgaaaattgatggttcagggaagaaagcaagagagtatgatgatgattgttttgagaaagaagaacataaggttgccactccttccactcacgatggtaatgcaggaaaggaaagagtggtggatgatgttaaagataatggagattacaaagatgctgccactggtgacaaatcaagtgaaaatgtaaaaccagtttatttcctcatcaaacatggcagcagtgtgatggatgagaaagtcaaggtgtgtattaatggatgcagtactgccacagagactaacaatggaatgagttcaattgtatctcattttgataaacaggcgagtgatttgatgggcaatgataatgatgtcaacatggcagatttagatgaaaccagtggtaaagacaggaactttgctttaataaagaaagatagttgttcgtggaaaaaaggaagggaggacaacaaagataacgatgttggaaaggtagagggaaaagaaaatgaaagacacaaagttgtttttccctccatccaaagagataatttcagaaagagaatacaaatggatgataaccaagatgtcaaaatggcacaggaggctgatgttgaaggcaagcaacaccatactttagaaagccagtttgacatgaatgattttgaatgtgaagttgagaccagtgatgatgaactatttgcagtagcttcctgttatcaaagggatccttcaggtatctgtcagcaaggggggataaacacatcaaatgagaaacctgccatgacaagtcaaaacagcatggagattggtaattgcagtgaccgatttgcaaataacagctgcaaaaataagaaatttaatattttcaccggccatacgtgtgattttgcacggaaagttttgcaagacatggttagaaatggtgctttgtga

Transcript

g14301.t1

ATGAACGGTGCTGTAATTCCAAATACCCCAATCGCTGTTGACTTTTGGAGAGTGAGGCGATGTCCTCACTCCaggattttctttctttctcacATGCACGCCGATCATACAGCCGGCCTCACATCTTCGTGGAGTTcatacactatttattgctcagaAGTGACAAGGAAGCTTGCAATAGCGAAACTTCGTGTCAAAAGTGAACTGGTTGTTGGACTGCCGCTCAATGATCCCGTGACAATAAATTTAGATGAAGCTGGGAAAGAAACAATGACTGTGACACTCCTAGATGCAAACCACTGCCCTGGATCCGTGATGTTTATTTTCCAGGGGTACTTTGGAACAATCCTCTATACCGGGGACTTCCGTTTCTGTGAACATCTCTTGACACACTCTGCTATTAAGGGAAAGCAGTTCGACATTTTGTACCTTGATAACACATATTGCCACCCAAAGTGTTTTTTTCCAACGCGGCCTTGTGCTACAATTGCTATAATGGAGATCATTCGAAATCATCCCCAGCACAAAATTGTCATTGGTCTTCATTCCTTAGGAAAAGAAGCCCTGTTGCATTCCATTGCAATTTCTTGCAAATGTTGGATTGGAGTGGACCCCTCAAGAAAAGAGACTTTGGAACTTCTTGGAATGCCACATGTGTTTACTTGTGATGTGGACAGGACAAGAATCCGTGTTGTCAATTTTCAGGAAGTTAACAAGGGAAACATTCATCTTTGGAACATAACAGAGCCAACTATTGCAATTTTGCCAACTTGCCTTTTTGTCGGAGAAGTTTATAATCCATATGAGAATGTGCCAAATGTGTTTGTTGTTCCATACTCTGATCATTCTTCATTTGAAGAACTGAAGACATTTGTGAAGGGTATCAGGCCACGTAAGATCATACCAATAGTTCACAAACACAGACTTTCAGCAGATGAAACCTTCAACAGTAGAGTAAACATGAATATTTTCCAAGCACTAATGGATTCTTCTTCATCACAAGGGTTCAGTATACCCCACTCTGTAGAATGCTTCATGTCACCAGAGATGAGGCAAGATGTCAAGAAAAGGGtgaaagcaggaactaaagctGGCACAAGGAAAATTGCCAAGATGAAAAAAGCATGCGGCATTGTGTTTCCTCCCAGTCAGGATCTTTGTGTGGAACAGGATTGTGGTGGTTTGGTCAATGGAGAGTTGAAGGATAAACTACAGGTGGACAGTGATGTATATCATGGTGTGGGAGAGAAGGTTAGGATTCAGGAAAGAAAGGCAGTCATgtctttttctgttaaaaatgaATGTGAGTCTGGACAGAAAGTCAAGTCAGAGGAGGACGGAGGTTACAAAGATGTCCCCATTCCTGGTGAGAAGTTAAGTGACAAAGTAAGACCATTCAATTTCTTCGTCAAACAGGATGTTCTGATAAATGAGAAAGTGAATGAATGCCAAAACAAGAAAGTTATGGCAGAGGACACCAACCATACAGAGAGTGCACTTGGATTTTTTACTATCAAACCAGCTGGTGATGTCAAAAAGGAAGAGGTTGGAGGAGATGATAAACATACTGAAATGGTAGATGAGATGACAAGTGCAGAGGGTAgtaaatttgctgttttgaaAATTGATGGTTCAGGGAAGAAAGCAAGAGAGTATGATGATGATTGTTTTGAGAAAGAAGAACATAAGGTTGCCACTCCTTCCACTCACGATGGTAATGCAGGAAAGGAAAGAGTGGTGGATGATGTTAAAGATAATGGAGATTACAAAGATGCTGCCACTGGTGACAAATCAAGTGAAAATGTAAAACCAGTTTATTTCCTCATCAAACATGGCAGCAGTGTGATGGATGAGAAAGTCAAGGTGTGTATTAATGGATGCAGTACTGCCACAGAGACTAACAATGGAATGAGTTCAATTGTATCTCATTTTGATAAACAGGCGAGTGATTTGATGGGCAATGATAATGATGTCAACATGGCAGATTTAGATGAAACCAGTGGTAAAGACAGGAACTTTGCTTTAATAAAGAAAGATAGTTGTTCGTGGAAAAAAGGAAGGGAGGACAACAAAGATAACGATGTTGGAAAGGTAGAgggaaaagaaaatgaaagacacAAAGTTGTTTTTCCCTCCATCCAAAGAGATAATTTCAGAAAGAGAATACAAATGGATGATAACCAAGATGTCAAAATGGCACAGGAGGCTGATGTTGAAGGCAAGCAACACCATACTTTAGAAAGCCAGTTTGACATGAATGATTTTGAATGTGAAGTTGAGACCAGTGATGATGAACTATTTGCAGTAGCTTCCTGTTATCAAAGGGATCCTTCAGGTATCTGTCAGCAAGGGGGGATAAACACATCAAATGAGAAACCTGCCATGACAAGTCAAAACAGCATGGAGATTGGTAATTGCAGTGACCGATTTGCAAATAACAGCTGCaaaaataagaaatttaatatTTTCACCGGCCATACGTGTGATTTTGCACGGAAAGTTTTGCAAGACATGGTTAGAAATGGTGCTTTGTGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
D2H8V8	5' exonuclease Apollo OS=Ailuropoda melanoleuca OX=9646 GN=DCLRE1B PE=3 SV=1
Q8C7W7	5' exonuclease Apollo OS=Mus musculus OX=10090 GN=Dclre1b PE=1 SV=2
Q4KLY6	5' exonuclease Apollo OS=Rattus norvegicus OX=10116 GN=Dclre1b PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0002307 (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
IPR011084 all species →	Domain	DNA repair metallo-beta-lactamase	Interproscan
IPR036866 all species →	Homologous_superfamily	Ribonuclease Z/Hydroxyacylglutathione hydrolase-like	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
K15341	DCLRE1B, SNM1B; DNA cross-link repair 1B 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 g14301.t1 across 48 RNA-seq samples of Montipora capitata. 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.

48Samples

48TPM > 0

3Conditions

28.3Max TPM

11.5Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
whole organisms · ambient pH treatment	21	21	10.86	24.19
whole organisms · low pH treatment	15	15	11.79	28.34
whole organisms · extra low pH treatment pH treatment	12	12	12.36	23.46

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11452250	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	24.19
SRR11452259	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	20.67
SRR11452263	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	20.60
SRR11452252	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	18.53
SRR11452254	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	17.60
SRR11452246	whole organisms · ambient pH treatment	whole organisms	prawn chip	ambient pH treatment	SRP254626	16.08
SRR11452262	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	14.97
SRR11452260	whole organisms · ambient pH treatment	whole organisms	cleavage	ambient pH treatment	SRP254626	12.46
SRR11452251	whole organisms · ambient pH treatment	whole organisms	egg	ambient pH treatment	SRP254626	12.22
SRR11452240	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	9.22
SRR11452230	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	9.15
SRR11452217	whole organisms · ambient pH treatment	whole organisms	fertilized embryo	ambient pH treatment	SRP254626	8.78
SRR11452222	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	7.81
SRR11452234	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	6.86
SRR11452228	whole organisms · ambient pH treatment	whole organisms	planulae	ambient pH treatment	SRP254626	6.18
SRR11452232	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	6.10
SRR11452242	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	5.17
SRR11452243	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	3.25
SRR11452233	whole organisms · ambient pH treatment	whole organisms	morula	ambient pH treatment	SRP254626	3.17
SRR11452231	whole organisms · ambient pH treatment	whole organisms	blastula	ambient pH treatment	SRP254626	3.11
SRR11452237	whole organisms · ambient pH treatment	whole organisms	gastrula	ambient pH treatment	SRP254626	1.96
SRR11452247	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	28.34
SRR11452249	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	19.95
SRR11452216	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	17.04
SRR11452258	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	16.89
SRR11452245	whole organisms · low pH treatment	whole organisms	prawn chip	low pH treatment	SRP254626	15.59
SRR11452253	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	15.10
SRR11452218	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	14.68
SRR11452255	whole organisms · low pH treatment	whole organisms	cleavage	low pH treatment	SRP254626	10.65
SRR11452229	whole organisms · low pH treatment	whole organisms	fertilized embryo	low pH treatment	SRP254626	9.82
SRR11452221	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	5.50
SRR11452241	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	5.24
SRR11452223	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	4.78
SRR11452224	whole organisms · low pH treatment	whole organisms	planulae	low pH treatment	SRP254626	4.76
SRR11452236	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.37
SRR11452238	whole organisms · low pH treatment	whole organisms	gastrula	low pH treatment	SRP254626	4.07
SRR11452244	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	23.46
SRR11452220	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	20.38
SRR11452248	whole organisms · extra low pH treatment pH treatment	whole organisms	prawn chip	extra low pH treatment pH treatment	SRP254626	18.30
SRR11452219	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	17.27
SRR11452261	whole organisms · extra low pH treatment pH treatment	whole organisms	fertilized embryo	extra low pH treatment pH treatment	SRP254626	14.04
SRR11452256	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	13.10
SRR11452257	whole organisms · extra low pH treatment pH treatment	whole organisms	cleavage	extra low pH treatment pH treatment	SRP254626	11.41
SRR11452225	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	7.92
SRR11452227	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	7.44
SRR11452239	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	6.32
SRR11452226	whole organisms · extra low pH treatment pH treatment	whole organisms	planulae	extra low pH treatment pH treatment	SRP254626	6.29
SRR11452235	whole organisms · extra low pH treatment pH treatment	whole organisms	gastrula	extra low pH treatment pH treatment	SRP254626	2.46

Source: CnidoSite RNA-seq expression matrices (MCAPI_TPM, StringTie quantification over 48 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.