Gene detail

Detailed information of gfas1.m1.1237.m1 in Galaxea fascicularis

Genomic Location: Sc0000032:345944...352803
NR annotation: KAJ7363291.1, DNA repair protein rad52 [Desmophyllum pertusum]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gfas1.m1.1237.m1

ATTTCAAACAATTTTCCCTCGGAACTGTAAATACTAATGTGTGTTTGCACGATAAATTTAAAATCGCAGCGTTGGTATTGGATGGAAACATTTGTTCCGTGATGTGCAACACTGAGAGGACACCCATAGCTTCATTTGGAAATATAAATTTCACCTCCGAAGAATACGAGGCTATTCAAAGCGCCTTAAATAAAAAACTCGGCCCAGAGTATATCAGCCAAAGAGCAGGGGCAGGTGGACAGAAACTTGCTTATGTTGAGGGCTGGAAACTAGTCAATCTTGCTAATGAAACATTTGGTTTCAATGGATGGTCACATTCAGTAACCCATCAAAATATAGATTTCGTTGATCAGGTTGCAAATAAGTATTATGTTGGAGTGAGTGCTTTTGTAAAGGTTCAATTAAAGGATGGAGTTTACCATGAGGACATTGGTTATGGCGTCTCAGAAGGGATGAAATCCAAAGCTTTATCATTGGAAAAAGCTAGAAAAGAAGCTGTTACAGATGGGCTGAAGAGAGCACTCAAGAGTTTTGGGCAGTCACTTGGCAACTGTATAAGTGATAAAGATTACTTGAAGTTTATCACAAAACAGCCCAAAGCAGATAGTCTTCAATATGATGTGAATCTCATGAGAAGACAAGGGCAGAAAGTGACACCAAAATTACAGAATGCTCAGCAATCTGAGATGGCAAATGAAAATACACCGTGTGTAAATAGCAGAGACACTGGAAAAAGCCATCATGCATTTTCTACTTCCAAAGACACTGAAAGCAATTTATGTGATAAAGTTGTTATTGAAATGACAAAAAACATTGTCATAAAAAAAGAAGATTTGAATCCAAGTTCAAGAAAATCCAATGAATATAGGACTACAATGGGAGATATGAGTAGACAACAAAGAACAACACCGTGTCCTGCTATTGTTACAACACCTCTAGCAGCCTCCACTCCTACTGTCCTGCCTCCCAGAAAAACCTGTAGCTCTTCTGCAACCAAATTCATGGAAAATGAGAGCAAATTGCAAGGGCCCAGAGACTTGCCGATGGGTGATTTGACTGGGCAACAAGACAACTATAGTGTCATTCCAGAAGATGACCCCATGTTATGGAATCAATCATTTGGCTTTGAAGAGGCTCTTATATCTTGTAGCGAGGAATTCTTGATGAGACCAGAGAAAGCTAACCTCGAAAACCAGCCCGTGAAACATTCCGATATAAATAATTTTAACAGACAACATAAAAAGACGGAGAGTAGAGCAAAACACGGCGAGATGATGAACTGGCTGGGTTACACCGCTTGCTTGCTGGCAGCGTAGTCCCCTCCCTGTCCCGCTAGATCGCACCGGTTCGGTCTTGCTAGGCAGTTATGCGTTGAATGTGGCTATGCCTGTAAACAGAGTTTAGTTTCAAGGTTGAGTCTCTATTGCGTTTATGTAGCACGAGACTTCGAGAGCTTCGTTATTTATTCACCAAAACAGTGACGAGAAAGCCGGAGCCGACCGCTCCCGGATCATTTCGGTAAAATCTCTGCTTCGGCGTTAGGAGTAGGTCTGTGGCAAGTTTTCCAAACAACGATCACCCAAAAATTCTTAGTTTCTTTGCTGGCCTCAACAAGCAGCATTTTTGCCCCGTTATAGTATAAAGATAAAATCGAAACAGTACGTTAGTCATCAAAGTTTCACGGCTTTCTCGTCAAAGTTGTGTACAGAGTGTATTTTAGTGCAACATCGGTTCATTTTATTAGATTTTTGTCCTCGCCTTTATTCCGCGAGTTTTGGTGGGCGGGGTCCCTTGTGTTCTTCACCCACTGAAGTTTTTGTTTGGCTTGTTTTATACCCACTACCATCCCCTGACTTTATAAGGTCAGCATTTTTTTATATCTCCGTACCCCAAAACATTAGTTCTCACAAAATCACAAAAAAAATGTGTGTAAAACCCTGGGTAATATTAGGTTCTTTTGGAGTCAAACGGAAAACTTTGAGTTAAATGTTGCAGTTATGTTCACCTTGATTGGTAGTGTTTGTTGCTTTTATTTAGCCTCTTTTAAAGTTGAGATTAGTTTATTTTTAATTCTCAAACAGTGAAAATGAACGGTTGCTGCCGGTTAAAACAAAACATACAAGAATAATGTTACCTTTCCGAAAGTATAGATTATAATACAATTATGTACAGTAATTTTATATTTATTAAATTTATTGAACACAAAAAAATAATAAAGTTGAAGTATCGAGTATCAAGTTGCAGTGTGGAGACTACCCCATGTTAGGTTAAAAACGTTTGGTAGACATTTTTTGAAGGATGAATGTTTTACTTTCGAAGAGGTAGTCACGAGTCTAATATTTCTGATCAAACACTATCAATTTTGTTATTGGTCGGAAATGTTGCGACGCTATTAGTACCACATTCCTGATGTTGTTGACCAAATTTTTCGTATTAGATAGTAAATACCGCCAATTTGTGCTGACTGGACGGAGAACGTTGTTTCACATTGTCGACACCGTTACTAGCTATCTGCTGCAAACGTTGAGTATAAAGTCATAGATGCAATTAAAATGTTTGATAGAACCAAAGCCCTATTGTACTGCCACCCGGCTCTAACACAAGCCAGGTAATATAATAAGAATCGCCGTTTCTGCAATCTATTTGACTTCTCAGTAAAATAAATGCATTACAGTGTTTTCCGAGTTTGGATTGCAATTGACGCCTTTGAAATATGCTTTGCAAAAGATTTCTAGACCGAAACATGCATCGTGAAGGGAGAAAAAGCGTTTTTGTTAACAAATTCAGCTCAAAGGAAAGTACTACGGAAAACACTTGTCAATGTTAAAGTTTATCTTTTCAGTTCTCAAGTAAACAAAACAACAGTCTGAAACCTTGGGCTCCTGAAACTACCAAAATTATTCATAGGCTGGATACATCGAGTTTTAATACAAGCGTTCCGAGCGAGAGATTGTCCACAAAATGCTACTGAAAATTCCGGTCAAAGAAAGCAGGATCTGGCACAAGAGAAAAACTAAACGAAATTTTATGGAAAAGAGAATGTCCCTTTGTAAATTTTCCGACACATTGAAGAATTCCTAAGTGACAACCTCAAACAAAAATGAAAACAGTCGAAACTATTGCATTGAATCGAG

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
P39022	DNA repair protein RAD52 homolog OS=Gallus gallus OX=9031 GN=RAD52 PE=2 SV=1
P43351	DNA repair protein RAD52 homolog OS=Homo sapiens OX=9606 GN=RAD52 PE=1 SV=1
P43352	DNA repair protein RAD52 homolog OS=Mus musculus OX=10090 GN=Rad52 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0008615 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF04098 all species →	Rad52_Rad22	Rad52/22 family double-strand break repair protein	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR042525 all species →	Homologous_superfamily	DNA repair protein Rad52/59/22 superfamily	Interproscan
IPR041247 all species →	Family	Rad52 family	Interproscan
IPR004585 all species →	Family	DNA recombination/repair protein Rad52	Interproscan
IPR007232 all species →	Family	DNA repair protein Rad52/59/22	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12132 all species →	DNA REPAIR AND RECOMBINATION PROTEIN RAD52, RAD59	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000724 all species →	Biological Process	double-strand break repair via homologous recombination	Interproscan
GO:0000730 all species →	Biological Process	DNA recombinase assembly	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0045002 all species →	Biological Process	double-strand break repair via single-strand annealing	Interproscan
GO:0006281 all species →	Biological Process	DNA repair	Interproscan
GO:0006310 all species →	Biological Process	DNA recombination	Interproscan
GO:0006312 all species →	Biological Process	mitotic recombination	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
K10873	RAD52; DNA repair and recombination protein RAD52	-	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 gfas1.m1.1237.m1 across 22 RNA-seq samples of Galaxea fascicularis. 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.

22Samples

12TPM > 0

4Conditions

8.9Max TPM

1.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	3	1.84	8.86
coral holosome · 30ic treatment	6	4	1.84	3.53
coral holosome · Prometryn (herbicidess) treatment	5	2	1.01	2.64
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	3	1.54	2.65

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	8.86
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	2.62
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	1.38
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	3.53
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	3.02
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	2.34
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	2.15
SRR27118468	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	0.00
SRR27118477	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	0.00
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	2.64
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	2.40
SRR27118482	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118483	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	0.00
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	2.65
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	2.04
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	1.46
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	0.00

Source: CnidoSite RNA-seq expression matrices (GFASC_TPM, StringTie quantification over 22 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.