Gene detail

Detailed information of gfas1.m1.976.m1 in Galaxea fascicularis

Genomic Location: Sc0000023:25028...28634
NR annotation: KAJ7391904.1, Single-strand selective monofunctional uracil DNA glycosylase [Desmophyllum pertusum]
Species Galaxea fascicularis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

gfas1.m1.976.m1

CCAAAATTTGCCTTTCAATATGGAGGACGCCACGAACAAAATGTAGCAATTTTTGTATCACGTGGTTGAACAATAACAATGATGTGCTTCCTAATTTGGAGCGTATTGAAATAACACAGGAACATGGCATCCACAGAAAACAGTTTGGACGCAGTTATCCCTGCCAAAAAAAGGAAAACACATTCACATTCTGATCTTTGTGACGAACTGATGAAGCTGGAACAAGAATTGTGTCGGAATCTTTCGTCCCTGACTTTTTCTTCTCCGGTAACGCATGTTTACAACCCTTTGAATTATGCAAAAGAAACGCATGACGATTATGTGAGGAAATACTGTAAATCTGGACAAAAGGTGCTCTTCATGGGCATGAATCCTGGTCCTTTTGGAATGGCACAGAACGGGGTTCCTTTTGGAGACACAAAGCATGTTAAAGAATGGCTTCAAATTGAAGGCTGTGTCAATAAACCAGACAAAGAACACCCCAAGAGACCAATCCAAGGGCTAAACTGTGAGAGGGCTGAAGTGAGTGGGAGCCGGCTATGGGGTTTCTTTAAAGAACACAGCAAATCTCCAGAGAAGTTTTTTTCCAACTGTTATATTCACAATTATTGTCCTTTGGTTTTTATGACATCAAGTGGCAAGAACATCACCCCACCTCAACTTCCCAAGGGAGAAAGACAGAACCTGATGGAACTCTGTGACAAATCGTTAACAGCTGTTGTTAAACTGACTGGAGTCAAAGTTGTTGTAGGAGTTGGAAAGTTTGCAGAGGAAAGAGCTTGTAAAGCTTTAAAAGACTGTGATGTTCAAGTTTACTCAATGATACACCCTAGTCCTGCTAGCCCAGCAGCCAATGCAGGGTGGAGTGATGTAGCTTTGACACAGCTAACGGAGTTAGGGCTTATTGGTTACATAACAAGTAAAACTTTGTAATGAAATGATTACTCTTCATGACTCAAACTTCACGACTTGACATAAAACACTCAAAATATTGCATTCAAAAAATCAAAATGGGTTCTGAACAAAATGTCAAGACAAAAACAAATGCATTTAAGTTTTATGTGCTGTCATAATGCATCCTACCCAGAAAGGTTAACCCTTGCCCTAACCTTATACCCTGTTTAATCTAAGTTGATGACAAAAAGACAAAGAAATCAGACACAAGAAAAGTTAACTACTCCATCTTGAAACAGCATTCAGTTGAAATTACCTACTTTGGCTAAAATAAACAAGATCTTATGGTTACGTCATTAAGTACATAATAGACAACTTTTACAACCACAAAAAGTTTCTAACCAAGGAAAGGGACATTAAAAATACTGTCTGTGAATGCCATTATTACCATGTGCATCTCTGGGAGCAATGTCTTCTTATAGAAATAGTTATACAAACTTGCCCTTTGATAAGATAAAGAATGAAACACCAGGAAAAGGGATCTGAATTTAATATAAACTTTTAATGTCACTAAAATACAAAATGCAACAATTATAGCTGCTACCAGTATCCAGACTATTCTTCGTATAACTGACAACTTCCTCATGAAATAAAAACTGTCACTGATCAGAAGTTCTTAACCAAATTTTTTTGCAGCTCCAGAAGTTCTCTGTGTGCAGTTTGTTTTCCAATTTCCATTAACAGTTTACTTAAATTTCTACTCCATGATTTAAATCCTCCTAAATTTTACAGGTTTACATTTATTAAGTTTCTACACTTCTCTTACAGCTATTTCACAATACTGCTGCATTTTGACTGAGTTTTTTTTTTATGAAGTTGATACCTACATTGTAATCTGATGGAGTCTTGTAAAAAGTTTATAATAATACTTGTATCTAATAATACTGTACCAATATCTTATTTTCATGAGAGAAATGACAAAGATAAAATTATTGTGGTGGATTCACAATATTTGAAGTTTTTGTTTCAAAACCTTGTCCGGGCTCTTATATATTAAGATAATATTGTCTTAATAAGGGTATAAGAAGAACCTCCAAATTTACAGCTGCAAAAGTGGTCCACTTGTTTTGGTTTGTAAAAATGTCACACTACAATCACAAATAGAAACATTTCTTCCTATCATCATGTAGCTGGGAATTAAAAAAGTTTGTGAATTAAAATGAGTGGAGACAAATTGTGGAAAGGTAGAATGGATGATCATGAGTCTTCCACACACTTGATAGCACGCACTTCAGCAGCTACTGGAGCTTCCACCATCAGCTTGACTCCAAACCATTTACTTTGAACCTTTAAACAAAGACCAGATATCATAATAAGAATGAAAAAGAGGCAGGTTTACGTTTAACACTCATGCAACTTGTGTGAAACTTAAGTTGATTGTTTTAAATAACCAGGAGGGTGATTACACAAACAACCCTGAGTATACTTTCCTAATGATAGCTTAATAGTATTTAATAAACCATCATGACTTC

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9YGN6	Single-strand selective monofunctional uracil DNA glycosylase OS=Xenopus laevis OX=8355 GN=smug1 PE=1 SV=1
Q53HV7	Single-strand selective monofunctional uracil DNA glycosylase OS=Homo sapiens OX=9606 GN=SMUG1 PE=1 SV=2
Q811Q1	Single-strand selective monofunctional uracil-DNA glycosylase OS=Rattus norvegicus OX=10116 GN=Smug1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0010313 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF03167 all species →	UDG	Uracil DNA glycosylase superfamily	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR039134 all species →	Family	Single-strand selective monofunctional uracil DNA glycosylase	Interproscan
IPR005122 all species →	Domain	Uracil-DNA glycosylase-like	Interproscan
IPR036895 all species →	Homologous_superfamily	Uracil-DNA glycosylase-like domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13235 all species →	SINGLE-STRAND SELECTIVE MONOFUNCTIONAL URACIL DNA GLYCOSYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000703 all species →	Molecular Function	oxidized pyrimidine nucleobase lesion DNA N-glycosylase activity	Interproscan
GO:0004844 all species →	Molecular Function	uracil DNA N-glycosylase activity	Interproscan
GO:0006284 all species →	Biological Process	base-excision repair	Interproscan
GO:0017065 all species →	Molecular Function	single-strand selective uracil DNA N-glycosylase activity	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
K10800	SMUG1; single-strand selective monofunctional uracil DNA glycosylase	EC:3.2.2.-	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.m1.976.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

16TPM > 0

4Conditions

77.9Max TPM

17.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
coral holosome · Control	7	5	15.98	44.44
coral holosome · 30ic treatment	6	4	12.63	27.67
coral holosome · Prometryn (herbicidess) treatment	5	3	16.59	50.64
coral holosome · Prometryn (herbicidess) and 30ic treatment	4	4	29.28	77.92

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27118491	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	44.44
SRR27118487	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	20.00
SRR27118486	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	16.76
SRR27118488	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	16.38
SRR27118480	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	14.29
SRR27118485	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118492	coral holosome · Control	coral holosome	not recorded	Control	SRP476288	0.00
SRR27118466	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	27.67
SRR27118478	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	16.58
SRR27118476	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	16.18
SRR27118479	coral holosome · 30ic treatment	coral holosome	not recorded	30ic treatment	SRP476288	15.34
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
SRR27118484	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	50.64
SRR27118469	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	19.40
SRR27118481	coral holosome · Prometryn (herbicidess) treatment	coral holosome	not recorded	Prometryn (herbicidess) treatment	SRP476288	12.90
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
SRR27118489	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	77.92
SRR27118490	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	16.70
SRR27118472	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	14.90
SRR27118475	coral holosome · Prometryn (herbicidess) and 30ic treatment	coral holosome	not recorded	Prometryn (herbicidess) and 30ic treatment	SRP476288	7.60

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.