Gene detail

Detailed information of FUN_012800-T1 in Siderastrea siderea

Genomic Location: contig_10:3552862...3560547
NR annotation: no NCBI-NR hit recorded
Species Siderastrea siderea · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

FUN_012800-T1

CGACGGGACTTTGATTCACGTTGCTTGCCCCCTGAATGCCCTGATCTGCAGTGTCGAGTTTGATGTCAACACTGACtagaaaggggaggggggagagggtGAAACGTTATTGCGATTAATGAAGTTCTGTTTGACTTTTTATTCCCCAAATTTAAAAGAATTCATTAAGTAGGTACGTCAAAgcaaaaaaatttcctttttctctttcagAGAGAAAAACACGGCGAAACAAATACGTAACTGAAGTGCAAGCCCCtatggggtggggtggggaaaacgaaaataaaaggacAATGTGATGTGAAGCTACTCATGAGGAACGCGTCCTCGGACTTGTGGCTGGACTCTCAGGCGAGAAAGCAGAGCATTAGGGAACTGGCCTCCAGTGATCTGTTAAGTTGCATTTCTAAGCTTAGAACCTAAATTAGCATCAATATGTCCATTTCATTTCGCATCCCAGATCTGATTGCCAAAAAGCGGGACGGTGATGAACTGTCCGAGAACGAAATACACCATTTCGTCAAGTGCGCGGCTTCGAACGGTGCCTCCGAAAGCCAAATCGGTGCGATGCTCATGGCCATCTATCTCAAAGGAATGAATCGCGATGAAACTGTGCATCTTACAAAGGCAATGATTTCTACCGGTAGCTCTTTATCATGGCCTGAAGAGTGGCAGGGAAGTGTCGCAGATAAGCATTCTACAGGCGGAGTAGGGGACAAAGTTAGCATCGCGCTTGTACCCGCATTGGCGGTTTGTGGAGTGAAAGTACCCATGATTTCTGGCCGAGGTCTTGGTCATACCGGGGGAACCCTGGACAAGTTAGAGTCCATTCCAGGATTTCAAGTGAATATGGACTCCAAGAAGATGTGTGATGTTCTGGAGAAAGTTGGCTGTTGCATTGTGGGACAGACAGATTCTCTGGTTCCTGCTGATCGGGTGTTGTATGCCATAAGGGATGTGACTGGTACAGTGGAATCTCTGCCTCTTATAACAAGCTCCATCATATCCAAGAAGGCTTGTGAAAACCCCTCTGCCCTGGTACTTGATGTGAAGTATGGAAAAGCAGCTTTTGCCACAACAGAAGAGAAGGCTCAAGCCCTTGCGCATACCCTGGTTGGTACATGCCATGGTCTTGGTATTAAGGCAGTGGCACTGATCACCAGCATGAATGCACCCATTGGAAGGGCTGTAGGTAACTCTGTGGAGGTGGCTGAAGCCATTAGCTGCCTGAACGGCAAGGGTCCTGAGGATCTGAGGGAATTAGTATGTGAGGAAGgtgGTCATCTGCTTTATGCTTTGAACAAAGTGGAATCAGAAAAGGAAGGCACAAAACTCATTGCCGACACCTTGGACAATGGAAAAGCTCTTCAAAAATTCTGTGAGATGCTAACAGCACAGGGAGTTCAACCAGATGTGGCAAAAAAGGTTTGCACCCCTGGCGCAGACCCCCTCAGCATCCTATCCCTTGCATCCCAAAAAACAGAGCTTGTTGCCGAAAAGAGCGGGATGGTGTCTGAAATAGATGCTCTTGCTTTGGCAAAAGTAACTCATGAGCTTGGGGCAGGTAGACATCAGTCCAGTAGCAACATCGATCATGGTGTTGGTGTTGTGCTGAGCGTAAGAGTTGGTCAGTTCATAACAAAGGGCAACAAATGGGCGACTGTTCATCACAGTGGCAACCTTTCTGATTCCCATATAGCTTCTTTGAAACAGGGCCTAGAGATTGATGAAAGTGGTGGTACTGTCGACTTGCCTGCTCCATCAAGAATCATTGATATCATCGACAACAAGAGGCGGCACTCAATTTTTGTTTGTCAGTAGTACAGGTGTACATGCAGCAGAAAATACTACTAAACCATCAAGAATTACTTGGAGACGGGGGAATATTGGTTAGCCAAGGTCTTTAAGCTTACAGGGTTGTTTTGAGATAGGGGTCAAGGTTAAAGAATGAGATATTTTACATTTCACATCACTATCACTTGTTGCAGCTCATTTTAGTTGACTATGTGCCAGGAAAAATGAGTGTGAAACTAACATGAGTGTCAACAGCATGAACACAACTGTGTCTGATTGAAAGAGCGATCAAGTGATTACTTCTTCATAATATGATTGCTGCTATGAACTTCCaatataatttatttttaattttgtcaatGTTTGATGAACTCATATCATAGACTCAATGTATTCACGTAGTTTTATTAGTGGAACCTTATAGTTGGTGCCCTGAGTAAGGGTCTTTGGTGATTGAAGCTGTCGTGGCCTAGACAAACATGTTTTAGTCATACTAAACGTATACCATCTATTCAATGACATGATTGGGATACATTATTTTGGTTACAAAGAgagcaatattatatttttgggTTGAAAATGAAGCATACTTACACTATCAGAATgtgcttttcttttcatttgtatCAATCACGATATGTGCTTGGTATTCAGggattttttttaatgcttgATCGCGGTTACTCTCAAACGTCAGTCTTTTGCTCATTCCCAAGACATGAGCCTGGGATTATTTTCTCACCATCATAATAGCAGTTTTATTCAAATTATTTGAAGAGTACTTTAATTATTGATGCGGTATTTCCCTTGTTTGTGGAAGTTGTATGTAATTATATGATTGTATGTAAAAAAATATGCGAAATGGTGTGAAGAAGGTAAACTGAAATAAACTTGAATAAAAATTTTACgtgtttctttttattacaaaagaatattttgaattttgcaagCTTAAGGTCACCTTAAATTGTCCTGCATATTACCAACCCTTTTCTTGAGTGAAACTTTAAAGCATTTGTGTGAAGGCTTTCAAGCAATATTTCCTTTGCAAAAATTATGCTCATATATCACACACCCAGACTGGCTGCATAACCATGTTGGGTCAGGTTATGTAAACACAGTCATAGCATACCACCACATTACTTTTTTGGCATGTCCTCTTTTTTCcacctctctctctctctcttttttatgtttttaacaGAATGAATACAATGTAGCCAGTTTATGCTTACATAACCTAGTACAAAAAACTTAAGGGTGTTGGAAGAATTTTAAATTGCATCAATTATTGTATAAAACCCTCTGACTCCTTCAAACTTTCTCTAAATTATGTTTGCATCAGGCTATGTGAGCAGTAGCAACATTTTCTATTTCCTACatgaataggccatttccgaattgcttTCAGCCTCCCTATCATAGTGAGGCtaggtgcacaacctttcatatgaaaatgagttatcattcacatgcaaataaaactaattttcatatgaaaggatGTGAacctagcctcgctttgataggGAAGTTCAAGACAATTCGTAAATGGCCTATTGGAATGGttttttacccccccc

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF02885 all species →	Glycos_trans_3N	Glycosyl transferase family, helical bundle domain	Domain	Interproscan
PF07831 all species →	PYNP_C	Pyrimidine nucleoside phosphorylase C-terminal domain	Domain	Interproscan
PF00591 all species →	Glycos_transf_3	Glycosyl transferase family, a/b domain	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR017459 all species →	Domain	Glycosyl transferase family 3, N-terminal domain	Interproscan
IPR000053 all species →	Family	Thymidine/pyrimidine-nucleoside phosphorylase	Interproscan
IPR035902 all species →	Homologous_superfamily	Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain superfamily	Interproscan
IPR013102 all species →	Domain	Pyrimidine nucleoside phosphorylase, C-terminal	Interproscan
IPR036320 all species →	Homologous_superfamily	Glycosyl transferase family 3, N-terminal domain superfamily	Interproscan
IPR036566 all species →	Homologous_superfamily	Pyrimidine nucleoside phosphorylase-like, C-terminal domain superfamily	Interproscan
IPR017872 all species →	Conserved_site	Pyrimidine-nucleoside phosphorylase, conserved site	Interproscan
IPR018090 all species →	Family	Pyrimidine-nucleoside phosphorylase, bacterial/eukaryotic	Interproscan
IPR000312 all species →	Domain	Glycosyl transferase, family 3	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10515 all species →	THYMIDINE PHOSPHORYLASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0004645 all species →	Molecular Function	1,4-alpha-oligoglucan phosphorylase activity	Interproscan
GO:0006206 all species →	Biological Process	pyrimidine nucleobase metabolic process	Interproscan
GO:0006213 all species →	Biological Process	pyrimidine nucleoside metabolic process	Interproscan
GO:0016763 all species →	Molecular Function	pentosyltransferase activity	Interproscan
GO:0005829 all species →	Cellular Component	cytosol	Interproscan
GO:0016154 all species →	Molecular Function	pyrimidine-nucleoside phosphorylase activity	Interproscan
GO:0016757 all species →	Molecular Function	glycosyltransferase 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
K00758	deoA, TYMP; thymidine phosphorylase	EC:2.4.2.4	Bladder cancer	ko05219	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of FUN_012800-T1 across 85 RNA-seq samples of Siderastrea siderea. 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.

85Samples

43TPM > 0

7Conditions

639.6Max TPM

51.0Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	8	54.75	639.63
holobiont · low.pH Control.temp	20	8	52.37	214.73
holobiont · control.pH_high.temp	20	9	46.41	458.90
holobiont · control.pH Control.temp	19	12	62.44	294.74
Whole organism	4	4	9.87	14.55
unannotated	1	1	23.22	23.22
live coral tissue/skeleton	1	1	13.10	13.10

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	639.63
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	111.57
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	86.45
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	84.00
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	67.96
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	48.82
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	35.40
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	21.17
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	214.73
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	174.10
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	162.67
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	159.05
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	131.56
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	88.15
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	84.97
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	32.09
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214432	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214439	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	0.00
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	458.90
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	113.10
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	112.70
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	69.68
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	63.12
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	47.80
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	36.69
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	14.96
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	11.24
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	294.74
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	186.87
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	131.28
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	124.21
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	82.07
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	79.84
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	70.13
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	69.07
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	66.46
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	40.38
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	30.07
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	11.27
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	0.00
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	14.55
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	8.77
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	8.74
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	7.43
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	23.22
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	13.10

Source: CnidoSite RNA-seq expression matrices (SSIDE_TPM, StringTie quantification over 85 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.