Gene detail

Detailed information of FUN_022053-T1 in Siderastrea siderea

Genomic Location: contig_20:2440768...2462104
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_022053-T1

TTTGTACACGTCTGGAGCCCCACAAACACAGCTAACCACGGTGGTGTATGCACATGTTGTTGAGGAGTTTACAAGAGCAAAATTTGGCGACCAAACCGGCTATTCAAGTTGATCGAATCACCTCATATGCACATAAGCAACAAGAGATACAGCTGACCGACAACAACTGAATATTTTTTGCGCGCTGAGGACTCACTCCGCCTTGTCTCTGCTCATTTATAACTTGTCTTGTTCTTGTCTGGAAGTGTGATCTGGTCTCATTTGACACGATTTCTCTTCACTGAACGGCAGAATTACAGAGGATGCGATTGTCAGTTCGATTCAACGGCAAATGGATTGTTGTTCCTTGCGGAGAAGGTGAAAATTCTATTCAATGGTTAATCGAAGAGACAATTCATCGTTCCGACGTGTGTGAAAAGTCACACTTCACCGCCGAAAACGTCAAGGCAGTCTTGGCCCAGAGCGGAGGGAAACTATGTCTAAAGGATGCTATAAAAGAAGTATTGAACGACAGCGATTTTGTACATATTTCAGCAAGAGAAACTGCAGAGAAAGATGATCAAACCTCacatgaaaatgttttAAGAGGGGGAATAAAAAAGGATCAGAAACAAATACAGTTTGTTGAACTTGATGGATGCTCACTGACACCTGAAACACTGGTTGCATTGGGACAAGGCAAACTAAAGATTAAGCTGACAGAAGAGTCTGAGAAAAATGTGAGCAAGTCACGGGCATTGTTGGACGGCATCGTCCGTGAAAATAAAGTGGTGTACGGTGTGACAACAGGATTCGGAAAGTTTGCAACCGTGGTTATTCCTAATGAAAAACTTATGGAGCTGCAAAACAATCTCATAAGATCGCATGCTGCAGGTGTAGGTCCTCCTTTGTCAATAGAGCACACTCGAATGTTGTTGGCACTAAGGATTAACATTCTGGCAAAAGGTTACAGTGGGGTCTCACTCAAGACCTTAAAACAGCTGGTTGCAGCCTTTAATGAGTCCTGCCTGCCGTGGGTTCCTGAGCAGGGTACTGTAGGGGCGAGTGGTGACCTCGCTCCGTTATCACACTTAGCACTTGGTTTGCTGGGAGAGGGACAAATGTGGAGTCCCAAGAGCGGCTGGGCTGATGCCAGTTTGGTCCTCAAGGCGCATGGTCTTGAGTCGCTCATGCTCGGTCCTAAGGAGGGGCTTGCTTTGATAAATGGGACTCAGTTGATAACTTCGCTTGGTGCCGAAGCCGTGGAACGGTCTCGTTTAATTGCCAAGCAAGCTGACGTCATTGCAGCATTGTCATTAGAAGTGTTGAAGGGAACAACAAGAGCGTTTGATGCTTTAATCCAACAGGTGCGCCCACACGTTGGTCAGCGTCGCGTAGCTGAAAGATTGCGATCTCTGCTTCATTCAAGAATACATCATTCGGAAATTGCAGAAAGTCACAGATTTTGTAACCGTGTCCAAGACGCATACACGTTACGCTGTTGTCCCCAGGTACACGGAATTGTCAATGACACTATCGACTTCGCGGAAGAGGTGATAACGACAGAAATGAACAGTGCCACAGACAACCCAATCGTTTTTGCTGAACACGGAGAGGTTATTTCAGGTGGAAATTTTCATGGCGAATATCCTGCCAAGGTGTTGGACTACTTAACCATTGGCATTCATGAACTCGCGAGTATCAGCGAGAGAAGAATGGAGAGACTTGTCAATCCaaCATACAGTGAGCTACCAGcatttcttgtcaaagaaggaggACTTAATTCTGGTTTTATGATGGCACACTGTACGGCGGCATCTTTAGTTTCAGAGAACAAAGTCCTGTGCCACCCCTCCTCGGTAGATTCGTTACCCACGTCCGCTGGCCAAGAAGATCACGTGTCCATGGGAGGGTTTGCCGCGAGAAAGGCCATCAAAGTTGTTGAAAATGTGGAAAAAGTGCTTGCGATTGAGTTGTTGATAGCTTGCCAGGGAATTGATCTTCTACGCCCTTTGAAAACGACAGAACCTCTCGAAGCTGTTCATTCCCTCGTGAGGAAAAATATCAAGTCTTGGGATAAGGATCGGTTCATGGCCGCTGACATTGAAGCTGCACTCAAGCTTGTTAAGGAAGGCAAAATCTGGGAAGTTGCCTCGCCATACATGACGAACTACTTCAGTACCATAGCATGTCAGGAAATGTCCAACAATGTATTTTCACCAACTGCAAGCGTGTTAACCGACGACGTCACTCCTCCAGGAAAGAGGATCAAGTTGGATCATAAGTGAACATTTTAAAGGAGTCACTTGAGTAATTCTACGTCGCTCTAAAACGCAGTGGAAATCGCACGTACACCTATTTTTGCAGAAGCTTCGACAGCTGTAAAAAACTCGCAGAAATTCATCTCATTGTTGTTGatgttatttaattttttttttacattttttttttgctttgttttgttttgtttttttttttttggtgggaaACTCAGATTCTTGTGTCGCTTGTGTCGCACGTCAGATTTCCACCGCGCGCTTGCGACGCGACAAAAATTTTCAGACTTGACAAAATTTATCAACTGGTGTTTGTTAAATATTGATAATGGTGTATTTATATATGAGATGTCAATTCATCAGTCGATAATTTTTATGTGTCCGTTATTTAACGCGAACGGTTAATTCCTAATATTTTCTTTCGTGAACAAGAAGCGACAAAACGCGGTGAACTGTTTTAAGgtgttgttattttttatgtTCCAGCAGAATGAACGCGATTCTTCTTTGTATTTATTCGAAACATCGTAAACAGGACATAAAGAAGTCAATTAACCTGTTGGTGAAAAATATGTTCAGTTGCATGAAATGTAGAGTAGGTGTGTTAAAGTTGGAGACTATACGTTTTTGTAGAGGTGTGATGTAGGTTGATTTAAAATCACCTAAAAGCAAGGTCTTTGAAAGAAGTTAAATTTGTTTGGAAGAATCTGTTTAAGTATATTGTGAGTTAAGACTTTGCTAGACTCAGTTATTCAAAGCTGGGAAGCACTTTATATAACGTACACATATCGGTTGTATTAATAagggtttaatttatttaccaaataaaaaaaacaagccTGTGTACATTCGAATGACGTGTCGTGATTATGAAAGAATATTTTGGATAATTCTTGTCTCTGTCTTAGAAAGTTTGTTCCAAGTTGTCTCTTTCCAACTTTATTCCAGTTCCGGCGAATCGGTTTACCTTGGTTCCCACTAGCGACATAACGTTCGTTCGTTGGTTCGTTCGTTGGCTGGTTCGttcgtgcgtgcgtgcgtgcgtgcgtgcgttcgttcgttcgtttgttctttcgttcgttcatttaagtttatttaaacacggttaAAGACATCAGGCCTTAATTTAACTAAATACAATTATAAGCGCAAACATGTCATGACGCTTATGACTCATTGGGAACGCCAAAAACAAAATCATATGCCAAGGGTACTTATGATCAACATTATCAGAAGAAAATCAATGATCATTTTGTCGTGTTTATGATTATGTCGTCCTTAATCTCAGTGGGAAGGTGAAAACCTTTGCAGCCTGATCCTAATCACGAAAACGCAAAAGACTGCTTGTACTTCAAAGACCCGTCAGTACTAATGCGTATTCAAGTCTGTTTCATTTTAGTCGAAAACATAGCAAAATATTTTAGTTCGCAATT

Protein

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF12053 all species →	Par3_HAL_N_term	N-terminal of Par3 and HAL proteins	Family	Interproscan
PF00221 all species →	Lyase_aromatic	Aromatic amino acid lyase	Family	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR022313 all species →	Active_site	Phenylalanine/histidine ammonia-lyases, active site	Interproscan
IPR001106 all species →	Family	Aromatic amino acid lyase	Interproscan
IPR021922 all species →	Domain	Par3/HAL, N-terminal	Interproscan
IPR024083 all species →	Homologous_superfamily	Fumarase/histidase, N-terminal	Interproscan
IPR008948 all species →	Homologous_superfamily	L-Aspartase-like	Interproscan
IPR005921 all species →	Family	Histidine ammonia-lyase	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR10362 all species →	HISTIDINE AMMONIA-LYASE	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0016841 all species →	Molecular Function	ammonia-lyase activity	Interproscan
GO:0004397 all species →	Molecular Function	histidine ammonia-lyase activity	Interproscan
GO:0006548 all species →	Biological Process	L-histidine catabolic process	Interproscan
GO:0003824 all species →	Molecular Function	catalytic activity	Interproscan
GO:0005737 all species →	Cellular Component	cytoplasm	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
K01745	hutH, HAL; histidine ammonia-lyase	EC:4.3.1.3	Histidine metabolism	ko00340	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_022053-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

80TPM > 0

7Conditions

691.6Max TPM

285.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
holobiont · low.pH_high.temp	20	19	316.83	691.64
holobiont · low.pH Control.temp	20	18	286.99	649.67
holobiont · control.pH_high.temp	20	18	314.71	676.81
holobiont · control.pH Control.temp	19	19	306.11	645.08
Whole organism	4	4	10.93	13.70
unannotated	1	1	13.26	13.26
live coral tissue/skeleton	1	1	9.44	9.44

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR22214421	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	691.64
SRR22214403	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	503.75
SRR22214414	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	481.82
SRR22214412	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	425.04
SRR22214416	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	424.09
SRR22214408	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	401.48
SRR22214404	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	352.41
SRR22214410	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	346.05
SRR22214407	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	340.70
SRR22214402	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	318.75
SRR22214406	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	317.19
SRR22214405	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	306.04
SRR22214409	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	275.74
SRR22214420	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	234.48
SRR22214423	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	208.36
SRR22214419	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	203.91
SRR22214418	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	183.85
SRR22214413	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	171.54
SRR22214415	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	149.66
SRR22214417	holobiont · low.pH_high.temp	holobiont	not recorded	low.pH_high.temp	SRP406607	0.00
SRR22214443	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	649.67
SRR22214430	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	559.92
SRR22214428	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	507.44
SRR22214424	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	463.06
SRR22214429	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	427.20
SRR22214431	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	412.04
SRR22214437	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	399.23
SRR22214436	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	302.05
SRR22214425	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	286.97
SRR22214442	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	280.02
SRR22214427	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	272.21
SRR22214435	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	257.76
SRR22214441	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	201.76
SRR22214438	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	194.87
SRR22214445	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	165.63
SRR22214434	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	152.69
SRR22214440	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	132.67
SRR22214426	holobiont · low.pH Control.temp	holobiont	not recorded	low.pH Control.temp	SRP406607	74.53
SRR22214432	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
SRR22214465	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	676.81
SRR22214448	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	500.38
SRR22214467	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	494.73
SRR22214456	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	434.94
SRR22214463	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	402.97
SRR22214459	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	388.72
SRR22214450	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	371.67
SRR22214462	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	368.29
SRR22214464	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	359.06
SRR22214458	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	336.39
SRR22214447	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	326.24
SRR22214451	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	276.59
SRR22214454	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	268.29
SRR22214460	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	252.74
SRR22214461	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	248.69
SRR22214453	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	221.92
SRR22214457	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	220.05
SRR22214446	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	145.72
SRR22214449	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214452	holobiont · control.pH_high.temp	holobiont	not recorded	control.pH_high.temp	SRP406607	0.00
SRR22214547	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	645.08
SRR22214444	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	423.74
SRR22214470	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	402.56
SRR22214524	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	387.12
SRR22214468	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	379.38
SRR22214492	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	362.12
SRR22214548	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	339.58
SRR22214471	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	298.63
SRR22214411	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	297.24
SRR22214506	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	295.88
SRR22214469	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	290.24
SRR22214400	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	269.19
SRR22214422	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	255.90
SRR22214546	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	255.67
SRR22214433	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	232.52
SRR22214535	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	224.28
SRR22214466	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	208.57
SRR22214481	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	207.35
SRR22214455	holobiont · control.pH Control.temp	holobiont	not recorded	control.pH Control.temp	SRP406607	41.00
SRR14295603	Whole organism	Whole organism	not recorded	not recorded	SRP315757	13.70
SRR14295604	Whole organism	Whole organism	not recorded	not recorded	SRP315757	10.32
SRR14295601	Whole organism	Whole organism	not recorded	not recorded	SRP315757	10.18
SRR14295600	Whole organism	Whole organism	not recorded	not recorded	SRP315757	9.52
ERR12861049	unannotated	not recorded	not recorded	not recorded	ERP159209	13.26
SRR12454619	live coral tissue/skeleton	live coral tissue/skeleton	not recorded	not recorded	SRP277390	9.44

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.