Gene detail

Detailed information of OS493_036480-T1 in Lophelia pertusa

Genomic Location: scaffold_366:195867...205488
NR annotation: KAJ7319191.1, a1-alpha2 repression [Desmophyllum pertusum]
Species Lophelia pertusa · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q08DJ7	Protein AAR2 homolog OS=Bos taurus OX=9913 GN=AAR2 PE=2 SV=1
Q9D2V5	Protein AAR2 homolog OS=Mus musculus OX=10090 GN=Aar2 PE=1 SV=3
Q9Y312	Protein AAR2 homolog OS=Homo sapiens OX=9606 GN=AAR2 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006524 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF20981 all species →	AAR2_1st	AAR2 N-terminal domain	Domain	Interproscan
PF05282 all species →	AAR2	AAR2 C-terminal repeat region	Repeat	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR033647 all species →	Domain	AAR2, N-terminal	Interproscan
IPR038516 all species →	Homologous_superfamily	AAR2, N-terminal domain superfamily	Interproscan
IPR033648 all species →	Domain	AAR2, C-terminal domain	Interproscan
IPR038514 all species →	Homologous_superfamily	AAR2, C-terminal domain superfamily	Interproscan
IPR007946 all species →	Family	A1 cistron-splicing factor, AAR2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR12689 all species →	A1 CISTRON SPLICING FACTOR AAR2-RELATED	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000244 all species →	Biological Process	spliceosomal tri-snRNP complex assembly	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
K13205	AAR2, C20orf4; A1 cistron-splicing factor AAR2	-	Spliceosome	ko03041	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of OS493_036480-T1 across 110 RNA-seq samples of Lophelia pertusa. 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.

110Samples

109TPM > 0

7Conditions

10.2Max TPM

4.8Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.98	7.71
polyp at pH7 6	18	18	6.00	10.09
coral polyp · control treatment	16	16	4.99	10.15
coral polyp · oil and dispersant treatment	16	16	3.85	8.68
coral polyp · oil treatment	16	16	4.85	7.37
coral polyp · dispersant treatment	16	16	3.76	8.64
Polyp	10	9	4.55	9.04

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.71
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.40
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	7.20
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.59
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.56
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.31
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.24
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.13
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.68
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.65
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.60
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.49
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.35
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.10
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.74
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.00
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.90
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.09
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.08
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.25
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.74
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.80
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	7.04
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.53
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.83
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.78
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.76
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.74
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.63
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.62
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.58
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.44
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.07
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.06
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.94
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.15
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.39
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.02
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.82
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.69
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.48
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.17
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.07
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.70
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.09
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.97
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.32
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.23
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.07
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.42
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	8.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.76
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.66
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.87
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.99
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.93
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.81
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.69
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.63
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.41
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.37
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.73
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.55
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.46
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.36
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.37
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.24
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.21
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.00
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.91
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.66
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.53
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.31
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.67
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.34
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.12
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.84
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.02
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.86
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.49
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.64
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.41
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.99
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.54
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.41
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.85
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.51
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.49
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.30
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.94
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.93
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.02
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.65
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.27
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.57
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	9.04
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	8.17
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	6.19
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	5.69
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	5.26
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	3.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	2.80
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	2.79
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.00
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	0.00

Source: CnidoSite RNA-seq expression matrices (LPERT_TPM, StringTie quantification over 110 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.