Gene detail

Detailed information of OS493_012022-T1 in Lophelia pertusa

Genomic Location: scaffold_31:950051...961686
NR annotation: KAJ7392362.1, Telomeric repeat-binding factor [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
Q9PU53	Telomeric repeat-binding factor 2 OS=Gallus gallus OX=9031 GN=TERF2 PE=1 SV=2
O35144	Telomeric repeat-binding factor 2 OS=Mus musculus OX=10090 GN=Terf2 PE=1 SV=3
P70371	Telomeric repeat-binding factor 1 OS=Mus musculus OX=10090 GN=Terf1 PE=1 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0003396 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00249 all species →	Myb_DNA-binding	Myb-like DNA-binding domain	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR036507 all species →	Homologous_superfamily	Telomere repeat-binding factor, dimerisation domain superfamily	Interproscan
IPR001005 all species →	Domain	SANT/Myb domain	Interproscan
IPR009057 all species →	Homologous_superfamily	Homeobox-like domain superfamily	Interproscan
IPR017930 all species →	Domain	Myb domain	Interproscan
IPR030657 all species →	Family	Telomeric repeat-binding factor 2	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR46833 all species →	TELOMERIC REPEAT-BINDING FACTOR 2 TERF2	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0000723 all species →	Biological Process	telomere maintenance	Interproscan
GO:0000781 all species →	Cellular Component	chromosome, telomeric region	Interproscan
GO:0005634 all species →	Cellular Component	nucleus	Interproscan
GO:0031848 all species →	Biological Process	protection from non-homologous end joining at telomere	Interproscan
GO:0042162 all species →	Molecular Function	telomeric DNA binding	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
K11111	TERF2, TRF2; telomeric repeat-binding factor 2	-	DNA replication proteins	ko03032	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_012022-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

110TPM > 0

7Conditions

36.0Max TPM

4.6Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	4.46	6.17
polyp at pH7 6	18	18	4.94	6.92
coral polyp · control treatment	16	16	5.64	31.88
coral polyp · oil and dispersant treatment	16	16	4.73	36.03
coral polyp · oil treatment	16	16	4.22	7.62
coral polyp · dispersant treatment	16	16	2.65	6.03
Polyp	10	10	5.62	10.60

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.17
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	6.16
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	5.26
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.92
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.91
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.88
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.51
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.39
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.26
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.13
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.06
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	4.04
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.98
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.88
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.65
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	3.53
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	2.96
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.92
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.53
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	6.08
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.78
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.72
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.62
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.47
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	5.02
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.94
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.69
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.58
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.47
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.30
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.26
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	4.11
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.78
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.42
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	3.24
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	31.88
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	6.25
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.88
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	5.25
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.73
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.46
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.87
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.82
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.80
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.80
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.75
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.34
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	3.18
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.74
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	2.03
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	1.51
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	36.03
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	4.14
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.78
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.77
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.65
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	3.36
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.67
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.51
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.42
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.24
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.22
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.13
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	2.00
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.90
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.48
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.43
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	7.62
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.96
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	5.71
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.95
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.91
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.82
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.64
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.62
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	4.46
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.49
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.41
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	3.14
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.94
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.78
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	2.13
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	1.92
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.03
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.66
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.03
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.35
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.33
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	3.00
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.97
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.89
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.52
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	2.24
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.91
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.84
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.44
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	1.24
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.75
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	0.29
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	10.60
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	7.56
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	6.98
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	5.58
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	5.56
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	5.10
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	4.69
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	4.25
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	3.58
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	2.25

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.