Gene detail

Detailed information of OS493_014653-T1 in Lophelia pertusa

Genomic Location: scaffold_42:290077...293795
NR annotation: KAJ7334343.1, Spectrin alpha chain, non-erythrocytic 1 [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
Q13813	Spectrin alpha chain, non-erythrocytic 1 OS=Homo sapiens OX=9606 GN=SPTAN1 PE=1 SV=3
P16546	Spectrin alpha chain, non-erythrocytic 1 OS=Mus musculus OX=10090 GN=Sptan1 PE=1 SV=4
P16086	Spectrin alpha chain, non-erythrocytic 1 OS=Rattus norvegicus OX=10116 GN=Sptan1 PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0001340 (this species only) · gene tree & orthology

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF08726 all species →	EFhand_Ca_insen	Ca2+ insensitive EF hand	Domain	Interproscan
PF13499 all species →	EF-hand_7	EF-hand domain pair	Domain	Interproscan
PF00435 all species →	Spectrin	Spectrin repeat	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR002048 all species →	Domain	EF-hand domain	Interproscan
IPR014837 all species →	Domain	EF-hand, Ca insensitive	Interproscan
IPR018247 all species →	Binding_site	EF-Hand 1, calcium-binding site	Interproscan
IPR002017 all species →	Repeat	Spectrin repeat	Interproscan
IPR011992 all species →	Homologous_superfamily	EF-hand domain pair	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR11915 all species →	SPECTRIN/FILAMIN RELATED CYTOSKELETAL PROTEIN	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0005509 all species →	Molecular Function	calcium ion binding	Interproscan
GO:0005886 all species →	Cellular Component	plasma membrane	Interproscan
GO:0030036 all species →	Biological Process	actin cytoskeleton organization	Interproscan
GO:0030054 all species →	Cellular Component	cell junction	Interproscan
GO:0030864 all species →	Cellular Component	cortical actin cytoskeleton	Interproscan
GO:0042995 all species →	Cellular Component	cell projection	Interproscan
GO:0051015 all species →	Molecular Function	actin filament binding	Interproscan
GO:0005515 all species →	Molecular Function	protein 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
K02183	CALM; calmodulin	-	Exosome	ko04147	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_014653-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

445.6Max TPM

227.1Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	326.90	444.55
polyp at pH7 6	18	18	307.69	379.58
coral polyp · control treatment	16	16	188.83	248.74
coral polyp · oil and dispersant treatment	16	16	147.39	272.23
coral polyp · oil treatment	16	16	201.20	328.13
coral polyp · dispersant treatment	16	16	131.62	197.37
Polyp	10	10	285.28	445.59

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR11359519	polyp at pH7 9	not recorded	not recorded	not recorded	-	444.55
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	418.01
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	407.91
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	401.17
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	389.18
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	386.62
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	341.73
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	334.49
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	303.48
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	302.81
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	301.40
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	286.56
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	269.98
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	269.78
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	259.66
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	259.13
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	254.25
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	253.41
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	379.58
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	372.92
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	360.71
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	355.05
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	340.68
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	332.83
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	327.54
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	307.34
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	298.84
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	298.76
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	298.35
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	296.75
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	293.88
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	288.30
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	265.67
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	255.01
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	234.02
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	232.24
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	248.74
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	238.11
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	237.12
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	236.23
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	218.08
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	215.71
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	208.21
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	195.54
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	190.22
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	189.03
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	180.88
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	178.86
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	151.16
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	124.58
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.81
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	104.01
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	272.23
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	197.69
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	196.12
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	164.39
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	152.68
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	148.10
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	144.40
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	140.91
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	135.38
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.46
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	134.29
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	121.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	118.22
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	117.89
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	98.05
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	81.38
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	328.13
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	255.80
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	244.27
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	229.30
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	229.17
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	221.65
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	220.20
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	206.03
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	192.14
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	170.25
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	168.58
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	167.06
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	161.46
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	154.03
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	137.00
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	134.19
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	197.37
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	197.27
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	166.06
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	164.07
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	161.71
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	153.07
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	149.66
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	144.52
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	131.44
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	119.76
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	119.32
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	98.67
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	88.87
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	86.72
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	81.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	45.58
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	445.59
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	361.74
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	351.55
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	323.90
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	322.56
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	277.97
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	250.22
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	249.02
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	139.74
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	130.47

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.