Gene detail

Detailed information of OS493_028607-T1 in Lophelia pertusa

Genomic Location: scaffold_166:579054...590316
NR annotation: KAJ7370990.1, histone binding [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
Q96BD5	PHD finger protein 21A OS=Homo sapiens OX=9606 GN=PHF21A PE=1 SV=1
Q6ZPK0	PHD finger protein 21A OS=Mus musculus OX=10090 GN=Phf21a PE=1 SV=3
Q8C966	PHD finger protein 21B OS=Mus musculus OX=10090 GN=Phf21b PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004305 (this species only) · gene tree & orthology
Ubiquitin family	E3\|E3 activity RING\|PHD · all ubiquitin genes in this species

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00628 all species →	PHD	PHD-finger	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR001965 all species →	Domain	Zinc finger, PHD-type	Interproscan
IPR011011 all species →	Homologous_superfamily	Zinc finger, FYVE/PHD-type	Interproscan
IPR013083 all species →	Homologous_superfamily	Zinc finger, RING/FYVE/PHD-type	Interproscan
IPR019787 all species →	Domain	Zinc finger, PHD-finger	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR24102 all species →	PHD FINGER PROTEIN	Interproscan

Gene Ontology

No Gene Ontology signature was recorded for OS493_028607-T1 in Lophelia pertusa.

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
K24651	PHF21A; PHD finger protein 21A	-	Chromosome and associated proteins	ko03036	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_028607-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

29.9Max TPM

12.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM
polyp at pH7 9	18	18	13.69	19.79
polyp at pH7 6	18	18	12.85	20.03
coral polyp · control treatment	16	16	12.04	16.92
coral polyp · oil and dispersant treatment	16	16	11.81	17.70
coral polyp · oil treatment	16	16	10.81	13.85
coral polyp · dispersant treatment	16	16	8.61	12.78
Polyp	10	10	18.22	29.93

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	-	19.79
SRR11359518	polyp at pH7 9	not recorded	not recorded	not recorded	-	19.44
SRR11359522	polyp at pH7 9	not recorded	not recorded	not recorded	-	18.25
SRR11359521	polyp at pH7 9	not recorded	not recorded	not recorded	-	16.12
SRR11359523	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.83
SRR11359520	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.49
SRR11359495	polyp at pH7 9	not recorded	not recorded	not recorded	-	15.06
SRR11359494	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.96
SRR11359509	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.28
SRR11359511	polyp at pH7 9	not recorded	not recorded	not recorded	-	12.26
SRR11359498	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.82
SRR11359510	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.81
SRR11359499	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.54
SRR11359508	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.43
SRR11359496	polyp at pH7 9	not recorded	not recorded	not recorded	-	11.18
SRR11359507	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.93
SRR11359497	polyp at pH7 9	not recorded	not recorded	not recorded	-	10.32
SRR11359506	polyp at pH7 9	not recorded	not recorded	not recorded	-	9.87
SRR11359525	polyp at pH7 6	not recorded	not recorded	not recorded	-	20.03
SRR11359500	polyp at pH7 6	not recorded	not recorded	not recorded	-	18.07
SRR11359529	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.44
SRR11359504	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.14
SRR11359501	polyp at pH7 6	not recorded	not recorded	not recorded	-	15.11
SRR11359528	polyp at pH7 6	not recorded	not recorded	not recorded	-	14.76
SRR11359517	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.95
SRR11359524	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.62
SRR11359516	polyp at pH7 6	not recorded	not recorded	not recorded	-	13.51
SRR11359505	polyp at pH7 6	not recorded	not recorded	not recorded	-	12.78
SRR11359503	polyp at pH7 6	not recorded	not recorded	not recorded	-	11.29
SRR11359527	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.37
SRR11359502	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.36
SRR11359526	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.28
SRR11359514	polyp at pH7 6	not recorded	not recorded	not recorded	-	10.11
SRR11359513	polyp at pH7 6	not recorded	not recorded	not recorded	-	9.60
SRR11359512	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.42
SRR11359515	polyp at pH7 6	not recorded	not recorded	not recorded	-	8.41
SRR16705946	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	16.92
SRR16705970	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	14.63
SRR16705943	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.33
SRR16705957	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.16
SRR16705973	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	13.09
SRR16705974	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.99
SRR16705942	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.99
SRR16705992	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	12.96
SRR16705971	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.96
SRR16705975	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.78
SRR16705972	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.62
SRR16705965	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.04
SRR16705990	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	11.01
SRR16705989	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	10.16
SRR16705960	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	9.96
SRR16705991	coral polyp · control treatment	coral polyp	polyp	control treatment	SRP344271	4.97
SRR16705995	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	17.70
SRR16705996	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	16.49
SRR16705945	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.50
SRR16705947	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.46
SRR16705993	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	15.27
SRR16705994	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.32
SRR16706004	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	14.15
SRR16705944	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	13.70
SRR16705979	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	12.22
SRR16705982	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	10.19
SRR16705978	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.81
SRR16705976	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.50
SRR16705948	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	9.35
SRR16706005	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	7.83
SRR16705997	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	5.83
SRR16705977	coral polyp · oil and dispersant treatment	coral polyp	polyp	oil and dispersant treatment	SRP344271	1.68
SRR16705983	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.85
SRR16705964	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.09
SRR16705984	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.08
SRR16705952	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	13.01
SRR16705962	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	12.76
SRR16706001	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.66
SRR16705951	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	11.45
SRR16706000	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.49
SRR16705963	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.45
SRR16705999	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	10.08
SRR16705980	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.76
SRR16705961	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.73
SRR16705981	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	9.40
SRR16705949	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.99
SRR16705950	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	8.40
SRR16705998	coral polyp · oil treatment	coral polyp	polyp	oil treatment	SRP344271	6.74
SRR16705985	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	12.78
SRR16705969	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	11.00
SRR16705988	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.84
SRR16705959	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.60
SRR16705956	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	10.45
SRR16705967	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.89
SRR16705987	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	9.12
SRR16705955	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	8.85
SRR16705958	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.98
SRR16705968	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.53
SRR16706003	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.33
SRR16705986	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	7.07
SRR16705954	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.99
SRR16706002	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.27
SRR16705966	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	6.09
SRR16705953	coral polyp · dispersant treatment	coral polyp	polyp	dispersant treatment	SRP344271	4.96
SRR23025712	Polyp	not recorded	not recorded	not recorded	-	29.93
SRR23025708	Polyp	not recorded	not recorded	not recorded	-	29.70
SRR23025710	Polyp	not recorded	not recorded	not recorded	-	26.14
SRR23025711	Polyp	not recorded	not recorded	not recorded	-	21.75
SRR23025709	Polyp	not recorded	not recorded	not recorded	-	19.38
SRR7746667	Polyp	not recorded	not recorded	not recorded	-	16.39
SRR23025713	Polyp	not recorded	not recorded	not recorded	-	16.27
SRR7746666	Polyp	not recorded	not recorded	not recorded	-	9.75
SRR7746668	Polyp	not recorded	not recorded	not recorded	-	8.73
SRR7746669	Polyp	not recorded	not recorded	not recorded	-	4.19

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.