Gene detail

Detailed information of XP_068731682.1 in Montipora capricornis

Genomic Location: chr2:55694657...55714200
NR annotation: XP_029182727.2, negative elongation factor E-like [Acropora millepora]
Species Montipora capricornis · 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
Q6IP09	Polyadenylate-binding protein 1-B OS=Xenopus laevis OX=8355 GN=pabpc1-b PE=2 SV=1
F1QB54	Polyadenylate-binding protein 1A OS=Danio rerio OX=7955 GN=pabpc1a PE=1 SV=1
P61286	Polyadenylate-binding protein 1 OS=Bos taurus OX=9913 GN=PABPC1 PE=2 SV=1

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0006185 (this species only)

Pfam domain

Pfam accession	Pfam name	Description	Type	Source
PF00076 all species →	RRM_1	RNA recognition motif	Domain	Interproscan

InterPro

InterPro term	Type	Description	Source
IPR012677 all species →	Homologous_superfamily	Nucleotide-binding alpha-beta plait domain superfamily	Interproscan
IPR000504 all species →	Domain	RNA recognition motif domain	Interproscan
IPR033102 all species →	Family	Negative elongation factor E	Interproscan
IPR035979 all species →	Homologous_superfamily	RNA-binding domain superfamily	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR17250 all species →	NEGATIVE ELONGATION FACTOR E	Interproscan

Gene Ontology

GO term	Category	Description	Source
GO:0003723 all species →	Molecular Function	RNA binding	Interproscan
GO:0006355 all species →	Biological Process	regulation of DNA-templated transcription	Interproscan
GO:0032021 all species →	Cellular Component	NELF complex	Interproscan
GO:0034244 all species →	Biological Process	negative regulation of transcription elongation by RNA polymerase II	Interproscan
GO:0003676 all species →	Molecular Function	nucleic acid 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
K15182	RDBP, NELFE; negative elongation factor E	-	Transcription machinery	ko03021	deepkoala

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

Expression pattern (RNA-seq)

Transcript abundance of XP_068731682.1 across 36 RNA-seq samples of Montipora capricornis. 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.

36Samples

30TPM > 0

1Conditions

151.0Max TPM

52.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	30	52.25	151.03

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR27940192	Polyps	Polyps	not recorded	not recorded	SRP199550	151.03
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	120.89
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	93.36
SRR12959227	Polyps	Polyps	E3 day3	not recorded	SRP199550	89.30
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	73.44
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	65.52
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	63.90
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	61.75
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	60.76
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	57.62
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	56.25
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	56.20
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	55.40
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	55.31
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	55.12
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	54.93
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	54.61
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	54.50
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	54.02
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	52.96
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	52.65
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	52.34
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	51.06
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	50.33
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	49.18
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	48.74
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	48.62
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	48.47
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	46.80
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	45.85
SRR12807381	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12849113	Polyps	Polyps	OA3 day0	not recorded	SRP199550	0.00
SRR12927880	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR12963484	Polyps	Polyps	E3 day0	not recorded	SRP199550	0.00
SRR9129316	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00
SRR9613519	Polyps	Polyps	not recorded	not recorded	SRP199550	0.00

Source: CnidoSite RNA-seq expression matrices (MCAPR_TPM, StringTie quantification over 36 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.