Gene detail

Detailed information of XP_068732874.1 in Montipora capricornis

Genomic Location: chr13:15594096...15606115
NR annotation: XP_029197953.2, negative elongation factor A-like [Acropora millepora]
Species Montipora capricornis · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

rna-XM_068876773.1

CGTTTGACCTTCATTGTACATAGCAGGAGGCGAGCCTTTTTACACGAAACAAAGCTTCAAACGTTTTATTTGGACTGAAGTAAATGCTTTGAGAAACACAAAAGGAATTTATTCAGCAGAGGCAGCTAGTGAGTTGAATCGAAAAATTTCAACTCGGAAAGTAACATTGGTATCCTGTGCACCCAACTGTGGTCTCAGGATAATGGCGTCCGTTCGACAGGCAGACACAGCGTTGTGGCTTCACAACAAATTATCCTGCGACGATTCTTGGTCTGGCAGCAGTTTACGTTCTTTGCTGACCCAAGATGTACTCCGTAATATCCCAGAGTGTTTTCACAGGCTAGAGACACAAGTTAAGGTTAAGCTTTTAATGGCTTTTCTCCATCTTCCTCGAAGAGTCATCGAAGAAACGAACGCCGAATTGAGCGAAATTTTTGAGATCGGCAGCCACGATGAAGACGAATGGGTTCGCGTTTTGTCGGAAATATTGAAGTATTATCCGAGTACAGGAATGTTGAATGTCAATCTTGACCAAGTAAGTCCCGTGTTTGCAGAAGTCAGTCAAGAAATAATGAAGACAGTGGCTAACCTACCTGATGGTGGATCCAGTTTTCTTCCTCTTGAATGCCTTTATTTGAACAGGTCTGCTCTTGTGGCCATGGTAGGCCCCCAGCCACCCCTCCCTAAACACTTCACACTAAGACGAAAACCCAAATCTGCTGCTCTGAGAGCAGAGCTTACACAAAAAGCCAGTGAAGCCTTGTCTGCACAGAAAAAAGCAAATCTTCCAAGCTCTGGACACAAGCTTCAATCTCCATCCAAAAAATTTGAAGCCCCTGTTCGAGTTACCCAAAGAACATCTAACACCTCCACAAGTTACCGACCAACTCCAAACCGAAGCTCTTCTTCAAGTGGTTCATCAAGAAGCATCATCTCTGCTGCAACACTAAAACATCATGGAAGGACAAAGCTGTTAGACATAACAGAACAACCAATTGGAGGCGGCAGAGAGctgaaaagaagaaagaaaatggcAGAATCTGACCATGCAGAGGAAGCAAAGCATAAAAAACTGGAGAACACCAAGCCACTGGAACCCACAACCCCTGATTATGCTGCAGGATTGACACCTGTCACTCAACCATCAAAACCTCCTTCCAGTCCACAGACACCTTCAACAAGCATGGTGCCACCGTCTTCTGCCCCATCTTATGTTCCGCAGGCTGGATCAAGTACCTCGCAATCTTCACCCTCAGATGCTTTAAGTGAGAGTACTATTAACCTCAAAAGAGAGTTGGAGATGCATGTTGAACAACAGCGGCAGATAATGATGAGGGAGAGACAGCAGAAGCAAGCAGCAGCTGCAGCACTAACAGCCAGTTCAGCAGTCTCTACAGCACCCTCGTCTGTGGATTCAAGCAAGACTCCATCTGCTGTTCCTACTTCAGCCACACCTGGCAGCAGTCAACAACAGCAGGGAAATAAACGACAGTTGGCACTCACGCGAGACCAAATGCTAGCTGCGCacgaaatgttcaaaaatgcaaACCGTGTGAGTCGAGCAGAGAAAGCTCTTATTCTGGGATTTATGGCTGGTGCCCGAGAAAAACCGTATTCTCATCAAGGCCCAATCAATACTATTAAACTGAGTGAAAACACAGAGAATGTTTCAGCTTCTGATGGGACACAGCAGACCCAACTTGTAGAAATGCTTTTCGAGATGAACTACGACACGGGACACTGGCGACGCCTCAAACGCACAAGAGTTGTGTCCAAACAGAGTGGATCAGGACCACTGCAAAAACCCTGATCACAGGAATCCCACGGTTGCTCTCTGAAAAATGCCCTGACTTCAACTACTTGGACTTTTTCCCACTGCAACAGATCGTTAAAGCTAAAGAGCTTAACTTGGTAGAGATAAAGTAAAAAATGGGTAAGAGACTATTGGGGACACTAGTCACTAGTCAGGGAAAGAGGGGAGAGGCAAGCCTGCGTTTCGGTCAAGATGCATCGCATCTTCCTCCCCCTCCTCCCTTCCTGAAGTTCACATTAGGTGAGAGGAAAAGAATACATCCCACTTCTGCCCCCCTAAACAACCTTCCTCTCCAGCGGCTCGTTCACATTTTCAGGTGACGTTTGACTGAGTCAGTTTTACCCTTTGATTCCCATGATCTAAAAGTTCGTTCTCCTAACTACTTCCATAGATTTCCTTGTTGGCTGGTCATGAGAACTTGGTGCTATAACAGGATCATATCCTTACGCTGATAGTAATCTTCGTTCTCAATACTTTTCTACCTGaccgtaaattgaaattgaggggtgaatttacatactgatcgatcctgggagtcaaagggttcaACTAAAAAGAGAATACTTTTACACACTTTGAATCGCTAACAAGTATTGTATGGAGGGCCTTGACAAGAGATGGCTACAAATAAATATGGAAAAGAAACGTTTTCCGACATTCTTTTTTACAGTTGAATAacttaaataaatattttgaactTTGGA

Protein

UniProt (Swiss-Prot top hit)

UniProt accession	Description
Q9H3P2	Negative elongation factor A OS=Homo sapiens OX=9606 GN=NELFA PE=1 SV=3
Q8BG30	Negative elongation factor A OS=Mus musculus OX=10090 GN=Nelfa PE=1 SV=1
Q86NP2	Negative elongation factor A OS=Drosophila melanogaster OX=7227 GN=Nelf-A PE=1 SV=2

Gene family

Family type	Membership / link
Orthogroup (gene family)	OG0004888 (this species only)

Pfam domain

No Pfam domain signature was detected for XP_068732874.1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR037517 all species →	Domain	Hepatitis delta antigen (HDAg) domain	Interproscan
IPR052828 all species →	Family	Negative elongation factor A domain-containing protein	Interproscan

PANTHER

PANTHER term	Description	Source
PTHR13328 all species →	NEGATIVE ELONGATION FACTOR A NELF-A	Interproscan

Gene Ontology

GO term	Category	Description	Source
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

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
K15179	WHSC2, NELFA; negative elongation factor A	-	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_068732874.1 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

29TPM > 0

1Conditions

67.7Max TPM

12.2Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Polyps	36	29	12.24	67.71

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	67.71
SRR12904783	Polyps	Polyps	not recorded	not recorded	SRP199550	25.34
SRR27940191	Polyps	Polyps	not recorded	not recorded	SRP199550	25.34
SRR12904781	Polyps	Polyps	not recorded	not recorded	SRP199550	23.80
SRR12904782	Polyps	Polyps	not recorded	not recorded	SRP199550	21.97
SRR27940193	Polyps	Polyps	not recorded	not recorded	SRP199550	21.02
SRR12959201	Polyps	Polyps	E3 day15	not recorded	SRP199550	16.82
SRR12959182	Polyps	Polyps	E3 day0	not recorded	SRP199550	15.66
SRR12786898	Polyps	Polyps	OA3 day0	not recorded	SRP199550	14.91
SRR12959203	Polyps	Polyps	E3 day15	not recorded	SRP199550	14.28
SRR12959202	Polyps	Polyps	E3 day15	not recorded	SRP199550	14.20
SRR12959183	Polyps	Polyps	E3 day0	not recorded	SRP199550	13.87
SRR12959184	Polyps	Polyps	E3 day0	not recorded	SRP199550	13.59
SRR12786896	Polyps	Polyps	OA3 day0	not recorded	SRP199550	13.23
SRR12959216	Polyps	Polyps	E3 day9	not recorded	SRP199550	13.01
SRR12786897	Polyps	Polyps	OA3 day0	not recorded	SRP199550	11.97
SRR12959215	Polyps	Polyps	E3 day9	not recorded	SRP199550	11.63
SRR12959214	Polyps	Polyps	E3 day9	not recorded	SRP199550	11.60
SRR12959190	Polyps	Polyps	E3 day21	not recorded	SRP199550	9.98
SRR12959230	Polyps	Polyps	E3 day3	not recorded	SRP199550	9.85
SRR12959229	Polyps	Polyps	E3 day3	not recorded	SRP199550	9.56
SRR12710847	Polyps	Polyps	OA3 day3	not recorded	SRP199550	9.39
SRR12710857	Polyps	Polyps	OA3 day9	not recorded	SRP199550	8.99
SRR12959189	Polyps	Polyps	E3 day21	not recorded	SRP199550	8.93
SRR12959188	Polyps	Polyps	E3 day21	not recorded	SRP199550	8.63
SRR12710855	Polyps	Polyps	OA3 day9	not recorded	SRP199550	7.25
SRR12710858	Polyps	Polyps	OA3 day9	not recorded	SRP199550	6.56
SRR12710848	Polyps	Polyps	OA3 day3	not recorded	SRP199550	6.29
SRR12710846	Polyps	Polyps	OA3 day3	not recorded	SRP199550	5.12
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
SRR12959227	Polyps	Polyps	E3 day3	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.