Gene detail

Detailed information of g35.t1 in Acropora digitifera

Genomic Location: chr1Alt:470548...484128
NR annotation: XP_015761905.1, PREDICTED: negative elongation factor A-like [Acropora digitifera]
Species Acropora digitifera · all data for this species · gene families

Gene Structure

More details in JBrowse

Sequence

CDS

Transcript

chr1Alt.g35.t1

TTATGTTACATATGCGCCTTAACTTTATGCATGGTGACACTGTAGATCCATACTGGGTCGGTAGCCCGAGAAAATCCGTTTTCAATCAAATAAAAGACTTGAGACAAAACAATAATTCATTGAACAAATAATAATTTCCAACAAAATAAACTCCAAAATGTACTTTGCGAACAATGATAACTGGTATCCTGTGCACTGCTAAGAACAAAATGGCGTCTGTTCGACAAGCAGACACAGCGTTGTGGCTGCATAACAAGTTATCTTCCGACGATTCCTGGTCTGGCAGTAGCTTACGTTCTTTGCTGACTCAGGATGTGCTTCGTAACATTCCAGAGTGTTTTCACAGACTAGAGACTCAAGTGAAAGTTAAACTTTTGATGGCATTTCTCCATCTTCCTCGTCGAGTCATAGAAGAAACGAACGGAGAATTGAGCGAAATTTTTGAGATTGGCAGCCATGATGAAGACGAATGGGTTCGCGTTTTATCAGAGATAATGAAGTATTATCCGAGTACAGGAATGTTGAATGTCAATCTTGATCAAGCCAGTCCTGTGTTTGCGGAAGTCAGTGAAGAAATAATGAAGACTGTGGCTAATCTACCTGACAGTGGATCAAGTTTTCTTCCTCTTGAATGCCTCTATCTAAACAAGTCTGCTCTTGTGGCAATGGTAGGCCCCCAACCACCCCTCCCTAAGCATTTCACACTAAGAAGAAAACCTAAATCTGCTGCTCTGAGGGCTGAGTTGACACAAAAAGCCAGCGAAGCCTTGTCTGCACAGAAAAAGGGAAATGCTCTGAGCTCTGGACATAAACTTCAGTCAACGTCAAAAAAGTTTGAAGCTCCTGTGAGAGTGACCCAAAGAACATCAAACACTGCAAGCTATCGACCAACTCCAAACAGAAGCTCTTCTTCAAGTGGTTCCTCTAGAAGCATCATTTCTGCTGCAACACTCAAACATCATGGAAGAACAAAGCTTTTAGATATAACTGAACAACCAATTGGAGGTGGCAGAGAGCTCAAAAGGAGAAAGAAAATGGCAGAGACCGAGCATGGAGAGGATGCAAAACAGAAGAAACCAGAGAACACGAAGCCACTAGAACCTGCTACTCCTGAATATGCTGCAGGCCTGACACCTGTCACTCAGTCATCCAAGCCTCCATCAAGCCCAGAAACCCCTTCAATAAGTTTAATGCCTGCACCAGCCTCCACCCCATCTTATGTACCACAAGCTGTATCAAGTTCCTCACAAGGTTCTTCTTCAGATGTTCTCAGTGAGAGTACTATTAACCTCAAGAGAGAGTTGGAGATGCATGTTGAACAACAGAGGCAGATAATGATGAGAGAGAGACAGCAAAAGCAGGCAGCAGCTGCAGGACTGGCAGCCAGTTCAGTGGCCTCCACAGCATCATCATCTGTGGACCCTTTGAAGACCCCTGCCACTGTCCCCACAACAGCTCCACCTGGAAGCAGCCAACAACAGCAGGCTGCAACTAAACGACAGTTGACACTCACGCGAGAACAAATGTTAGCTGCACATGAAATGTTTAAAAACGCAAACCGTGTGAGTCGGGCAGAGAAAGCTCTCATTCTGGGATTCATGGCGGGTGCTCGAGAGAAACCCTATGCTCATCAAGGACCGATAATTACAATCAAATTGAGCGAAAACACAGAGAATGTCACAGCATCTGACGGCTCACAGCAGACCCAACTTGTAGAAATGCTTTTTGAAATGAACTACGACACAGGACACTGGCGACGCCTCAAACGCACAAGAGTTGTATCCAAACAGAGTGGATCAGGACCACTGCAAAACCCTTGATCTCCAAAATCCCAATTTTACTGTCGGCACAGTATCCACCGAATATGAATTTATACTGGAGCAACAGGGTCTTGCAGGAAATGAGCATGTTAGAGATGAACTAAAATTGTGTTATAATTTGTATCACTCTTTGTTTTTTCGGAGAAGTGAGAAAATAGGACTGTCTTGGTGTTGAATTTTCGATCCCTCGCCACCTTACATTCTTGAAATTAAAGCCAAATAGCTTGATATTTGCAGCTTTAGGGAGAATTAATTCCTAACGAAGTGCATGGTCATATTCCTGGTAACAGGAGGCATGGACAACACTGAATAAATACAGATTTCACCCTTGC

Protein

UniProt (Swiss-Prot top hit)

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

Pfam domain

No Pfam domain signature was detected for g35.t1. This gene does have a gene model — the search simply returned no hit.

InterPro

InterPro term	Type	Description	Source
IPR052828 all species →	Family	Negative elongation factor A domain-containing protein	Interproscan
IPR037517 all species →	Domain	Hepatitis delta antigen (HDAg) domain	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 g35.t1 across 39 RNA-seq samples of Acropora digitifera. 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.

39Samples

39TPM > 0

1Conditions

54.6Max TPM

41.3Mean TPM

By condition

Condition	Samples	TPM > 0	Mean TPM	Max TPM	Mean, relative to max
Coral branch	39	39	41.26	54.63

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

SRA run	Condition	Tissue	Developmental stage	Treatment	Study	TPM
SRR23047217	Coral branch	Coral branch	adult	not recorded	SRP416931	54.63
SRR23047214	Coral branch	Coral branch	adult	not recorded	SRP416931	49.42
SRR23047236	Coral branch	Coral branch	adult	not recorded	SRP416931	49.32
SRR23047206	Coral branch	Coral branch	adult	not recorded	SRP416931	49.22
SRR23047240	Coral branch	Coral branch	adult	not recorded	SRP416931	48.79
SRR23047207	Coral branch	Coral branch	adult	not recorded	SRP416931	48.29
SRR23047230	Coral branch	Coral branch	adult	not recorded	SRP416931	48.28
SRR23047227	Coral branch	Coral branch	adult	not recorded	SRP416931	47.55
SRR23047222	Coral branch	Coral branch	adult	not recorded	SRP416931	46.99
SRR23047224	Coral branch	Coral branch	adult	not recorded	SRP416931	46.70
SRR23047244	Coral branch	Coral branch	adult	not recorded	SRP416931	45.43
SRR23047234	Coral branch	Coral branch	adult	not recorded	SRP416931	44.39
SRR23047225	Coral branch	Coral branch	adult	not recorded	SRP416931	44.15
SRR23047213	Coral branch	Coral branch	adult	not recorded	SRP416931	43.74
SRR23047241	Coral branch	Coral branch	adult	not recorded	SRP416931	43.02
SRR23047226	Coral branch	Coral branch	adult	not recorded	SRP416931	42.48
SRR23047231	Coral branch	Coral branch	adult	not recorded	SRP416931	41.50
SRR23047233	Coral branch	Coral branch	adult	not recorded	SRP416931	41.26
SRR23047228	Coral branch	Coral branch	adult	not recorded	SRP416931	41.00
SRR23047242	Coral branch	Coral branch	adult	not recorded	SRP416931	40.71
SRR23047220	Coral branch	Coral branch	adult	not recorded	SRP416931	40.54
SRR23047238	Coral branch	Coral branch	adult	not recorded	SRP416931	40.40
SRR23047218	Coral branch	Coral branch	adult	not recorded	SRP416931	40.14
SRR23047216	Coral branch	Coral branch	adult	not recorded	SRP416931	39.93
SRR23047212	Coral branch	Coral branch	adult	not recorded	SRP416931	39.77
SRR23047243	Coral branch	Coral branch	adult	not recorded	SRP416931	39.74
SRR23047208	Coral branch	Coral branch	adult	not recorded	SRP416931	37.90
SRR23047235	Coral branch	Coral branch	adult	not recorded	SRP416931	37.85
SRR23047215	Coral branch	Coral branch	adult	not recorded	SRP416931	37.68
SRR23047229	Coral branch	Coral branch	adult	not recorded	SRP416931	36.71
SRR23047211	Coral branch	Coral branch	adult	not recorded	SRP416931	36.50
SRR23047239	Coral branch	Coral branch	adult	not recorded	SRP416931	36.18
SRR23047223	Coral branch	Coral branch	adult	not recorded	SRP416931	35.50
SRR23047232	Coral branch	Coral branch	adult	not recorded	SRP416931	34.15
SRR23047210	Coral branch	Coral branch	adult	not recorded	SRP416931	33.56
SRR23047219	Coral branch	Coral branch	adult	not recorded	SRP416931	33.25
SRR23047209	Coral branch	Coral branch	adult	not recorded	SRP416931	33.01
SRR23047237	Coral branch	Coral branch	adult	not recorded	SRP416931	30.28
SRR23047221	Coral branch	Coral branch	adult	not recorded	SRP416931	29.35

Source: CnidoSite RNA-seq expression matrices (ADIGI_TPM, StringTie quantification over 39 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.