Gene loci information

Transcript annotation

  • This transcript has been annotated as Elongation factor 1-gamma.

Parent gene

Gene structure

  • The exon-intron structure of all isoforms are indicated below. CDS regions are colored in green. TSS and TTs that were predicted with CTR-Seq data are indicated in solid circle and squares, respectively. More specific data are shown in the table below.

Chromosome Gene Transcript Category ID Start End
chr_3 g714 g714.t9 TTS g714.t9 5471464 5471464
chr_3 g714 g714.t9 isoform g714.t9 5471712 5473196
chr_3 g714 g714.t9 exon g714.t9.exon1 5471712 5472853
chr_3 g714 g714.t9 cds g714.t9.CDS1 5471712 5472233
chr_3 g714 g714.t9 exon g714.t9.exon2 5473044 5473196
chr_3 g714 g714.t9 TSS g714.t9 5473488 5473488

Sequences

>g714.t9 Gene=g714 Length=1295
ATGTTGCTCTACACGTATCCAGAAAATTTCCGTGCTTATAAAGCTCTCATTGCGGCTCAA
TACTCGGGAGCTAAAGTTGATATTGCCCCAAATTTCGTTTTTGGTGAAACAAACCGTACT
GAATCCTTCTTAAAGAAATTTCCTCTTGGAAAACATTAGAAACTGATGACGGTAAATATT
TAGCTGAATCAAATGCAATTGCATACTACGTCTCAAATGCTCAATTACGCGGTGCAAGTG
ATTTTGAGAAAGCGGAAGTTCTTCAATGGTTGAGTTTTGCCGATAATGAAATTGGACCAG
CTGCAGCAGCATGGGTCTATCCAGCTTTGGGCTACATCCAATTCAACAAGCTATCACATG
AACGTGCAAAGCAAGATATTGCTCGTTCACTCGAAAGATTGCAAGCTCGTCTCGTAAATA
ATACTTATCTTGTCGGCGAACGCATCACACTTGCCGATATTGTTGTTTTCACTAGCCTCC
TTTCATTATTCCAACACGTTGCTGATCCAGCATATCGCAAGCCATTCTTTGCTGTCAATC
GTTGGTTCAATACAATTCTCAATCAGCCACAAACAAAAGCAGTTGTTAAGAATTTCACTT
TCTGTGAAAAAGAAACACCATTCGATCCTAAGAAATATGCCGAATTCCAAGCCAAATTTG
GCGGTGGTGCTCAACAAAAGGAAAAGAAGGAAAAAGAAAAGAAAGAGAAACAACCACAAC
AACCAGCAGCTGAGAAGAAAAAGAAGGAGAAAGAAGCAGAACCTGCTGAAGAGATGGATG
AAGCAGAATTGGCACTTGCTGCTGAACCAAAATCAAAAGATCCATTTGATTCTCTCCCAA
AAGGCACATTCAATATGGACGACTTCAAGCGTGTATACAGTAATGAAGATGAAGCAAAAT
CAATTCCATATTTCTTCGAGAAATTCGATCCAGAAAATTACTCAATTTGGTATGGTGAAT
ATAAATATCCAGAAGAATTGACTAAGGTATTTATGAGCTGCAATTTAATCACCGGTATGT
TCCAACGTCTTGATAAAATGAGAAAACAAGCATTTGCCTCATGCTGCCTCTTCGGTGAAG
ACAATAATAGCACAATTTCTGGTGTCTGGGTATGGCGTGGACAAGAGCTTGCATTTGGAC
TTTCACCAGATTGGCAAATCGATTACGAGAGCTATGATTGGAAGAAATTAGATCCATCCA
GTGAAGAAACTAAGAAATTGGTAACACAATATTTCTCATGGACTGGAACTGACAAAGGAG
GCCGCAAATTCAATCAAGGCAAAATTTTCAAATAA

>g714.t9 Gene=g714 Length=173
MDEAELALAAEPKSKDPFDSLPKGTFNMDDFKRVYSNEDEAKSIPYFFEKFDPENYSIWY
GEYKYPEELTKVFMSCNLITGMFQRLDKMRKQAFASCCLFGEDNNSTISGVWVWRGQELA
FGLSPDWQIDYESYDWKKLDPSSEETKKLVTQYFSWTGTDKGGRKFNQGKIFK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
8 g714.t9 Gene3D G3DSA:3.30.70.1010 - 14 173 7.8E-77
6 g714.t9 MobiDBLite mobidb-lite consensus disorder prediction 1 18 -
7 g714.t9 MobiDBLite mobidb-lite consensus disorder prediction 1 22 -
2 g714.t9 PANTHER PTHR43986:SF1 ELONGATION FACTOR 1-GAMMA 2 173 3.0E-81
3 g714.t9 PANTHER PTHR43986 ELONGATION FACTOR 1-GAMMA 2 173 3.0E-81
1 g714.t9 Pfam PF00647 Elongation factor 1 gamma, conserved domain 13 118 4.2E-49
9 g714.t9 ProSiteProfiles PS50040 Elongation factor 1 (EF-1) gamma C-terminal domain profile. 14 173 84.258
5 g714.t9 SMART SM01183 EF1G_2 13 118 1.3E-76
4 g714.t9 SUPERFAMILY SSF89942 eEF1-gamma domain 14 173 6.8E-71

Transmembrane regions from TMHMM

Disordered region

IUPRED3 score over 0.5 is predictive of a disordered region.

GO terms from InterProScan

GOID TERM ONTOLOGY
GO:0003746 translation elongation factor activity MF
GO:0006414 translational elongation BP

KEGG

Orthology

Pathway

  • This transcript belongs to the following pathways

Expression

Transcript expression in Pv11 cells

TPM values are indicated as average +/- STDEV.

Differential expression

Differentially expressed genes were identified with DESeq2 using the ‘run_DE_analysis.pl’ script from Trinity. Transcripts were determined as differentially expressed when (1) FDR < 0.05 (2) fold change > 2 (TPM calculated by RSEM). DE information and fold change between conditions are indicated in the plot below. There were no conditions that were differentially expressed