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.t14 TTS g714.t14 5471464 5471464
chr_3 g714 g714.t14 isoform g714.t14 5471712 5473449
chr_3 g714 g714.t14 exon g714.t14.exon1 5471712 5472860
chr_3 g714 g714.t14 cds g714.t14.CDS1 5471712 5472860
chr_3 g714 g714.t14 exon g714.t14.exon2 5473044 5473206
chr_3 g714 g714.t14 cds g714.t14.CDS2 5473044 5473196
chr_3 g714 g714.t14 exon g714.t14.exon3 5473448 5473449
chr_3 g714 g714.t14 TSS g714.t14 5473488 5473488

Sequences

>g714.t14 Gene=g714 Length=1314
AGATAAATCAACATGTTGCTCTACACGTATCCAGAAAATTTCCGTGCTTATAAAGCTCTC
ATTGCGGCTCAATACTCGGGAGCTAAAGTTGATATTGCCCCAAATTTCGTTTTTGGTGAA
ACAAACCGTACTGAATCCTTCTTAAAGAAATTTCCTCTTGGAAAAGTGCCAGCATTAGAA
ACTGATGACGGTAAATATTTAGCTGAATCAAATGCAATTGCATACTACGTCTCAAATGCT
CAATTACGCGGTGCAAGTGATTTTGAGAAAGCGGAAGTTCTTCAATGGTTGAGTTTTGCC
GATAATGAAATTGGACCAGCTGCAGCAGCATGGGTCTATCCAGCTTTGGGCTACATCCAA
TTCAACAAGCTATCACATGAACGTGCAAAGCAAGATATTGCTCGTTCACTCGAAAGATTG
CAAGCTCGTCTCGTAAATAATACTTATCTTGTCGGCGAACGCATCACACTTGCCGATATT
GTTGTTTTCACTAGCCTCCTTTCATTATTCCAACACGTTGCTGATCCAGCATATCGCAAG
CCATTCTTTGCTGTCAATCGTTGGTTCAATACAATTCTCAATCAGCCACAAACAAAAGCA
GTTGTTAAGAATTTCACTTTCTGTGAAAAAGAAACACCATTCGATCCTAAGAAATATGCC
GAATTCCAAGCCAAATTTGGCGGTGGTGCTCAACAAAAGGAAAAGAAGGAAAAAGAAAAG
AAAGAGAAACAACCACAACAACCAGCAGCTGAGAAGAAAAAGAAGGAGAAAGAAGCAGAA
CCTGCTGAAGAGATGGATGAAGCAGAATTGGCACTTGCTGCTGAACCAAAATCAAAAGAT
CCATTTGATTCTCTCCCAAAAGGCACATTCAATATGGACGACTTCAAGCGTGTATACAGT
AATGAAGATGAAGCAAAATCAATTCCATATTTCTTCGAGAAATTCGATCCAGAAAATTAC
TCAATTTGGTATGGTGAATATAAATATCCAGAAGAATTGACTAAGGTATTTATGAGCTGC
AATTTAATCACCGGTATGTTCCAACGTCTTGATAAAATGAGAAAACAAGCATTTGCCTCA
TGCTGCCTCTTCGGTGAAGACAATAATAGCACAATTTCTGGTGTCTGGGTATGGCGTGGA
CAAGAGCTTGCATTTGGACTTTCACCAGATTGGCAAATCGATTACGAGAGCTATGATTGG
AAGAAATTAGATCCATCCAGTGAAGAAACTAAGAAATTGGTAACACAATATTTCTCATGG
ACTGGAACTGACAAAGGAGGCCGCAAATTCAATCAAGGCAAAATTTTCAAATAA

>g714.t14 Gene=g714 Length=433
MLLYTYPENFRAYKALIAAQYSGAKVDIAPNFVFGETNRTESFLKKFPLGKVPALETDDG
KYLAESNAIAYYVSNAQLRGASDFEKAEVLQWLSFADNEIGPAAAAWVYPALGYIQFNKL
SHERAKQDIARSLERLQARLVNNTYLVGERITLADIVVFTSLLSLFQHVADPAYRKPFFA
VNRWFNTILNQPQTKAVVKNFTFCEKETPFDPKKYAEFQAKFGGGAQQKEKKEKEKKEKQ
PQQPAAEKKKKEKEAEPAEEMDEAELALAAEPKSKDPFDSLPKGTFNMDDFKRVYSNEDE
AKSIPYFFEKFDPENYSIWYGEYKYPEELTKVFMSCNLITGMFQRLDKMRKQAFASCCLF
GEDNNSTISGVWVWRGQELAFGLSPDWQIDYESYDWKKLDPSSEETKKLVTQYFSWTGTD
KGGRKFNQGKIFK

Protein features from InterProScan

Transcript Database ID Name Start End E.value
13 g714.t14 CDD cd03044 GST_N_EF1Bgamma 3 75 1.53806E-30
12 g714.t14 CDD cd03181 GST_C_EF1Bgamma_like 85 207 3.79554E-61
11 g714.t14 Gene3D G3DSA:3.40.30.10 Glutaredoxin 1 73 6.9E-25
9 g714.t14 Gene3D G3DSA:1.20.1050.10 - 75 212 1.1E-47
10 g714.t14 Gene3D G3DSA:3.30.70.1010 - 274 433 1.1E-75
15 g714.t14 MobiDBLite mobidb-lite consensus disorder prediction 224 263 -
16 g714.t14 MobiDBLite mobidb-lite consensus disorder prediction 226 257 -
4 g714.t14 PANTHER PTHR43986:SF1 ELONGATION FACTOR 1-GAMMA 2 433 1.8E-173
5 g714.t14 PANTHER PTHR43986 ELONGATION FACTOR 1-GAMMA 2 433 1.8E-173
3 g714.t14 Pfam PF02798 Glutathione S-transferase, N-terminal domain 3 74 2.1E-17
2 g714.t14 Pfam PF00043 Glutathione S-transferase, C-terminal domain 108 192 2.0E-13
1 g714.t14 Pfam PF00647 Elongation factor 1 gamma, conserved domain 273 378 3.3E-48
18 g714.t14 ProSiteProfiles PS50404 Soluble glutathione S-transferase N-terminal domain profile. 1 81 18.084
17 g714.t14 ProSiteProfiles PS50405 Soluble glutathione S-transferase C-terminal domain profile. 82 210 23.448
19 g714.t14 ProSiteProfiles PS50040 Elongation factor 1 (EF-1) gamma C-terminal domain profile. 274 433 84.258
20 g714.t14 SFLD SFLDG00358 Main (cytGST) 3 188 7.7E-29
21 g714.t14 SFLD SFLDS00019 Glutathione Transferase (cytosolic) 3 188 7.7E-29
14 g714.t14 SMART SM01183 EF1G_2 273 378 1.3E-76
7 g714.t14 SUPERFAMILY SSF52833 Thioredoxin-like 1 75 1.74E-15
8 g714.t14 SUPERFAMILY SSF47616 GST C-terminal domain-like 75 205 5.01E-31
6 g714.t14 SUPERFAMILY SSF89942 eEF1-gamma domain 274 433 9.29E-70

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:0006749 glutathione metabolic process BP
GO:0005515 protein binding MF
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.

Raw TPM values