General information for g11477.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Translation initiation factor eIF-2B subunit gamma.
Parent gene
- The parent gene g11477 is located on chr_1: 16443635..16445042 (+ strand)
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_1 | g11477 | g11477.t1 | isoform | g11477.t1 | 16443635 | 16445042 |
| chr_1 | g11477 | g11477.t1 | exon | g11477.t1.exon1 | 16443635 | 16443782 |
| chr_1 | g11477 | g11477.t1 | cds | g11477.t1.CDS1 | 16443635 | 16443782 |
| chr_1 | g11477 | g11477.t1 | exon | g11477.t1.exon2 | 16443844 | 16445042 |
| chr_1 | g11477 | g11477.t1 | cds | g11477.t1.CDS2 | 16443844 | 16445042 |
| chr_1 | g11477 | g11477.t1 | TTS | g11477.t1 | 16445142 | 16445142 |
| chr_1 | g11477 | g11477.t1 | TSS | g11477.t1 | NA | NA |
Sequences
>g11477.t1 Gene=g11477 Length=1347
ATGGAATTTCAAGCAGTAATTTTTGCAGCTGGTATCGGAACAAGATTTCGGGATATTGTT
GCATCACGTCCAAAATGTTTATTACCTGTTGGATCTTTTCCTTTGATATTTTATCCATTG
AATTTTTGTTCAAAATATGGGTTTGAAGAGGTCATAATAATTGTATTAGAATCTCAGAAA
ACAGAAATAGCGCAGAGAGTTTCAAAACTACCTCTTAAAATGAAATATGATTTTGTGTGT
CTCAATCAGGAAGAAGATTATGGTACTGCGGATGCACTTCGATTAGTGGCAGACAGAATT
AAAACAGATGTATTGTTGATTTCTTGTGACACAATTACAGACGTTGATTTTTATCCGTTG
CTTAATCTATTTCGTACAAATGATGCATCATGTGTTGCTCTTTTTGATAGCGGATCAGAA
GAAAACAGCAATAATATTGTTGTACCAGGTGTTAAAGCAAAGCATAAGGCAGAACGTGAT
TTAGTTGGAATAGATAGTAAAAACAATCGACTTCTGTTTTTAGCTTCAACAACAGACTTT
CAAGATAACTTCTCGCTGCCAGCTCATCTTTTGAGATCTTTTGGAGAGGTTGATATATAT
AGCAATTTAACGGATGCTCATATGTACTTGATAAAGCATTGGGTTATAAATTATATATCA
AAAAGTGAAAAATTTTCTACGATTAAAGGAGAATTACTTCCATTTATTATAAAAAAGCAA
TTATCAAAACCACCTGCGGCAGTAACAAATAGAGGTCTCAATATATCTGAAGTAAATTTC
GATACAAATGATATTTTTGATCACATTGAGCGTGCTGAATTAGAAAAAAGAATACAAGAA
ACTAATTTAAGCCCCAAAAGTTATTCTAAAAAATCAAAGAATTCCGAAATGATTAAATGC
TTTGCATATGTAGCTCCTCAAAATTCATTTTGCATGAGAATCAACACAATTCTCAATTAT
TGTATAATTAACAAGAAAATTGCATCACTTCTCACAGATTTCAATCTTCCATTGATATCC
AAAAATGCTACAATAAAATCTACACAAATAACAGATTGCTGTGTTGCAGAAAATTGCACA
ATAGCAGAAAAAACTTCTATTAAAAATACAATTTTTGGCATTGGATGTCATATTGAGCAA
AGAACAAGAATAAACGATAGCATATTGATGAGTAATGTAAATGTTGAAGAAGGAGTAAAG
CTAGAAAATTGTATAATATGTGACAAAGCAACAATCAAGATGGGATCCACTCTTAAAAAC
TGCTTGGTCGGTCATAACTTTATTGTAACAGAAAACACTATTAAAGAAAGAGTTCATTTG
ACAGGCGAAGGATTCATGGAAATTTAA
>g11477.t1 Gene=g11477 Length=448
MEFQAVIFAAGIGTRFRDIVASRPKCLLPVGSFPLIFYPLNFCSKYGFEEVIIIVLESQK
TEIAQRVSKLPLKMKYDFVCLNQEEDYGTADALRLVADRIKTDVLLISCDTITDVDFYPL
LNLFRTNDASCVALFDSGSEENSNNIVVPGVKAKHKAERDLVGIDSKNNRLLFLASTTDF
QDNFSLPAHLLRSFGEVDIYSNLTDAHMYLIKHWVINYISKSEKFSTIKGELLPFIIKKQ
LSKPPAAVTNRGLNISEVNFDTNDIFDHIERAELEKRIQETNLSPKSYSKKSKNSEMIKC
FAYVAPQNSFCMRINTILNYCIINKKIASLLTDFNLPLISKNATIKSTQITDCCVAENCT
IAEKTSIKNTIFGIGCHIEQRTRINDSILMSNVNVEEGVKLENCIICDKATIKMGSTLKN
CLVGHNFIVTENTIKERVHLTGEGFMEI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11477.t1 | CDD | cd04198 | eIF-2B_gamma_N | 3 | 216 | 0 |
| 8 | g11477.t1 | CDD | cd04652 | LbH_eIF2B_gamma_C | 355 | 434 | 0 |
| 5 | g11477.t1 | Gene3D | G3DSA:3.90.550.10 | Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A | 1 | 255 | 0 |
| 6 | g11477.t1 | Gene3D | G3DSA:2.160.10.10 | Hexapeptide repeat proteins | 332 | 446 | 0 |
| 2 | g11477.t1 | PANTHER | PTHR45989:SF1 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT GAMMA | 1 | 435 | 0 |
| 3 | g11477.t1 | PANTHER | PTHR45989 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT GAMMA | 1 | 435 | 0 |
| 1 | g11477.t1 | Pfam | PF00483 | Nucleotidyl transferase | 5 | 136 | 0 |
| 4 | g11477.t1 | SUPERFAMILY | SSF53448 | Nucleotide-diphospho-sugar transferases | 3 | 409 | 0 |
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:0009058 | biosynthetic process | BP |
| GO:0016779 | nucleotidyltransferase activity | MF |
KEGG
Orthology
- This transcript has been annotated with K03241 (translation initiation factor eIF-2B subunit gamma)
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.
