General information for g8929.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Translation initiation factor eIF-2B subunit delta.
Parent gene
- The parent gene g8929 is located on chr_2: 33894769..33895840 (- 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_2 | g8929 | g8929.t6 | TTS | g8929.t6 | 33893205 | 33893205 |
| chr_2 | g8929 | g8929.t6 | isoform | g8929.t6 | 33893292 | 33895489 |
| chr_2 | g8929 | g8929.t6 | exon | g8929.t6.exon1 | 33893292 | 33893987 |
| chr_2 | g8929 | g8929.t6 | cds | g8929.t6.CDS1 | 33893292 | 33893987 |
| chr_2 | g8929 | g8929.t6 | exon | g8929.t6.exon2 | 33894050 | 33894229 |
| chr_2 | g8929 | g8929.t6 | cds | g8929.t6.CDS2 | 33894050 | 33894229 |
| chr_2 | g8929 | g8929.t6 | exon | g8929.t6.exon3 | 33894289 | 33895244 |
| chr_2 | g8929 | g8929.t6 | cds | g8929.t6.CDS3 | 33894289 | 33895143 |
| chr_2 | g8929 | g8929.t6 | exon | g8929.t6.exon4 | 33895416 | 33895489 |
| chr_2 | g8929 | g8929.t6 | TSS | g8929.t6 | 33895486 | 33895486 |
Sequences
>g8929.t6 Gene=g8929 Length=1906
TTTGTTGTCATCATTGAAAGAGTGAAGAACGAATGATTTTTTGAAAAATACTGAAATAAC
TAAAGATATTGCTTTAATTTTAACATGTATTCTTTATTTATAGGCAGCAAAACGAAGACG
TCAACGAGCAAAACGAAAAGATAAAATAAGAGATTCAAAACCAATATTTGGAGAAATGGA
GTCCCAACAAGAAAAATCAAAAGAACAAATTTTGGCAGAAAGAAAAGCCAAAAAAGCTGC
CAAAAAGCAAGGAAATAAAAAAGAAGAAACTCCAATTGTTCCTCCTCTTGCTGCTGCTGT
TTCTGCTCATTCATTGTTGCCAACCAAAACAGAAAATCAATCAACTTCTGTTAATGTTGA
CAAAGAGATAAAAGATGTGCAATCAGAAAAGCCTAAAGAAGCTGAAAAAAAATCTAGAGA
AGAAGTTCTGGCCGAACGTGAGACGAAAAAATTAGCGAAACAAGCTGGAAAGAAAAAGAA
TGTTGAAGTTGCAAAAGACGACGAGAATAAACAGCAATCAAAGCCAAAAGAAGTTGAAAA
GACAAATTCAGATACAGATCTTGCACAAAAAATGGAAAAACTTCATATAACAAATAAAGA
AAATGAAAAAGAAAATAAGCCGCAAACACCTGATGATAAAAATCCCGAAAAAGGTAAACC
AATGACTAAAGCAGAACGGCGAGCTCTTCAAGAAGCACAACGTGCAGCAAAAGCCAAACT
AATGGCAGAAAAAAATAAACCTACAACATCCAGTACTGGTAGTAGTACTGAAAAGAAAAT
AATGATAGATAAAAAAGAAACAAAGACTAAGGAAACAAGTCATAAAACTGCATCAATAAT
TTCACAAAAATCATCTTCATTACATAAAGTGAGACTATTTAAACATCTCTACACCGAAAA
ATGCAATTTTAATATAAAAGTCAATAGTAGTTTTCATCCTGCAATTTTAAAATTAGGAGC
TCAATATGCGAACAATGCTGTTGTAGGATGCAATTCTCGTTGCTATGCTTTCTTACGTGC
TATGCAAATTTTAATTAAAGACTTTACAACACCTTCAGAAAAAGTTTTTTATCGAGCTCT
TGAAAGTGAAATTCAAAAGTCTGTTGAATTTCTTCACAAGTGCCGACCACTCGCTGTATC
AGTTTCGAATGCCTTGAAATATATTAAACTTATTATATCGCAAGAAAATTCATCAGACAG
TGATGATGAGAAAAAAGGGAGAATTATTGACAAAATAGAAACATATGCACATGAACAGAT
TGAAACAGCTGCTCGATCGATTAGTTTAAAAGTTAGGGAAAAGATTTCAGATGATGATGT
TATTCTTACTTTTGGTTATTCATCTTTAATTAAGAGGACACTAGTTGAAAGTTGGAAATC
TGGAGAGAAAAAATTCAGTATAATTGTTGTTGATTCTCGACCCGATTTTGAAGGTCGTGA
GATGCTTGATTCACTTGCCAAGGAAGGAATTTGCTGTACTTATGTGTTTATAAATGCAAC
TAGTTTTGTAATGCCAAAAGTTACAAAAGTTCTACTTGGTGCACATGCTCTTTTGGCAAA
CGGCTACGTAATGTCTCGTGTAGGAACTGCCCAAATTTCAATGATAGCTAGCTTCTATAA
TGTTCCTGTATTGGTTTGCTGTGAAACTCATAAATTCAGTGAACGTGTTCAAACTGATTC
ATTTGTGTATAATGAAATTGGTGATCCAAATGCATTAGTTGTCAACAAAAATTCAATGAA
ACCATACGAACATCTCAAAGATTGGGAATCTATACCACATTTGACGCCTCTTAATCTCAG
ATATGATATAACACCTCCAGAACTCGTAACTGCCGTGGTAACTGAAATCGCTCTTCTTCC
ATGTACTAGTGTCCAAGTTATATTACGTGTAAAACCATCAGAATAA
>g8929.t6 Gene=g8929 Length=576
MESQQEKSKEQILAERKAKKAAKKQGNKKEETPIVPPLAAAVSAHSLLPTKTENQSTSVN
VDKEIKDVQSEKPKEAEKKSREEVLAERETKKLAKQAGKKKNVEVAKDDENKQQSKPKEV
EKTNSDTDLAQKMEKLHITNKENEKENKPQTPDDKNPEKGKPMTKAERRALQEAQRAAKA
KLMAEKNKPTTSSTGSSTEKKIMIDKKETKTKETSHKTASIISQKSSSLHKVRLFKHLYT
EKCNFNIKVNSSFHPAILKLGAQYANNAVVGCNSRCYAFLRAMQILIKDFTTPSEKVFYR
ALESEIQKSVEFLHKCRPLAVSVSNALKYIKLIISQENSSDSDDEKKGRIIDKIETYAHE
QIETAARSISLKVREKISDDDVILTFGYSSLIKRTLVESWKSGEKKFSIIVVDSRPDFEG
REMLDSLAKEGICCTYVFINATSFVMPKVTKVLLGAHALLANGYVMSRVGTAQISMIASF
YNVPVLVCCETHKFSERVQTDSFVYNEIGDPNALVVNKNSMKPYEHLKDWESIPHLTPLN
LRYDITPPELVTAVVTEIALLPCTSVQVILRVKPSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 10 | g8929.t6 | Coils | Coil | Coil | 168 | 188 | - |
| 9 | g8929.t6 | Gene3D | G3DSA:3.40.50.10470 | - | 373 | 571 | 9.5E-67 |
| 5 | g8929.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 30 | - |
| 7 | g8929.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 200 | - |
| 6 | g8929.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 47 | 63 | - |
| 8 | g8929.t6 | MobiDBLite | mobidb-lite | consensus disorder prediction | 64 | 183 | - |
| 2 | g8929.t6 | PANTHER | PTHR10233:SF14 | TRANSLATION INITIATION FACTOR EIF-2B SUBUNIT DELTA | 141 | 574 | 2.3E-135 |
| 3 | g8929.t6 | PANTHER | PTHR10233 | TRANSLATION INITIATION FACTOR EIF-2B | 141 | 574 | 2.3E-135 |
| 1 | g8929.t6 | Pfam | PF01008 | Initiation factor 2 subunit family | 269 | 562 | 2.2E-73 |
| 4 | g8929.t6 | SUPERFAMILY | SSF100950 | NagB/RpiA/CoA transferase-like | 250 | 571 | 1.17E-80 |
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:0044237 | cellular metabolic process | BP |
KEGG
Orthology
- This transcript has been annotated with K03680 (translation initiation factor eIF-2B subunit delta)
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.
