General information for g6822.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Eukaryotic translation initiation factor 3 subunit E.
Parent gene
- The parent gene g6822 is located on chr_2: 18952658..18953608 (+ 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 | g6822 | g6822.t1 | TSS | g6822.t1 | 18952047 | 18952047 |
| chr_2 | g6822 | g6822.t1 | isoform | g6822.t1 | 18952097 | 18953608 |
| chr_2 | g6822 | g6822.t1 | exon | g6822.t1.exon1 | 18952097 | 18952186 |
| chr_2 | g6822 | g6822.t1 | cds | g6822.t1.CDS1 | 18952097 | 18952186 |
| chr_2 | g6822 | g6822.t1 | exon | g6822.t1.exon2 | 18952267 | 18952536 |
| chr_2 | g6822 | g6822.t1 | cds | g6822.t1.CDS2 | 18952267 | 18952536 |
| chr_2 | g6822 | g6822.t1 | exon | g6822.t1.exon3 | 18952595 | 18953277 |
| chr_2 | g6822 | g6822.t1 | cds | g6822.t1.CDS3 | 18952595 | 18953277 |
| chr_2 | g6822 | g6822.t1 | exon | g6822.t1.exon4 | 18953341 | 18953608 |
| chr_2 | g6822 | g6822.t1 | cds | g6822.t1.CDS4 | 18953341 | 18953608 |
| chr_2 | g6822 | g6822.t1 | TTS | g6822.t1 | 18953755 | 18953755 |
Sequences
>g6822.t1 Gene=g6822 Length=1311
ATGGCAAAATTCGATTTAACAACACGAAATCTTCAGTTTTTGGATCGTCATTTGACTTTT
CCATTATTAGAGTTTCTACTGAGTAAGGATATTTATGACAAAAATGTTCTCCTCAACTTT
ATACTGGAAACAGTCAATAAGACTAACATGATTGATTACACGACCGATATTCGTCAACGT
CTTAATCTTCCAGAAAAGATGCCCGAAGAGTTGCAACTGAAAAGGCAGACGGTTTTAGCA
AAGCTAAAGGAACTTCAATTGGAAGTTGAACCTTTAATGAAATGTATGGAAGAAATCAAG
ACAAGAGACACAATGAAGGATTCAAAAACTTTAATTAGTGTACTACAAACCGAATATAAT
ATCAAAATTGACATTATACAGAGTGTTTACAAGTTGGCAAAATACCTCTATGAGTGTGGT
AACTATACTGAAACAACATCTTATTTATACATTTGCTTGATGATAATGCAGCCGCATGAT
AAAAATTACTTGAATGTTCTTTGGGGAAAGCTTGCTTCTGAAATTCTAACATTGAATTGG
CAAACTGCTCTTGAAGATTTGAATCGCTTGCGAGAATTTATTGACAATAGCAACTTTACA
AACATTCAAGTTTTACAACAAAGAACATGGCTTATTCACTGGAGTGTTCTCGTCTTCTTT
AATCATCCTAAAGGACGCGATCTTATTATCGAGATGTTCTTATACAAACCACTGTATTTG
AATGCAATTCAAACTATGTGCCCGCACATACTCCGTTATCTTTCGGTCGCTGTCATTATT
AATCGTGGCAGACGCAATGCTTTAAAAGATTTGATTAAAGTTATTCAACAAGAATCTTAC
ACATATAAAGATCCAATTACAGAATTTCTTGAGCATTTATACGTCAATTTTGATTTTGAA
GGTGCTCGTATGAAATTACATGAGTGTCAAACAGTCATTTTAAATGATTTCTTCATTATT
GGCTGCTTGGATGAATTCGTAGAAAATGCCCGTTTAATGATTTTCGAAACATTCTGTCGC
ATTCATCAATGTATTACAAGCCAATTGCTGGCTGACAAGTTAAATATGGAACCAGAGGAA
GCAGAATGTTGGATTGTTAATCTCATTCGTAATGCACGACTTGATGCAAAAATTGATTCA
AAATTAGGATATGTTGTTATGGGAGGACAGCCTCTCAGTCCATATCAGCAATTTGTTGAG
AAAATTGATTCACTTTCTGTTCGATCAGAGGCACTCACTGAATTAGTAGAACGTAAAAAT
CGTGTTAAAAACCAAGAAGGAGAAAGCAACTGGAAATATTACACAAATTAA
>g6822.t1 Gene=g6822 Length=436
MAKFDLTTRNLQFLDRHLTFPLLEFLLSKDIYDKNVLLNFILETVNKTNMIDYTTDIRQR
LNLPEKMPEELQLKRQTVLAKLKELQLEVEPLMKCMEEIKTRDTMKDSKTLISVLQTEYN
IKIDIIQSVYKLAKYLYECGNYTETTSYLYICLMIMQPHDKNYLNVLWGKLASEILTLNW
QTALEDLNRLREFIDNSNFTNIQVLQQRTWLIHWSVLVFFNHPKGRDLIIEMFLYKPLYL
NAIQTMCPHILRYLSVAVIINRGRRNALKDLIKVIQQESYTYKDPITEFLEHLYVNFDFE
GARMKLHECQTVILNDFFIIGCLDEFVENARLMIFETFCRIHQCITSQLLADKLNMEPEE
AECWIVNLIRNARLDAKIDSKLGYVVMGGQPLSPYQQFVEKIDSLSVRSEALTELVERKN
RVKNQEGESNWKYYTN
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g6822.t1 | Hamap | MF_03004 | Eukaryotic translation initiation factor 3 subunit E [EIF3E]. | 2 | 418 | 45.22405 |
| 3 | g6822.t1 | PANTHER | PTHR10317 | EUKARYOTIC TRANSLATION INITIATION FACTOR 3 SUBUNIT E | 1 | 425 | 0.00000 |
| 10 | g6822.t1 | PIRSF | PIRSF016255 | Transl_init_eIF3e | 1 | 434 | 0.00000 |
| 1 | g6822.t1 | Pfam | PF09440 | eIF3 subunit 6 N terminal domain | 5 | 135 | 0.00000 |
| 2 | g6822.t1 | Pfam | PF01399 | PCI domain | 285 | 388 | 0.00000 |
| 9 | g6822.t1 | ProSiteProfiles | PS50250 | PCI domain profile. | 219 | 392 | 22.37000 |
| 8 | g6822.t1 | SMART | SM01186 | eIF3_N_2 | 5 | 136 | 0.00000 |
| 6 | g6822.t1 | SMART | SM00088 | PINT_4 | 321 | 405 | 0.00000 |
| 7 | g6822.t1 | SMART | SM00753 | motif in proteasome subunits, Int-6, Nip-1 and TRIP-15 | 321 | 405 | 0.00000 |
| 5 | g6822.t1 | SUPERFAMILY | SSF46785 | Winged helix DNA-binding domain | 315 | 389 | 0.00000 |
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:0003743 | translation initiation factor activity | MF |
| GO:0005852 | eukaryotic translation initiation factor 3 complex | CC |
| GO:0005737 | cytoplasm | CC |
KEGG
Orthology
- This transcript has been annotated with K03250 (translation initiation factor 3 subunit E)
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.
