General information for g6457.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Eukaryotic peptide chain release factor subunit 1.
Parent gene
- The parent gene g6457 is located on chr_2: 17135554..17138935 (- 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 | g6457 | g6457.t4 | TTS | g6457.t4 | 17133311 | 17133311 |
| chr_2 | g6457 | g6457.t4 | isoform | g6457.t4 | 17133994 | 17135554 |
| chr_2 | g6457 | g6457.t4 | exon | g6457.t4.exon1 | 17133994 | 17134673 |
| chr_2 | g6457 | g6457.t4 | exon | g6457.t4.exon2 | 17134851 | 17135034 |
| chr_2 | g6457 | g6457.t4 | cds | g6457.t4.CDS1 | 17134952 | 17135034 |
| chr_2 | g6457 | g6457.t4 | exon | g6457.t4.exon3 | 17135108 | 17135255 |
| chr_2 | g6457 | g6457.t4 | cds | g6457.t4.CDS2 | 17135108 | 17135243 |
| chr_2 | g6457 | g6457.t4 | exon | g6457.t4.exon4 | 17135413 | 17135554 |
| chr_2 | g6457 | g6457.t4 | TSS | g6457.t4 | NA | NA |
Sequences
>g6457.t4 Gene=g6457 Length=1154
CGGATCTGTTGAAATTTTAATCTGCTGGGAAAACTTGGACATTCAACGCTATGTACTAAA
AAATACAACAACAAACACAACGACTGTTTTACATTTAACTCCAGAACAAGAAAAAGACAA
AACACATTTTACGGACAAAGAAAGTGGAGTTGAAATGGAATTAGTCGAATCACAGCAATT
ACTAGAATGGCTTGCAAATAATTACAAAAGTTTTGGAGCCACATTAGAAATCATCACAGA
CAAGTCTCAAGAAGGAAGTCAGTTTGTGAGAGGATTTGGTGGAATTGGCGGTATTTTGCG
CTATAAAGTTGATTTTCAATCTATGGCAGCGGAAGAAGAGCCGCTTGATGATGTCGATCT
TGACGAATACTAATTTTTTTGACTCTCATATAACTTTTTTTTGAGGCTTTAAACTGCTGT
CAAATAATTTTAGACTAATTTTGATTTAAAAACAATTGGGCATATATCGGAATTGAATTT
TGCGTTATAAAGTTGATTTCCAATCGATTCAGTTAGATGATGGATATTATGATGATGATG
ACATAGAATATGATTTAGATGAATACTAAGTCATTTAAAATGAATTGATCTCTCTTATTT
ATTATGAAACATTTGATCTCATTTCATCTTTTGCATTTTTAAAGATATACAAAACATTCC
TATCAATATTCTTTGTCTGATTTAGTTGTAATTGTATTTAAGCACTTTGATGAACAAAAA
AATTTCTATGTAGCATACATAGGGTAATGGATCTAATTTTCGGACAGATCTATTACATTT
TCCATAATTTCAATTATTTCTTTTTATCCTCACTTATTCTCATACAAAATGTCTTAATTA
GATAAAATGATGTTTATATTATTTATTCATAACATCTATAATAAACTAAATAAGACAAAA
ATAGAGAAAAATCAAACCTTCCGATTGTTTTGATGAATTGAAAATTTTTGAACAATTTTT
TTCCACAAAAATATCAATCTTTGTCAAATTAAAAATTTATATTTTTCTTCATTAAAATCT
ATCACAATTACCAATTAGGATATATGAAACTAAAGCTTTTATTTCACTTTGAAACTGGAA
ACACAGAATGAAAGCTAGCAGTTCTAATAAAGAAGACAACCGAAAATAATATTCTATTTG
CGGACACTTCAAAA
>g6457.t4 Gene=g6457 Length=72
MELVESQQLLEWLANNYKSFGATLEIITDKSQEGSQFVRGFGGIGGILRYKVDFQSMAAE
EEPLDDVDLDEY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6457.t4 | Gene3D | G3DSA:3.30.1330.30 | - | 1 | 72 | 0 |
| 2 | g6457.t4 | PANTHER | PTHR10113:SF21 | EUKARYOTIC PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1 | 2 | 72 | 0 |
| 3 | g6457.t4 | PANTHER | PTHR10113 | PEPTIDE CHAIN RELEASE FACTOR SUBUNIT 1 | 2 | 72 | 0 |
| 1 | g6457.t4 | Pfam | PF03465 | eRF1 domain 3 | 2 | 52 | 0 |
| 4 | g6457.t4 | SUPERFAMILY | SSF55315 | L30e-like | 1 | 55 | 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:0006415 | translational termination | BP |
| GO:0003747 | translation release factor activity | MF |
KEGG
Orthology
This gene did not have any KEGG ortholog annotations (KAAS, GHOSTZ).
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.
