General information for g12258.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Ero1-like protein.
Parent gene
- The parent gene g12258 is located on chr_1: 22046003..22047141 (- 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 | g12258 | g12258.t3 | TTS | g12258.t3 | 22044625 | 22044625 |
| chr_1 | g12258 | g12258.t3 | isoform | g12258.t3 | 22044874 | 22045844 |
| chr_1 | g12258 | g12258.t3 | exon | g12258.t3.exon1 | 22044874 | 22044925 |
| chr_1 | g12258 | g12258.t3 | cds | g12258.t3.CDS1 | 22044874 | 22044925 |
| chr_1 | g12258 | g12258.t3 | exon | g12258.t3.exon2 | 22044987 | 22045134 |
| chr_1 | g12258 | g12258.t3 | cds | g12258.t3.CDS2 | 22044987 | 22045134 |
| chr_1 | g12258 | g12258.t3 | exon | g12258.t3.exon3 | 22045198 | 22045844 |
| chr_1 | g12258 | g12258.t3 | cds | g12258.t3.CDS3 | 22045198 | 22045735 |
| chr_1 | g12258 | g12258.t3 | TSS | g12258.t3 | 22046601 | 22046601 |
Sequences
>g12258.t3 Gene=g12258 Length=847
GTATACTGGTTATCAAGGTCGTTCCGCTCATAGAATATGGCAAACTATTTACAATGAAAA
TTGCTTCAAAGTACAACAAAGTTCCAATGAACGTTCAACGTATTCTTCAATGATGAAGAA
AAATGTATTAGAAGAAACTTGCTTAGAAGAGAGAGTTTTTTATCGAATGGTTTCTGGTTT
ACATGCTTCTATCAACATTCATCTAAGTGCAAACTATTTGCTACCTGAGAAAAATTCACC
ACTTGCTGCTATCAATTCTCCAAATGGTAATTGGGGACCAAATTTGAATGAATTTGTGAA
ACGTTTTAGTCCTGAAACAACCGGTCCTGAAGGTCAAAAGTGGCTTAGAAATTTATATTT
TGCGTACCTTGTTGAGCTTCGTGCAATAGCAAAAGTCGCACCGTATTTACGTACTGAAGA
TTTTTATACTGGCTTCGAAAAAACTGATAAAGAAGTTAAACTTGCCGTCAACGACCTACT
CAACGTTATTGAAACTTTTCCCTCACATTTTGATGAAAGTATTATGTTTAACGCAGGCAG
CAAAAAGTTAAAGGAGGAATTTAGAGAAAAGTTTTTTAATATTACACGTATTATGGACTG
TGTGGGATGCGATAAATGTCGTTTGTGGGGTAAATTACAAACCCAAGGTATGGGGACAGC
CTTAAAAATTTTATTTTCTGGTAAATTTGAACATAACACTTTTGAAATTTCTAATGGCGA
ACATATAACAGAAGAGAAACCACAATTTAAAATGAGACGAAGTGAGATTGTAGCATTGTT
CAATGCTTTTGGAAGACTGTCGAATTCGATATACTTTTTGGAGCTTTTTAGAAATCAATT
AAGATAA
>g12258.t3 Gene=g12258 Length=245
MMKKNVLEETCLEERVFYRMVSGLHASINIHLSANYLLPEKNSPLAAINSPNGNWGPNLN
EFVKRFSPETTGPEGQKWLRNLYFAYLVELRAIAKVAPYLRTEDFYTGFEKTDKEVKLAV
NDLLNVIETFPSHFDESIMFNAGSKKLKEEFREKFFNITRIMDCVGCDKCRLWGKLQTQG
MGTALKILFSGKFEHNTFEISNGEHITEEKPQFKMRRSEIVALFNAFGRLSNSIYFLELF
RNQLR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12258.t3 | PANTHER | PTHR12613 | ERO1-RELATED | 6 | 244 | 0 |
| 1 | g12258.t3 | Pfam | PF04137 | Endoplasmic Reticulum Oxidoreductin 1 (ERO1) | 4 | 235 | 0 |
| 3 | g12258.t3 | SUPERFAMILY | SSF110019 | ERO1-like | 7 | 244 | 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:0005783 | endoplasmic reticulum | CC |
| GO:0016671 | oxidoreductase activity, acting on a sulfur group of donors, disulfide as acceptor | MF |
| GO:0003756 | protein disulfide isomerase activity | MF |
| GO:0055114 | NA | NA |
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.
