General information for g12858.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12858 is located on chr_1: 26579506..26580702 (+ 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 | g12858 | g12858.t2 | isoform | g12858.t2 | 26578809 | 26580018 |
| chr_1 | g12858 | g12858.t2 | exon | g12858.t2.exon1 | 26578809 | 26579077 |
| chr_1 | g12858 | g12858.t2 | TSS | g12858.t2 | 26578820 | 26578820 |
| chr_1 | g12858 | g12858.t2 | exon | g12858.t2.exon2 | 26579278 | 26580018 |
| chr_1 | g12858 | g12858.t2 | cds | g12858.t2.CDS1 | 26579506 | 26580018 |
| chr_1 | g12858 | g12858.t2 | TTS | g12858.t2 | 26580810 | 26580810 |
Sequences
>g12858.t2 Gene=g12858 Length=1010
AGTTCTTTGTTAAAATTTTACGATTTAAAAAATACTAAAAATGGTGATAGTTCCTTGTGA
ATTTATAGTTCTTTCAGATCATTACTACTGCTGTAATATTATCAAGCACAAAATCCAAGT
TCAGAAAGTTAATTTTAAATTAAAACATGAAAATAACAAACAAAATAGTGACATCAATTA
TGCTCGATTTCAATTCTGTATCCTCACAAAAGTTCCAGTAAATATTCATGAAAATTTTTC
AAATTTAGAAATTTTGTGCTTCTGGAATTGTAAAATGGATTCGATAGAACGTGAACATAT
TGGTAATTTAAAAAAACTGAAAACTTTAAATGTTACTAAATGTGGACTAAAAAAATTGAA
AGGTGATTTATTTCAAGACAAAAACTATTGAAAAAATTTCATTTGCATGTAATGATCTTG
GCGAAATCGATCCAGAAATTTTAGATGGTTTGAATTTGTTGAAATTCGTAAACTTCAATT
TAAATGTGGATATAAATATGTGTTATGATTCAGATGAAGTTAATAGTTATTCATTGGATG
ATATAAAAAGAGAAATTAAGATAAAATGCAAGCCCAAATCTATGAATCCACAAATAAATG
AAACTGAGGAGCAAAATGAGTTGAAACTTAAAGGATATTCTGAGGAATTGACAAAATTAA
AAATTGAAAAACAGCAATTAATGTCAGAACTAAAAGCAGTGAAAACTTTAAATCAGCAAC
AAGAAACTTTAATAGGAAAACATCGAGAACAAATTACAGTTTTATTAGCAAAACAATCAA
AACAAGATAAAAAGATTAACAAAGTTCAATATCTGATTTCAGAAAATGATAATTTGAAGA
CAGCAAATAAAAATGTAATTGCCCAAACTAGAAATTTAAAAGAGGAAAATCAAAATTTGG
TAGCAGTAAATCAAAGGCTAGAAGATAAAATTAAAAAATTGGAAGCAGAAGTTTTAACAA
TAAAAAGTCAAAATACAGGACTTTTGATATCAGAAAATGTAAATTTAAAA
>g12858.t2 Gene=g12858 Length=171
MCYDSDEVNSYSLDDIKREIKIKCKPKSMNPQINETEEQNELKLKGYSEELTKLKIEKQQ
LMSELKAVKTLNQQQETLIGKHREQITVLLAKQSKQDKKINKVQYLISENDNLKTANKNV
IAQTRNLKEENQNLVAVNQRLEDKIKKLEAEVLTIKSQNTGLLISENVNLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g12858.t2 | Coils | Coil | Coil | 37 | 71 | - |
| 1 | g12858.t2 | Coils | Coil | Coil | 110 | 158 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
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. There were no conditions that were differentially expressed