General information for g13902.t17
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13902 is located on chr_1: 33207729..33208355 (+ 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 | g13902 | g13902.t17 | isoform | g13902.t17 | 33207155 | 33208355 |
| chr_1 | g13902 | g13902.t17 | exon | g13902.t17.exon1 | 33207155 | 33207661 |
| chr_1 | g13902 | g13902.t17 | cds | g13902.t17.CDS1 | 33207439 | 33207661 |
| chr_1 | g13902 | g13902.t17 | exon | g13902.t17.exon2 | 33207729 | 33208355 |
| chr_1 | g13902 | g13902.t17 | cds | g13902.t17.CDS2 | 33207729 | 33208018 |
| chr_1 | g13902 | g13902.t17 | TTS | g13902.t17 | 33208453 | 33208453 |
| chr_1 | g13902 | g13902.t17 | TSS | g13902.t17 | NA | NA |
Sequences
>g13902.t17 Gene=g13902 Length=1134
TCTGAGTTTAAGATTAATGTAAGTTATGATATATATTACAATATTTATGCATCATTAAAT
TGGGAAATTATTTATGATTTTATAACAAAACTTACAATTACTTTATTATTTTATCATATC
GTAGTAGTAGTAGTATTTTAGTTGCATGTAACAATTACTAAAAACCTTATCATTACTTTA
TGTTTACGTAGGTCAAAGAATTATTTCGTAATCATGAATATATTTTAAAACCTCAACGTA
CTTTATTTTCTAATTATTTATCCAATGCTGCTAATATTCCTATAATGGTTGCAACCGCAA
TTACACAATCAAAACAACCTGTTGATTTGGAAACCGATGATGACGATGAATTTTATGATG
CACCTGATCACTTTTCTGATATCGACGATGACGATGAACAGGCACCAGATGATGATATTA
CTGATTTGATAATTAAGTTTAAACCACTATCTGTGTGGAATAACAGCGAACAAAATGAAG
TTGAATACATCTTGCCACCTAATTATGTTGGTGGAAATGCAGATTGGATTGGTGTTTATC
CTGAAGATTTTACTGGTTTTGATGAATACATTGGTTATGAGTATACCGACACCGCTGATG
AAAAGGCTCAGCCAACTTCCCGCACAATAAAACTCAACTTTTCGGATTCAATAAATTTAC
CTGTCGGTGATGGTAAATTTGTGTTGCTTTACTTCCAATCAACAGGAATGAGAGGATATT
CAAGTATGGTTGGAATGAGCGAACCATTCCCAGCCATTAAAAGATGCCCATCACCACGAC
CTGATACAATTGATTAAAGAGTTGCCAATTTTATTGAAAATAAAAATGTACTTTAAGTAT
TAACTGTTCAATTTAAAGCCTTCAATATATACACGCGTAATATTAGCACAAGTGCTTTAA
TATAAAATTTACAAACCATAATAAGAATTTACTTTTGTGACCATTTTAATGACTTAATAA
TTAATTTAACAATAATCAAGATTGTGCAATAATCTATCTTCCATTCCCAATTATTATTTT
TATAAAAAGAGCATTATTTATTTAGGATGACTTTTTTTTTATTGACCGTGTTTTTTATAT
TATAAATTTTTGCGTTTTCCAATAGTTTCAATTTCAATCAATTTTCATGCGTGT
>g13902.t17 Gene=g13902 Length=170
MVATAITQSKQPVDLETDDDDEFYDAPDHFSDIDDDDEQAPDDDITDLIIKFKPLSVWNN
SEQNEVEYILPPNYVGGNADWIGVYPEDFTGFDEYIGYEYTDTADEKAQPTSRTIKLNFS
DSINLPVGDGKFVLLYFQSTGMRGYSSMVGMSEPFPAIKRCPSPRPDTID
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g13902.t17 | Gene3D | G3DSA:2.60.40.2840 | - | 50 | 164 | 5.3E-8 |
| 2 | g13902.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 40 | - |
| 3 | g13902.t17 | MobiDBLite | mobidb-lite | consensus disorder prediction | 15 | 40 | - |
| 1 | g13902.t17 | Pfam | PF17751 | SKICH domain | 50 | 156 | 2.0E-15 |
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.
