General information for g17040.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g17040 is located on chr_4: 12297939..12299240 (+ 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_4 | g17040 | g17040.t5 | isoform | g17040.t5 | 12287062 | 12298625 |
| chr_4 | g17040 | g17040.t5 | exon | g17040.t5.exon1 | 12287062 | 12287237 |
| chr_4 | g17040 | g17040.t5 | exon | g17040.t5.exon2 | 12287354 | 12287596 |
| chr_4 | g17040 | g17040.t5 | cds | g17040.t5.CDS1 | 12287509 | 12287596 |
| chr_4 | g17040 | g17040.t5 | exon | g17040.t5.exon3 | 12298159 | 12298625 |
| chr_4 | g17040 | g17040.t5 | cds | g17040.t5.CDS2 | 12298159 | 12298625 |
| chr_4 | g17040 | g17040.t5 | TTS | g17040.t5 | 12299137 | 12299137 |
| chr_4 | g17040 | g17040.t5 | TSS | g17040.t5 | NA | NA |
Sequences
>g17040.t5 Gene=g17040 Length=886
CATCATTATGAGAGTTCAAGTGAGCGCAAATAGACGTGATTTTGTTTTTGTTAAAAATTA
TTTTTTTTGAAATTGTTTTTACAAAATTAAAAAAAAAATTCAAGTTTTTTAAGTTAAAAA
TTGTAAATTGTTTTTTTTAATGTTTCTGGAATTTTTAAGTTCTTTTACAAAAAAATGGTA
AAAGTCAATGTAACGAAAACTGTGTAGCACGTCACGCATTTATGAATTTTTTTTTTCGGT
TATCTTGAATGTTTACTAAATTAACTTTTTATTTCTTTTTCAGACCTTTGAAATGTTTTT
CATCAAATGTTTTTACTTTAACTGCGTGTTTATGGCGATTTGTTTTGCTTTTGGAAGCAG
TGAATTTAAATGTCAACTTGATTATAAACTTGTAGACAATAACTGCATCGAAAAAATGAA
CATGATTGATGGAATCATAACACAAGAAAAATGCTGTACGGTTACAAAATGTGCAATTCC
TGATTATAAAAATGGAAGCTATCAACAATTTAGTGTCAACGAGGAAACGAAAATTACTGA
AAATGATGCAGAAATCAAACCTAACTATAAAAGCAATAAAATTGAAATTTTTTATATTGG
AAAAAAATGCAGTGGTGAAAAAGTTGACATTTTTTATCTTCCAATAAAAGTGAATGAAAT
TTTTCCAAATTTAATTTCTTACACTGCATATCGAACTAAAGTTAAACATTTGACAAAAGA
AAATTTCAAAGGAATGAAAAAATTATTCTATTTAGGTTTTGTTAATAATGAAATTGAAAC
AATTGATGATGACACTTTTGATGATTTGAATGAGTTAGAATATTTAAATTTGGAATCTAA
CAAAATGAAAATTTTAAATCCAAGAATTTTTATGAATAATCTAAAA
>g17040.t5 Gene=g17040 Length=185
MAICFAFGSSEFKCQLDYKLVDNNCIEKMNMIDGIITQEKCCTVTKCAIPDYKNGSYQQF
SVNEETKITENDAEIKPNYKSNKIEIFYIGKKCSGEKVDIFYLPIKVNEIFPNLISYTAY
RTKVKHLTKENFKGMKKLFYLGFVNNEIETIDDDTFDDLNELEYLNLESNKMKILNPRIF
MNNLK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g17040.t5 | Gene3D | G3DSA:3.80.10.10 | Ribonuclease Inhibitor | 89 | 185 | 0 |
| 1 | g17040.t5 | Pfam | PF13855 | Leucine rich repeat | 123 | 171 | 0 |
| 2 | g17040.t5 | SUPERFAMILY | SSF52058 | L domain-like | 100 | 182 | 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:0005515 | protein binding | 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. There were no conditions that were differentially expressed