General information for g12302.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Cholesterol 7-desaturase.
Parent gene
- The parent gene g12302 is located on chr_1: 22277850..22279694 (+ 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 | g12302 | g12302.t3 | TSS | g12302.t3 | 22276007 | 22276007 |
| chr_1 | g12302 | g12302.t3 | isoform | g12302.t3 | 22276835 | 22277850 |
| chr_1 | g12302 | g12302.t3 | exon | g12302.t3.exon1 | 22276835 | 22277038 |
| chr_1 | g12302 | g12302.t3 | cds | g12302.t3.CDS1 | 22276852 | 22277038 |
| chr_1 | g12302 | g12302.t3 | exon | g12302.t3.exon2 | 22277169 | 22277207 |
| chr_1 | g12302 | g12302.t3 | cds | g12302.t3.CDS2 | 22277169 | 22277207 |
| chr_1 | g12302 | g12302.t3 | exon | g12302.t3.exon3 | 22277271 | 22277334 |
| chr_1 | g12302 | g12302.t3 | cds | g12302.t3.CDS3 | 22277271 | 22277334 |
| chr_1 | g12302 | g12302.t3 | exon | g12302.t3.exon4 | 22277409 | 22277850 |
| chr_1 | g12302 | g12302.t3 | cds | g12302.t3.CDS4 | 22277409 | 22277850 |
| chr_1 | g12302 | g12302.t3 | TTS | g12302.t3 | NA | NA |
Sequences
>g12302.t3 Gene=g12302 Length=749
TTCAAAAGATGGCAAAAATGCGTAAATGGATATCAAAGGAGATAAATAAATTAATTTTTG
TTTGGTATCATGCTGAAAATGAAGAACCATGGGATATACCAATTGTACAAGAAGTTGAAA
ATGATAAATTTTGGTTACATGGAACCAATGATTTTATCATATATTCACACATACAGGACA
TCCCAGAAAATGGCGCTGATAGAGCTCATTTAGCAACAGTTCATGGTCCAAATATTTTGG
CTGGCACCGATATTCGAACTTTTCGCGATAAATTATTATCAATAGGATTGCACTTATGGG
ATGCCAAATGGAATGCTTGCGAAGGAAAATTAAAGCATATAGCAAAAGCATCGATTGATC
ATGTTGTTGAAGTTTTAAAAGTAAAATTCTTTCAACTTGAAGCTGACGTAACTCAAATCG
GTCCTGGTTATGTAGTGTTAAAACTGAAAACTTTTTATGGAAATGTGACTATACTACAGA
CTGTAACACCAATAGAACCTATGAAACAACGACTCATGCACTTTTTTTATGGCACACCAT
GGAATGGACTGTTCATGAAATTTACAATTTTTGGCGAAACTGTCAATGTAGCTAGAGATG
CTATGGTGTGGGATAACAAGACATTTATTAGAAATCCATTATTGCCGAAAGAAGAAAAAC
AAATCAGACTTTATCGAAATTGGTTTTCACAATTTTATTCTGAAAATAGCAAAAGCTTTC
AAGAAGCTTACAATGATTTAAGCTGGTAA
>g12302.t3 Gene=g12302 Length=243
MRKWISKEINKLIFVWYHAENEEPWDIPIVQEVENDKFWLHGTNDFIIYSHIQDIPENGA
DRAHLATVHGPNILAGTDIRTFRDKLLSIGLHLWDAKWNACEGKLKHIAKASIDHVVEVL
KVKFFQLEADVTQIGPGYVVLKLKTFYGNVTILQTVTPIEPMKQRLMHFFYGTPWNGLFM
KFTIFGETVNVARDAMVWDNKTFIRNPLLPKEEKQIRLYRNWFSQFYSENSKSFQEAYND
LSW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g12302.t3 | Gene3D | G3DSA:3.30.530.90 | - | 42 | 240 | 0e+00 |
| 1 | g12302.t3 | PANTHER | PTHR21266:SF32 | NEVERLAND | 2 | 234 | 0e+00 |
| 2 | g12302.t3 | PANTHER | PTHR21266 | IRON-SULFUR DOMAIN CONTAINING PROTEIN | 2 | 234 | 0e+00 |
| 3 | g12302.t3 | SUPERFAMILY | SSF55961 | Bet v1-like | 11 | 229 | 2e-07 |
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