General information for g12302.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as 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.t2 | TSS | g12302.t2 | 22276007 | 22276007 |
| chr_1 | g12302 | g12302.t2 | isoform | g12302.t2 | 22276094 | 22277850 |
| chr_1 | g12302 | g12302.t2 | exon | g12302.t2.exon1 | 22276094 | 22276588 |
| chr_1 | g12302 | g12302.t2 | cds | g12302.t2.CDS1 | 22276336 | 22276588 |
| chr_1 | g12302 | g12302.t2 | exon | g12302.t2.exon2 | 22276835 | 22277038 |
| chr_1 | g12302 | g12302.t2 | cds | g12302.t2.CDS2 | 22276835 | 22277038 |
| chr_1 | g12302 | g12302.t2 | exon | g12302.t2.exon3 | 22277169 | 22277207 |
| chr_1 | g12302 | g12302.t2 | cds | g12302.t2.CDS3 | 22277169 | 22277207 |
| chr_1 | g12302 | g12302.t2 | exon | g12302.t2.exon4 | 22277271 | 22277334 |
| chr_1 | g12302 | g12302.t2 | cds | g12302.t2.CDS4 | 22277271 | 22277334 |
| chr_1 | g12302 | g12302.t2 | exon | g12302.t2.exon5 | 22277409 | 22277850 |
| chr_1 | g12302 | g12302.t2 | cds | g12302.t2.CDS5 | 22277409 | 22277850 |
| chr_1 | g12302 | g12302.t2 | TTS | g12302.t2 | NA | NA |
Sequences
>g12302.t2 Gene=g12302 Length=1244
ATGTGGATTTATTATGTAGTTTCAATTCCTCCTATTTTAATTTTAATTTATTTTATATTT
TTCGTTCCTGTTAATTATAAAAGTGTAAGTTTAACATTGAACTTAAAAGTGAAAAAATAT
GACTCATTTTCTTTCTATAGAAAGATTCAAAGGACAAACGTACAGCGATAAATCGAAGTA
GAAAGTTAAGAAAAAATGGAAAAAATATTCCACCACCTTTTCCAAATGGTTGGTTTTGTC
TTATGGGTTCTAATGAACTTGAACCTGGAACTGCAAAAGATGTAAATTGTTTGGGTGAAA
ATTTTGTGGTTTTTCGTTCAGCTGTCACCAAAGAAGTTTACGTCCTTGATGCTTATTGTA
CACATATGGGAGCAAATTTGGGTGTTGGTGGAATCGTTAAAGATGAATGTATCGAATGTC
CTTTTCATCAATGGAAATTTTCAGGAAAAGATGGCTCACTTGTATCAATTCCTTATAGTG
AAGATATTAAGAGTGTTCAAAAGATGGCAAAAATGCGTAAATGGATATCAAAGGAGATAA
ATAAATTAATTTTTGTTTGGTATCATGCTGAAAATGAAGAACCATGGGATATACCAATTG
TACAAGAAGTTGAAAATGATAAATTTTGGTTACATGGAACCAATGATTTTATCATATATT
CACACATACAGGACATCCCAGAAAATGGCGCTGATAGAGCTCATTTAGCAACAGTTCATG
GTCCAAATATTTTGGCTGGCACCGATATTCGAACTTTTCGCGATAAATTATTATCAATAG
GATTGCACTTATGGGATGCCAAATGGAATGCTTGCGAAGGAAAATTAAAGCATATAGCAA
AAGCATCGATTGATCATGTTGTTGAAGTTTTAAAAGTAAAATTCTTTCAACTTGAAGCTG
ACGTAACTCAAATCGGTCCTGGTTATGTAGTGTTAAAACTGAAAACTTTTTATGGAAATG
TGACTATACTACAGACTGTAACACCAATAGAACCTATGAAACAACGACTCATGCACTTTT
TTTATGGCACACCATGGAATGGACTGTTCATGAAATTTACAATTTTTGGCGAAACTGTCA
ATGTAGCTAGAGATGCTATGGTGTGGGATAACAAGACATTTATTAGAAATCCATTATTGC
CGAAAGAAGAAAAACAAATCAGACTTTATCGAAATTGGTTTTCACAATTTTATTCTGAAA
ATAGCAAAAGCTTTCAAGAAGCTTACAATGATTTAAGCTGGTAA
>g12302.t2 Gene=g12302 Length=333
MGSNELEPGTAKDVNCLGENFVVFRSAVTKEVYVLDAYCTHMGANLGVGGIVKDECIECP
FHQWKFSGKDGSLVSIPYSEDIKSVQKMAKMRKWISKEINKLIFVWYHAENEEPWDIPIV
QEVENDKFWLHGTNDFIIYSHIQDIPENGADRAHLATVHGPNILAGTDIRTFRDKLLSIG
LHLWDAKWNACEGKLKHIAKASIDHVVEVLKVKFFQLEADVTQIGPGYVVLKLKTFYGNV
TILQTVTPIEPMKQRLMHFFYGTPWNGLFMKFTIFGETVNVARDAMVWDNKTFIRNPLLP
KEEKQIRLYRNWFSQFYSENSKSFQEAYNDLSW
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g12302.t2 | Gene3D | G3DSA:2.102.10.10 | - | 1 | 129 | 0.0000000 |
| 6 | g12302.t2 | Gene3D | G3DSA:3.30.530.90 | - | 132 | 330 | 0.0000000 |
| 2 | g12302.t2 | PANTHER | PTHR21266:SF32 | NEVERLAND | 3 | 324 | 0.0000000 |
| 3 | g12302.t2 | PANTHER | PTHR21266 | IRON-SULFUR DOMAIN CONTAINING PROTEIN | 3 | 324 | 0.0000000 |
| 1 | g12302.t2 | Pfam | PF00355 | Rieske [2Fe-2S] domain | 3 | 85 | 0.0000000 |
| 8 | g12302.t2 | ProSiteProfiles | PS51296 | Rieske [2Fe-2S] iron-sulfur domain profile. | 1 | 85 | 23.6060000 |
| 5 | g12302.t2 | SUPERFAMILY | SSF50022 | ISP domain | 3 | 113 | 0.0000000 |
| 4 | g12302.t2 | SUPERFAMILY | SSF55961 | Bet v1-like | 101 | 319 | 0.0000005 |
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:0051537 | 2 iron, 2 sulfur cluster binding | 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. There were no conditions that were differentially expressed