General information for g719.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative 3-hydroxy-3-methylglutaryl-coenzyme A reductase.
Parent gene
- The parent gene g719 is located on chr_3: 5497027..5501085 (- 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_3 | g719 | g719.t3 | isoform | g719.t3 | 5491960 | 5492672 |
| chr_3 | g719 | g719.t3 | exon | g719.t3.exon1 | 5491960 | 5492466 |
| chr_3 | g719 | g719.t3 | cds | g719.t3.CDS1 | 5491961 | 5492466 |
| chr_3 | g719 | g719.t3 | exon | g719.t3.exon2 | 5492531 | 5492672 |
| chr_3 | g719 | g719.t3 | cds | g719.t3.CDS2 | 5492531 | 5492558 |
| chr_3 | g719 | g719.t3 | TSS | g719.t3 | NA | NA |
| chr_3 | g719 | g719.t3 | TTS | g719.t3 | NA | NA |
Sequences
>g719.t3 Gene=g719 Length=649
GATGCATTATTCTTTTTCCTTTTACTCATTGACTTGTCAAAAGCTGGTATTCTTGCAAAA
TTGGCATTAAGTGGTTCAAACTCACAAGAAGTTACACAAAACATAGCACGCGGAATGGAA
ATTCTCGGACCAGCTATTTCATTGGATACAATGGTTGAAGCTTTGGTGATTGGTGTTGGA
ACGCTCTCTGGTGTACAGAGACTAGAAGTTTTAAGTGGATTTGCCGTCATGTCTGTAATC
GTGAATTATGTTGTGTTCATGACGTTTTATCCAGCTTGTTTATCATTAACACTTGATTTA
TCGCGTAATTGCAGCGGAAATAAAGCCGTTGCAGTAAATGCTAATACTGAAACAACAGAG
AAGCAAAAGATTCGTGATCCATCGCTTATTCGAGCCTTAAGTGAAGAAGATCAGAAACAA
AATCCAATCATACAGCGTGTTAAGCTTATTATGTCAAGCGGTCTTATGATTGTTCATGCA
CATAGTCGTCTTACATTTTCTGATAATGATGACGTAGAAGATTCTCATGTCAATGTCAAC
ACAAACCCTGGCGCTGACGTAAAGAATCTAAATATGGCTCAACAAATGAACAAAACAGAG
TCGAGTGACATTTCTGACTATATCATGAGATGGTTATCAATTAGTACAG
>g719.t3 Gene=g719 Length=178
MEILGPAISLDTMVEALVIGVGTLSGVQRLEVLSGFAVMSVIVNYVVFMTFYPACLSLTL
DLSRNCSGNKAVAVNANTETTEKQKIRDPSLIRALSEEDQKQNPIIQRVKLIMSSGLMIV
HAHSRLTFSDNDDVEDSHVNVNTNPGADVKNLNMAQQMNKTESSDISDYIMRWLSIST
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 1 | g719.t3 | Pfam | PF12349 | Sterol-sensing domain of SREBP cleavage-activation | 4 | 60 | 3.8E-7 |
| 6 | g719.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 31 | - |
| 7 | g719.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 54 | - |
| 5 | g719.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 55 | 178 | - |
| 4 | g719.t3 | ProSiteProfiles | PS50156 | Sterol-sensing domain (SSD) profile. | 1 | 58 | 17.429 |
| 3 | g719.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 5 | 27 | - |
| 2 | g719.t3 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 32 | 54 | - |
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.
