General information for g12497.t6
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g12497 is located on chr_1: 24009836..24010988 (+ 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 | g12497 | g12497.t6 | isoform | g12497.t6 | 24008499 | 24009655 |
| chr_1 | g12497 | g12497.t6 | exon | g12497.t6.exon1 | 24008499 | 24009392 |
| chr_1 | g12497 | g12497.t6 | cds | g12497.t6.CDS1 | 24009180 | 24009392 |
| chr_1 | g12497 | g12497.t6 | exon | g12497.t6.exon2 | 24009504 | 24009655 |
| chr_1 | g12497 | g12497.t6 | cds | g12497.t6.CDS2 | 24009504 | 24009653 |
| chr_1 | g12497 | g12497.t6 | TTS | g12497.t6 | 24010344 | 24010344 |
| chr_1 | g12497 | g12497.t6 | TSS | g12497.t6 | NA | NA |
Sequences
>g12497.t6 Gene=g12497 Length=1046
TTGACATTTATTTTCAATAAGTTACCAAAAAAATATATTGTCATACCACGATCAATTCGT
GATCTATTTTAAATGCAAAATGCATTATAGTAAAATAAATTCTGTAACTCTTATGACAGT
CAGTCGTAATTTACAATCCATTGATGTGACATCAAAAAATCTACTGTTCTTCTATCACAA
TCAACTATAGACCAATTGTTATCGAAGGAAAACCGGAAACTCGCGCTTATATAACTGATC
AAAATCTCTTTCGTTCAAATAATTTATAATTTTTTGTCATTATAATCAAAGTATTGTTGT
ACTTTAATTGAAAGTGATCTTGAAAATCAAATATTCTGATGATTTTAATTGTGATTATTA
CTTTGAATATCATATCGTACAAAGATATGCGTGATAAATAAGAGAAAAACGTGTGTGAAT
ACCTTAAATGAATTTTAAACTAATTGACTTTTTTGTCACTCGCTCTCTCAGAATTAAAAC
AAGTTTTTTTCTAACCTAATGTGTGTGATCTTGCTATTCCTGGATAAATAAAGTATGATA
GGTAGTGTTTGTGTTAAATTAAATTTATTATGAAGTAACTAATGTTAAAACATCAGATTT
GTTTCATCAACGCATCAGATAACTTGATTACAATTGTCTACTGAGCGTGTTTGTGCATAA
AAAATAGAAAGTGAATTTAGAATGAAAAATATTCTGCATTTAATTTTGCCACTTATCATT
CTCGCAAATGCTCAAAACATAGAGATCTTTAACGAAAAAGCATGGATGGATGAAAAAGGC
CGTGACAAATTTTTTGAATATTCCGATTCAGATATAATTGAGCCAGCAACTGTTTTGTTA
AGAAGCAGAGAATCTAAATACAGTAACAACATTGATTTCGAGCAATTTGAGGAAAGTCAA
AAATTAAAACCACAGTCATCGGCAACTGTTCATATGAAAAATCATGGCACTAATTCTCCT
CTAGGCGTGATTGATTTATTTTTGAATTCTATCAAAAAATTTATACATACACAACCACAG
CAATCACTAAAAGAACAAACTAGACA
>g12497.t6 Gene=g12497 Length=121
MKNILHLILPLIILANAQNIEIFNEKAWMDEKGRDKFFEYSDSDIIEPATVLLRSRESKY
SNNIDFEQFEESQKLKPQSSATVHMKNHGTNSPLGVIDLFLNSIKKFIHTQPQQSLKEQT
R
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 3 | g12497.t6 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 17 | - |
| 4 | g12497.t6 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 5 | g12497.t6 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 13 | - |
| 6 | g12497.t6 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 17 | - |
| 2 | g12497.t6 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 18 | 121 | - |
| 1 | g12497.t6 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 17 | - |
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.
