General information for g11880.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11880 is located on chr_1: 18951292..18952488 (- 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 | g11880 | g11880.t2 | TTS | g11880.t2 | 18946801 | 18946801 |
| chr_1 | g11880 | g11880.t2 | isoform | g11880.t2 | 18946807 | 18947656 |
| chr_1 | g11880 | g11880.t2 | exon | g11880.t2.exon1 | 18946807 | 18947656 |
| chr_1 | g11880 | g11880.t2 | cds | g11880.t2.CDS1 | 18946870 | 18947649 |
| chr_1 | g11880 | g11880.t2 | TSS | g11880.t2 | NA | NA |
Sequences
>g11880.t2 Gene=g11880 Length=850
GTATGAAATGAATATATCACGGCAGCTTCTAGATTATAAAGTCGAATACAATGTTTTGAA
AGAAGAATTACAAAATACTACACAACATATTGAAAATTTAAAATTAGCACGTGAAGATTT
GAAAAATTTACATAAACAAATTCAAGGTGCAGAAATTAATATTCAACGTTTAGAAGCCAT
TCGACATTCTCAGCAGCAAGAAATTATTACAATGCAATTGCATATTCAAAGTTTGGAATC
TACAATACAAACATTTGGTGACTTTCTCCAATCATTGTCAATCAATCGAACAGACATCGA
CATTCCATCAGACATACGACGACTTTTGCAGCAAATGGATCAACAGCAAAACAAGCAGCA
AGTTAAACGACGACCAGTGTTTTTAGACAGAAAAATTGGCAAATCTGTGTCAGTTAATAG
TAGCTTAGGAATGAGCTTAAAAGTGTTAATTGAGCAGAATGAAAATGACAATCAAACACC
GCCATGCGCTGTAACTCCAATATCAGATAGTGCCATCACATCAATTTTATGTGAAAGGAA
AAGAAATTTTGAAAAGGCATTAGATCAAGTTAAACAACACTCTAAACTTATGGAAAATCA
TGATGAATCTCTTGAAATAACTAATCAAATTGATGAGGCTGCAATTGAGACAATAGAGAA
AGAAACGATTGAAAAAACTTTATCACATCCATTAGTTTGCGATGATGTGAATTTTCAATT
TAATACAATGCAGTTAAAAACGATAAGATCAACAAATACTTTTAAAAGACCCGAAAAACG
AGAATAGATAAATTGTTTTTTGATAGAAATGTTTTAGTTCAATAAAGAGCTGAAAAATTT
GTTACTTACA
>g11880.t2 Gene=g11880 Length=259
MNISRQLLDYKVEYNVLKEELQNTTQHIENLKLAREDLKNLHKQIQGAEINIQRLEAIRH
SQQQEIITMQLHIQSLESTIQTFGDFLQSLSINRTDIDIPSDIRRLLQQMDQQQNKQQVK
RRPVFLDRKIGKSVSVNSSLGMSLKVLIEQNENDNQTPPCAVTPISDSAITSILCERKRN
FEKALDQVKQHSKLMENHDESLEITNQIDEAAIETIEKETIEKTLSHPLVCDDVNFQFNT
MQLKTIRSTNTFKRPEKRE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g11880.t2 | Coils | Coil | Coil | 7 | 65 | - |
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.
