General information for g10840.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g10840 is located on chr_1: 12217327..12218188 (- 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 | g10840 | g10840.t4 | isoform | g10840.t4 | 12216099 | 12217071 |
| chr_1 | g10840 | g10840.t4 | exon | g10840.t4.exon1 | 12216099 | 12216924 |
| chr_1 | g10840 | g10840.t4 | TTS | g10840.t4 | 12216105 | 12216105 |
| chr_1 | g10840 | g10840.t4 | cds | g10840.t4.CDS1 | 12216483 | 12216635 |
| chr_1 | g10840 | g10840.t4 | exon | g10840.t4.exon2 | 12216991 | 12217071 |
| chr_1 | g10840 | g10840.t4 | TSS | g10840.t4 | 12217517 | 12217517 |
Sequences
>g10840.t4 Gene=g10840 Length=907
AAATCCTCCTGTTTCTTGGGCACAGCGTAATGATGTTCTTTTTGTAACAATCAACGTAGA
AACAAAAGATCCTGAAATTAAATTCACAGAGGATTCTTTATATTTCAAAGGCGTTGGCTT
GCCAGAAAATAAAAAATATGAAGTGACGATTAATTTTTATAAGAAAATCAATCCAGACAA
TGTTAAGAGTAAAAACAGTGGACGATGCATTGAATTTGTCATTACCAAAGCCGATACAAA
ATCCGAATATTGGCCATCGCTGGTGAGCGATAAGAAAAAGCCACATTATCTTATAGTAGA
TTTTAATAAGTGGAAAGACGAAGGATCAGATGACGATGAAGAGCCGGGTTTTAATGATAA
CTTTGGTGGTATGGGCAATTTTAATGATTTAATGAGCTCGATGGGAGGTGGTGCAGGAAT
CGGTGGTGCCGGTGGAGATGGTAAACCTTCATTCGATGACCTCGAAGATGAAGAAGATAG
TGACGACGAACAGATACCAGATTTGGAAGAAGCTAAAAAGTGAACAAAGAAAAAAATTAC
ATCCATGAAGACAATTTAATAATTTAATTTCGGAAACTAAATTCATTTTCATGACTTCAC
AAAAAACATATACAAACATGAATAAGATAATGATTATAATCTGCAAAGAAAGCATTAAGT
CGTCAACGTTGTCAATATCTCGTTTTTTATTTGGGAATTATTATTTTACAATAAATATCC
ATTTAGTGTTAAAATCCTACTTACTTATAAATGTACATTTAAAATGATTGCGTTTAGTAT
CCAAGAATTACTTGATTGAAATTAGTAATTTGAATTATCTCACAATAATTGAACATCCTT
CTCCCACGGTTTTTGTAAGTTTTATTGGAAATCAAATAAAAATAAGCTAAAAATACCAAG
TATTTCT
>g10840.t4 Gene=g10840 Length=50
MGNFNDLMSSMGGGAGIGGAGGDGKPSFDDLEDEEDSDDEQIPDLEEAKK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g10840.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 1 | 50 | - |
| g10840.t4 | MobiDBLite | mobidb-lite | consensus disorder prediction | 28 | 42 | - |
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.
