General information for g6056.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g6056 is located on chr_2: 13933323..13935519 (+ 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_2 | g6056 | g6056.t4 | TSS | g6056.t4 | 13924283 | 13924283 |
| chr_2 | g6056 | g6056.t4 | isoform | g6056.t4 | 13925229 | 13926384 |
| chr_2 | g6056 | g6056.t4 | exon | g6056.t4.exon1 | 13925229 | 13925813 |
| chr_2 | g6056 | g6056.t4 | cds | g6056.t4.CDS1 | 13925781 | 13925813 |
| chr_2 | g6056 | g6056.t4 | exon | g6056.t4.exon2 | 13925876 | 13926384 |
| chr_2 | g6056 | g6056.t4 | cds | g6056.t4.CDS2 | 13925876 | 13926151 |
| chr_2 | g6056 | g6056.t4 | TTS | g6056.t4 | NA | NA |
Sequences
>g6056.t4 Gene=g6056 Length=1094
GGCGAACGCGGGGCAAGACAATTAAGTTGAGATTTTTCGTGAGCGAGAAGAGTGGACTAA
AAATTAGAATTTATTGTGTTATTCATGTCAAAAACGGTCCAAATTAATCAATAACTTGTG
CATAATCGTGTCCGTAATTCAAAGAAAATAAAAGAGCAGTGTTCTCAACACATTTATTGT
GTTTAATTAGCAATTGAAAAAATTTTGCAAAAAAAGCAAAAAGGCTGAAAGAAAAAAAGA
GAATATTACATTTTCGGCTATTTTCAAGTGATTTGTGTGAGGAAAGAAGCATTTGCAGCA
AAGCAAGAAGCAAGTGGGATTATTTTTTATTTTAGGCAAGAAGAGAAGTCGGATTACACT
ACAAAAAACATATTTAAAAGTAATAATTTCTTTGGTCGTGAATTCCTCAAATCTCTCTCT
CGCTCTCGACATCGATATACATACATATATATAAAAAAGAATTTTCTTGCTGAGACATGA
AGCTATGAGAGGGAATGAGAATAATCAATAGACAAGACATAGACATAGAAATGATGGATG
AAAATTCGCTAAATGGTGCTCAAAATGTCGGTGTGGGCCAAAGTCACCGTACCTCAATAT
ACGATTCCCGGAATTTTGCATTTCATCGAGCACGAATGGCAGCGATTTCAAGCAGAAAGA
TCACAATGGGACACTGATCGTGCTGAATTACAGGTGAGCAAAACAAAAAGAAAAAAGTGC
ACTCCTTATTCACCCTCTTTCATTCGCAATCAGTGTGTGTCTGTAAAAAATTTCATGATC
AAAGGCCGTAAACGAAAAATTTCCAAAAAAAAATCAACAGTGACGTCGTCTTTCTTTACG
AATTGTAATTTGCCAAAGTGATAATTGTATTTTCACATCGTCAATTGAAACTAATTGCAT
TATTTTCTCGTTCTTGCCATCCATAGAGCAGAAAACTCCTCTTTTTTCTCATCTAATTAT
CAATTTTTCTTGCACGTCACTGCCTGCAGATGAAGAAAAAAAAAACATTTTTTTTACTCC
ACTTACTCATTCATTCTCTTGCTTACTCGTTCACTCATTCGCCTGTTCGCTACATCTTCA
TCTTCCTCATCCCA
>g6056.t4 Gene=g6056 Length=102
MVLKMSVWAKVTVPQYTIPGILHFIEHEWQRFQAERSQWDTDRAELQVSKTKRKKCTPYS
PSFIRNQCVSVKNFMIKGRKRKISKKKSTVTSSFFTNCNLPK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g6056.t4 | Pfam | PF08232 | Striatin family | 17 | 47 | 0 |
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.
