General information for g6056.t5
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Striatin-3.
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.t5 | TSS | g6056.t5 | 13924283 | 13924283 |
| chr_2 | g6056 | g6056.t5 | isoform | g6056.t5 | 13925229 | 13933264 |
| chr_2 | g6056 | g6056.t5 | exon | g6056.t5.exon1 | 13925229 | 13925983 |
| chr_2 | g6056 | g6056.t5 | cds | g6056.t5.CDS1 | 13925759 | 13925983 |
| chr_2 | g6056 | g6056.t5 | exon | g6056.t5.exon2 | 13932440 | 13932635 |
| chr_2 | g6056 | g6056.t5 | cds | g6056.t5.CDS2 | 13932440 | 13932635 |
| chr_2 | g6056 | g6056.t5 | exon | g6056.t5.exon3 | 13932700 | 13932924 |
| chr_2 | g6056 | g6056.t5 | cds | g6056.t5.CDS3 | 13932700 | 13932924 |
| chr_2 | g6056 | g6056.t5 | exon | g6056.t5.exon4 | 13933037 | 13933264 |
| chr_2 | g6056 | g6056.t5 | cds | g6056.t5.CDS4 | 13933037 | 13933263 |
| chr_2 | g6056 | g6056.t5 | TTS | g6056.t5 | NA | NA |
Sequences
>g6056.t5 Gene=g6056 Length=1404
GGCGAACGCGGGGCAAGACAATTAAGTTGAGATTTTTCGTGAGCGAGAAGAGTGGACTAA
AAATTAGAATTTATTGTGTTATTCATGTCAAAAACGGTCCAAATTAATCAATAACTTGTG
CATAATCGTGTCCGTAATTCAAAGAAAATAAAAGAGCAGTGTTCTCAACACATTTATTGT
GTTTAATTAGCAATTGAAAAAATTTTGCAAAAAAAGCAAAAAGGCTGAAAGAAAAAAAGA
GAATATTACATTTTCGGCTATTTTCAAGTGATTTGTGTGAGGAAAGAAGCATTTGCAGCA
AAGCAAGAAGCAAGTGGGATTATTTTTTATTTTAGGCAAGAAGAGAAGTCGGATTACACT
ACAAAAAACATATTTAAAAGTAATAATTTCTTTGGTCGTGAATTCCTCAAATCTCTCTCT
CGCTCTCGACATCGATATACATACATATATATAAAAAAGAATTTTCTTGCTGAGACATGA
AGCTATGAGAGGGAATGAGAATAATCAATAGACAAGACATAGACATAGAAATGATGGATG
AAAATTCGCTAAATGGTGCTCAAAATGTCGGTGTGGGCCAAAGTCGTGTTAATAATGCCG
TGACTGGTGATAAAATTGCGGATGATGCTAGCAATGGCAATGCTCAAACCGTACCTCAAT
ATACGATTCCCGGAATTTTGCATTTCATCGAGCACGAATGGCAGCGATTTCAAGCAGAAA
GATCACAATGGGACACTGATCGTGCTGAATTACAGTCAAAAATTGCTGTGTTATTAGGCG
AAAGGAAAGGTCTTCAAACAACACATTCGGATCTAATTCGTCGCATTAAAATGCTGGAAT
ATGCCTTGCGACAAGAACGTATAAAGTTTCATCGCTTGAAGTTTGGATGTGATCCACCGA
CAGTTGATTTGACTCAGTCGCCTGATGAGCAAGGCTTAGAATTAAATGCTGATGCCGAAT
ATCCATACAGTCCTGTAACGAATCAAATGTGGGAGCGTGGTCGTGCACGTTTACAAAATT
ATCTAAAAGAAATTGGCTGGACAGAGACAATAATTGATGTACGATCCAAATGTACCAGAA
ATTTATTAAAATTAGGCAATGCTGAGCAAGAGGAGAATATAAGTCCAAATGTAAACGGTA
CTGAAACCAATAATAAACGTGCAAGTGAATCACAAGGACGTGATCAACCGGCAAAGAAGA
GTCAACAACAACAAGCTATGGCTGATGCACTATTATTGGATACTGAAGCTGCTGTTATGT
CAAGCTTTGCCTTTTTAGAACCCGCCGATGTCGAGATGGATGATGAAGATTATATGGGTG
ACGATATGGATCTTGTAACAGGTAGTAGCGATTCTGACATGAAGCAATTGAAATTAAAAA
CCAAAGGTGTAATTGTAAATGATG
>g6056.t5 Gene=g6056 Length=291
MMDENSLNGAQNVGVGQSRVNNAVTGDKIADDASNGNAQTVPQYTIPGILHFIEHEWQRF
QAERSQWDTDRAELQSKIAVLLGERKGLQTTHSDLIRRIKMLEYALRQERIKFHRLKFGC
DPPTVDLTQSPDEQGLELNADAEYPYSPVTNQMWERGRARLQNYLKEIGWTETIIDVRSK
CTRNLLKLGNAEQEENISPNVNGTETNNKRASESQGRDQPAKKSQQQQAMADALLLDTEA
AVMSSFAFLEPADVEMDDEDYMGDDMDLVTGSSDSDMKQLKLKTKGVIVND
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g6056.t5 | Gene3D | G3DSA:1.20.5.300 | - | 63 | 112 | 2.0E-21 |
| 3 | g6056.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 194 | 210 | - |
| 4 | g6056.t5 | MobiDBLite | mobidb-lite | consensus disorder prediction | 194 | 228 | - |
| 2 | g6056.t5 | PANTHER | PTHR15653 | STRIATIN | 33 | 285 | 8.4E-57 |
| 1 | g6056.t5 | Pfam | PF08232 | Striatin family | 45 | 175 | 8.2E-30 |
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.
