General information for g9509.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative CLK4-associating serine/arginine rich protein.
Parent gene
- The parent gene g9509 is located on chr_1: 3826386..3827339 (- 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 | g9509 | g9509.t4 | TTS | g9509.t4 | 3826289 | 3826289 |
| chr_1 | g9509 | g9509.t4 | isoform | g9509.t4 | 3826386 | 3827339 |
| chr_1 | g9509 | g9509.t4 | exon | g9509.t4.exon1 | 3826386 | 3826994 |
| chr_1 | g9509 | g9509.t4 | cds | g9509.t4.CDS1 | 3826388 | 3826994 |
| chr_1 | g9509 | g9509.t4 | exon | g9509.t4.exon2 | 3827083 | 3827339 |
| chr_1 | g9509 | g9509.t4 | cds | g9509.t4.CDS2 | 3827083 | 3827144 |
| chr_1 | g9509 | g9509.t4 | TSS | g9509.t4 | 3827483 | 3827483 |
Sequences
>g9509.t4 Gene=g9509 Length=866
ATGTGGCACGAAGCAAGAAAACAAGAAAAGAAAATTAAAGGAATGCTCGTAGACTATAGA
AAACGAGCTGATAGAAGAAAAGAATATTACGACAAGATAGTAAGCTAAAAACTAAAAAAA
GTGATATTTAATAACATAACATCAATATTAACATCCTCTTTACCTTTTTTATAGAAAGCA
GACCCAATTAGATTTATGCAAGTACATGGACGGAAATGTAAAATTCATTTTGAAGCCGTG
GATTCATCGGATCATATGATGAATTTTAGAATTGAAGGCGAAGACATTTTGATTGATCGC
TTTGATGTAAGATCACATTTGGATTACATTTCTACACCAAAAAAGCAAGAAGAGTCAACA
GAGTCGGAAAAAATTTCTGAAGAAGAAAGGCAGTTGAACTATGAACGATATAAAATTTTA
GCATCAAATGAATTTTTGGGAATAACCGAGGAGAATTTTCTTAAACAAATACAAATAGAG
GAACAATTTGGTAGTGCTGATAAAAGTGATGATAAAAGCAAAAAGAAAAATAGTCAAGCA
ACAGCTGCAATTGGATATACTTATGAGGACTCTACAGCTACAGCAAATATCGTACCATTC
TCACAACAAATACTTTCAATTGAAGCCTCATCATCATCATCTCGTTATGAAGAATTTGCA
AAAGATTATTCAGATGATTCTGATATTGACATGGATGTGACAATTGATGTCAAAAAAATT
GGTACACAACAAGCACATGAGTTAAATAATTATGGGAAAAAATACGGCATGCATTCAAAT
GATTTATTCTCGTTTCTCACGCGTGACGAAGATGAGAAAATGTCGTTAAAGGCAATGAAA
GAACAAGAAGCTGATAAAATGTTGAG
>g9509.t4 Gene=g9509 Length=223
MQVHGRKCKIHFEAVDSSDHMMNFRIEGEDILIDRFDVRSHLDYISTPKKQEESTESEKI
SEEERQLNYERYKILASNEFLGITEENFLKQIQIEEQFGSADKSDDKSKKKNSQATAAIG
YTYEDSTATANIVPFSQQILSIEASSSSSRYEEFAKDYSDDSDIDMDVTIDVKKIGTQQA
HELNNYGKKYGMHSNDLFSFLTRDEDEKMSLKAMKEQEADKML
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 2 | g9509.t4 | PANTHER | PTHR13161:SF4 | CLK4-ASSOCIATING SERINE/ARGININE RICH PROTEIN | 1 | 222 | 0 |
| 3 | g9509.t4 | PANTHER | PTHR13161 | SPLICING FACTOR SUPPRESSOR OF WHITE APRICOT | 1 | 222 | 0 |
| 1 | g9509.t4 | Pfam | PF09750 | Alternative splicing regulator | 1 | 125 | 0 |
| 4 | g9509.t4 | SMART | SM01141 | DRY_EERY_2 | 1 | 127 | 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. There were no conditions that were differentially expressed