General information for g2815.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g2815 is located on chr_3: 20424301..20424847 (- 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_3 | g2815 | g2815.t1 | TTS | g2815.t1 | 20424263 | 20424263 |
| chr_3 | g2815 | g2815.t1 | isoform | g2815.t1 | 20424301 | 20424847 |
| chr_3 | g2815 | g2815.t1 | exon | g2815.t1.exon1 | 20424301 | 20424631 |
| chr_3 | g2815 | g2815.t1 | cds | g2815.t1.CDS1 | 20424301 | 20424631 |
| chr_3 | g2815 | g2815.t1 | exon | g2815.t1.exon2 | 20424702 | 20424847 |
| chr_3 | g2815 | g2815.t1 | cds | g2815.t1.CDS2 | 20424702 | 20424847 |
| chr_3 | g2815 | g2815.t1 | TSS | g2815.t1 | 20424926 | 20424926 |
Sequences
>g2815.t1 Gene=g2815 Length=477
ATGTCGAAACCTATTGGTAATCTTGAAGAAGAAGCACTTAAGCGAAAGGAAAGATTAAAG
AGCTTGAAAAGAAAATTCAATGAAACATCAGACGATACAACAGAGATGAAAGAAAGCAAC
AATAGTACTAAACAGGCAATTCCAAAACCAACATTTAGAAGTTACAGAAAGGACGATGAT
GAAAATGTCGATGTTACAGAATCAATAACAGAAATTACCGAAATTAAAGATCAACTTGAC
GAAATGAAAACACCTCTCGAAATAGAAGATATAGAAGTTAATAATCTCGCACCGAAGAAA
ATAGATTTTGATTTAAAACGAGCAATTGCAAAAAAACTGCAGAAACTCGAGAAAAGAACA
CAAATAGCAATTAGTGAACTCATCAGATTACGATTAATGAGTCAAAAAGATGAGGATTTT
GTGAAGAACGTAAATGTAGGGGCAAAAGAGGCAGCACAGAATATCGATTCGGATTAA
>g2815.t1 Gene=g2815 Length=158
MSKPIGNLEEEALKRKERLKSLKRKFNETSDDTTEMKESNNSTKQAIPKPTFRSYRKDDD
ENVDVTESITEITEIKDQLDEMKTPLEIEDIEVNNLAPKKIDFDLKRAIAKKLQKLEKRT
QIAISELIRLRLMSQKDEDFVKNVNVGAKEAAQNIDSD
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g2815.t1 | Coils | Coil | Coil | 5 | 25 | - |
| 3 | g2815.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 20 | 38 | - |
| 4 | g2815.t1 | MobiDBLite | mobidb-lite | consensus disorder prediction | 20 | 60 | - |
| 2 | g2815.t1 | PANTHER | PTHR31551 | PRE-MRNA-SPLICING FACTOR CWF18 | 5 | 145 | 1.2E-22 |
| 1 | g2815.t1 | Pfam | PF08315 | cwf18 pre-mRNA splicing factor | 8 | 132 | 1.3E-23 |
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 transcript has been annotated with K12871 (coiled-coil domain-containing protein 12)
Pathway
- This transcript belongs to the following pathways
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.
