General information for g13237.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13237 is located on chr_1: 28731877..28732519 (+ 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 | g13237 | g13237.t3 | TSS | g13237.t3 | 28730364 | 28730364 |
| chr_1 | g13237 | g13237.t3 | isoform | g13237.t3 | 28730540 | 28731244 |
| chr_1 | g13237 | g13237.t3 | exon | g13237.t3.exon1 | 28730540 | 28730558 |
| chr_1 | g13237 | g13237.t3 | cds | g13237.t3.CDS1 | 28730540 | 28730558 |
| chr_1 | g13237 | g13237.t3 | exon | g13237.t3.exon2 | 28730621 | 28730837 |
| chr_1 | g13237 | g13237.t3 | cds | g13237.t3.CDS2 | 28730621 | 28730837 |
| chr_1 | g13237 | g13237.t3 | exon | g13237.t3.exon3 | 28730892 | 28731036 |
| chr_1 | g13237 | g13237.t3 | cds | g13237.t3.CDS3 | 28730892 | 28731036 |
| chr_1 | g13237 | g13237.t3 | exon | g13237.t3.exon4 | 28731097 | 28731244 |
| chr_1 | g13237 | g13237.t3 | cds | g13237.t3.CDS4 | 28731097 | 28731243 |
| chr_1 | g13237 | g13237.t3 | TTS | g13237.t3 | 28731323 | 28731323 |
Sequences
>g13237.t3 Gene=g13237 Length=529
ATGGCAAAAGTTGAAAGAGTTTCACCAATGAACAGCAGTATTGAATCAGTGATTGCATCA
CCAACTTTTCTTAATTCATCAAGTTCATTCAAATTTTTAACTCCTGGAATTGCAAATTTT
CGAAGAAGCTGTTCTCCTTTGAATCTCAACTACTCAAAATCACCAAATCTTAGTCCTATA
AAACCCAAAACACCTCGCTCAGCTTCACCATTTGAATTAAAGAAACGAGATTTAACTAAT
TATCATAAAAGTTTAATTAAGAAGCAAAAGCATGGTTTCATGAATAATGCACAAAACATC
AACGAAATAACACTCAGTGTTAAAGTCATTCTAGAAGAATTAAAATTAACAGAATATATG
CATTTATTTGAGGAAGAAGAGATTTTTCTTGATGTCTTTTTTACTATTTCTGATGATGAC
CTAAAAGCAATTGGGATTGAAAATAAGGAACATCGTAAAAAATTGATTGATTTTATTAAT
TTTAACACACCAAAGAAAAATATTGCTGTCAAGAAGAATACCATGTATC
>g13237.t3 Gene=g13237 Length=176
MAKVERVSPMNSSIESVIASPTFLNSSSSFKFLTPGIANFRRSCSPLNLNYSKSPNLSPI
KPKTPRSASPFELKKRDLTNYHKSLIKKQKHGFMNNAQNINEITLSVKVILEELKLTEYM
HLFEEEEIFLDVFFTISDDDLKAIGIENKEHRKKLIDFINFNTPKKNIAVKKNTMY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g13237.t3 | CDD | cd09487 | SAM_superfamily | 106 | 160 | 0.000 |
| 3 | g13237.t3 | Gene3D | G3DSA:1.10.150.50 | Transcription Factor | 104 | 160 | 0.000 |
| 1 | g13237.t3 | Pfam | PF00536 | SAM domain (Sterile alpha motif) | 111 | 159 | 0.000 |
| 4 | g13237.t3 | ProSiteProfiles | PS50105 | SAM domain profile. | 106 | 160 | 9.741 |
| 2 | g13237.t3 | SUPERFAMILY | SSF47769 | SAM/Pointed domain | 105 | 161 | 0.000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
| GOID | TERM | ONTOLOGY |
|---|---|---|
| GO:0005515 | protein binding | MF |
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.
