General information for g13472.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g13472 is located on chr_1: 30356217..30357285 (+ 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 | g13472 | g13472.t4 | TSS | g13472.t4 | 30355956 | 30355956 |
| chr_1 | g13472 | g13472.t4 | isoform | g13472.t4 | 30355985 | 30356992 |
| chr_1 | g13472 | g13472.t4 | exon | g13472.t4.exon1 | 30355985 | 30356349 |
| chr_1 | g13472 | g13472.t4 | cds | g13472.t4.CDS1 | 30356215 | 30356349 |
| chr_1 | g13472 | g13472.t4 | exon | g13472.t4.exon2 | 30356672 | 30356770 |
| chr_1 | g13472 | g13472.t4 | cds | g13472.t4.CDS2 | 30356672 | 30356770 |
| chr_1 | g13472 | g13472.t4 | exon | g13472.t4.exon3 | 30356858 | 30356992 |
| chr_1 | g13472 | g13472.t4 | cds | g13472.t4.CDS3 | 30356858 | 30356992 |
| chr_1 | g13472 | g13472.t4 | TTS | g13472.t4 | 30357281 | 30357281 |
Sequences
>g13472.t4 Gene=g13472 Length=599
ATGATTGCAATAATAAAAAGATTTTTTCTGTTTTTGTTGAGGATTTTACGACGAGCACTA
TGTTGTTTTAGCAGAAAAAGACTTGATTCGGGATCACATTATGAAGATCGATTGGAAGTA
GTTGTGAGCGATAGTCCAAATTATAGTAAAAAATCAAATGTGGTAAGAATTGTTTTTCTC
TTGACTAATGAGTTTTTAAATGACTAAGATTATTTTTGTTTATTTTGTAGATGGAACGTG
ATTGGAATTCGTGGGATGATAAACCGAGGACTGTAGAAGAGCACATTGAACAGTATCGTG
AGAATTTAGTTAAACCGAAGGAACCAGAATCAGTAGATGTTGTTGAGACACTTGATCTAT
TTGCGGATATGACACCACAAATAAAGAAGCAGAAGAAAGTTTTTATAAATCAAGGAGGAA
ACAGCAATAATTTTAATAATTTCTCACGTCTTGAAGCAACTGCAAATGAACTAGAAGACT
GGAATGAGGAAACAAATCAAGCTGGCTGGACTGAAATTGATGATCAAAATACAAAGCAGC
TAATTAGAGAAACGAGAAAGGAAATGCGAGCAGCAAAACATAAGCAAAATTTTAGATAG
>g13472.t4 Gene=g13472 Length=122
MERDWNSWDDKPRTVEEHIEQYRENLVKPKEPESVDVVETLDLFADMTPQIKKQKKVFIN
QGGNSNNFNNFSRLEATANELEDWNEETNQAGWTEIDDQNTKQLIRETRKEMRAAKHKQN
FR
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value |
|---|---|---|---|---|---|---|
| g13472.t4 | PANTHER | PTHR15208 | RECEPTOR-BINDING CANCER ANTIGEN EXPRESSED ON SISO CELLS CANCER ASSOCIATED SURFACE ANTIGEN RCAS1 ESTROGEN RECEPTOR-BINDING FRAGMENT- ASSOCIATED GENE 9 PROTEIN | 3 | 119 | 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.
