General information for g12196.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable isoaspartyl peptidase/L-asparaginase GA20639.
Parent gene
- The parent gene g12196 is located on chr_1: 21687824..21696078 (+ 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 | g12196 | g12196.t4 | TSS | g12196.t4 | 21686372 | 21686372 |
| chr_1 | g12196 | g12196.t4 | isoform | g12196.t4 | 21686441 | 21687371 |
| chr_1 | g12196 | g12196.t4 | exon | g12196.t4.exon1 | 21686441 | 21686486 |
| chr_1 | g12196 | g12196.t4 | cds | g12196.t4.CDS1 | 21686441 | 21686486 |
| chr_1 | g12196 | g12196.t4 | exon | g12196.t4.exon2 | 21686545 | 21687029 |
| chr_1 | g12196 | g12196.t4 | cds | g12196.t4.CDS2 | 21686545 | 21687029 |
| chr_1 | g12196 | g12196.t4 | exon | g12196.t4.exon3 | 21687085 | 21687208 |
| chr_1 | g12196 | g12196.t4 | cds | g12196.t4.CDS3 | 21687085 | 21687208 |
| chr_1 | g12196 | g12196.t4 | exon | g12196.t4.exon4 | 21687367 | 21687371 |
| chr_1 | g12196 | g12196.t4 | cds | g12196.t4.CDS4 | 21687367 | 21687371 |
| chr_1 | g12196 | g12196.t4 | TTS | g12196.t4 | 21687955 | 21687955 |
Sequences
>g12196.t4 Gene=g12196 Length=660
ATGTCAAAAGAGCCCATACCCATTTGCTTGGTTCATGGTGGTGCTGGTGATATTCCTGCT
AGTCGAGTTCAAGCAAAATTGAATGGAGTAAAGCAAGCTGCTCAGATCGGATATCATCAT
CTTATAAACAATGGCAGTGCTCTGGAAGCAGTAGAATTAGCAGTTATTCATATGGAACTT
GATCCTGTTTTTAATGCTGGTTATGGAAGTGTACTAACAACTGAAGGTACGGTTGAAATG
GAAGCTTCAGTAATGGATGGAAAAACTTTAAAAGTCGGATGTGTCACTGGTGTTGTGGAT
ATTATGCATCCTATTTCAGCTGCTATTCGTGTTATGGAGAAAACTCCACACAACTTTTTA
GGCTTTCATGGAGCAAATAGATTTATAAAACAGCAAGAATTTGAACTTCTTAAGCCTGGA
GCATTGATAACAGATCAAGCAAAAGAAGCACTTGAACATTGGAAAGAGCAACAAAAAAAT
GGTGGATTTAAAGGTTTTGCAAAAACTGAAATTGGTCATAATCAGCATGAAAGAGGTGAG
ACGATTGGAGCTGTTGCGATCGATATTTTGGGAAACATTGCAGTTGCTACATCAACTGGT
GGAATTACTGGAAAATTACCGGGTCGTATTGGTGATACACCTTTGCTGGGTTGTGGTACT
>g12196.t4 Gene=g12196 Length=220
MSKEPIPICLVHGGAGDIPASRVQAKLNGVKQAAQIGYHHLINNGSALEAVELAVIHMEL
DPVFNAGYGSVLTTEGTVEMEASVMDGKTLKVGCVTGVVDIMHPISAAIRVMEKTPHNFL
GFHGANRFIKQQEFELLKPGALITDQAKEALEHWKEQQKNGGFKGFAKTEIGHNQHERGE
TIGAVAIDILGNIAVATSTGGITGKLPGRIGDTPLLGCGT
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g12196.t4 | CDD | cd04702 | ASRGL1_like | 7 | 220 | 0 |
| 5 | g12196.t4 | Gene3D | G3DSA:3.60.20.30 | (Glycosyl)asparaginase | 181 | 220 | 0 |
| 2 | g12196.t4 | PANTHER | PTHR10188 | L-ASPARAGINASE | 10 | 220 | 0 |
| 3 | g12196.t4 | PANTHER | PTHR10188:SF37 | SI:CH211-256M1.8 | 10 | 220 | 0 |
| 1 | g12196.t4 | Pfam | PF01112 | Asparaginase | 8 | 220 | 0 |
| 4 | g12196.t4 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 22 | 220 | 0 |
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:0016787 | hydrolase activity | MF |
| GO:0004067 | asparaginase activity | 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.
