General information for g17468.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Putative N(4)-(beta-N-acetylglucosaminyl)-L-asparaginase GH22932.
Parent gene
- The parent gene g17468 is located on chr_4: 13613652..13615056 (- 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_4 | g17468 | g17468.t1 | TTS | g17468.t1 | 13613486 | 13613486 |
| chr_4 | g17468 | g17468.t1 | isoform | g17468.t1 | 13613652 | 13614422 |
| chr_4 | g17468 | g17468.t1 | exon | g17468.t1.exon1 | 13613652 | 13614059 |
| chr_4 | g17468 | g17468.t1 | cds | g17468.t1.CDS1 | 13613652 | 13614059 |
| chr_4 | g17468 | g17468.t1 | exon | g17468.t1.exon2 | 13614117 | 13614422 |
| chr_4 | g17468 | g17468.t1 | cds | g17468.t1.CDS2 | 13614117 | 13614422 |
| chr_4 | g17468 | g17468.t1 | TSS | g17468.t1 | NA | NA |
Sequences
>g17468.t1 Gene=g17468 Length=714
ATGGGCTTTGAAAAACAAAATTTATCAATGACGAACATTAATGAATATATGGATGATTGG
AAAAATAAAAGTTGTCAGCCAAATAATTGGATAAATGTTCATCCAGATCCTAGTAAAAAT
TGCGGTCCTTATACAAAGAATGAAAATATTGCTGATAATGAAGTTAAAGTAAATTTAATT
GATGAAAAAAATCATGATACAATTGGAATAATTGCAATTGATGAAGATGAAAATATTGCT
GTTGGAACTTCTACGAACGGAATGACTTATAAAATACCTGGAAGAGTCGGTGATTCTCCT
ATTCCTGGATCTGGCGGTTATGCAGATAATAAAGTAGGTGGTGCAGCAGCAACAGGTGAT
GGTGATGTAATGATGAGATTTTCAGCTTCATTTCTTGCTGTTGAGCTCATGAGAAATGGA
AAAACACCACAAGAAGCTGCTGAATTGGTTATTGCAAGAATTGGTGAATTTTATCCAGAA
AGCAGTGCTGCAATTGTTGTATTAGATAAAGATGGAAATTATGGATTTGCTTGTCAAATT
TTTAGTTATTTTTCAATTTCTATTTATCATCCTGAACTAGATAAAGTTAAAATTGAAGAG
ACAAAATGCAGGCAAATTGGTGATCCAATAACTACAACAACTAGCGCTGCATTTAGAATT
CATTTTAATAGCATTATTTTGTTTTTTATTACATTTTTATTAGGAATGATATAA
>g17468.t1 Gene=g17468 Length=237
MGFEKQNLSMTNINEYMDDWKNKSCQPNNWINVHPDPSKNCGPYTKNENIADNEVKVNLI
DEKNHDTIGIIAIDEDENIAVGTSTNGMTYKIPGRVGDSPIPGSGGYADNKVGGAAATGD
GDVMMRFSASFLAVELMRNGKTPQEAAELVIARIGEFYPESSAAIVVLDKDGNYGFACQI
FSYFSISIYHPELDKVKIEETKCRQIGDPITTTTSAAFRIHFNSIILFFITFLLGMI
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g17468.t1 | Gene3D | G3DSA:3.60.20.30 | (Glycosyl)asparaginase | 67 | 204 | 1.5E-48 |
| 2 | g17468.t1 | PANTHER | PTHR10188:SF6 | N(4)-(BETA-N-ACETYLGLUCOSAMINYL)-L-ASPARAGINASE | 1 | 198 | 2.1E-68 |
| 3 | g17468.t1 | PANTHER | PTHR10188 | L-ASPARAGINASE | 1 | 198 | 2.1E-68 |
| 1 | g17468.t1 | Pfam | PF01112 | Asparaginase | 4 | 189 | 2.5E-44 |
| 7 | g17468.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 1 | 215 | - |
| 8 | g17468.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 216 | 236 | - |
| 6 | g17468.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 237 | 237 | - |
| 4 | g17468.t1 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 1 | 191 | 1.18E-47 |
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 |
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