General information for g17470.t4
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 g17470 is located on chr_4: 13620535..13621917 (- 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 | g17470 | g17470.t4 | TTS | g17470.t4 | 13620459 | 13620459 |
| chr_4 | g17470 | g17470.t4 | isoform | g17470.t4 | 13620535 | 13621227 |
| chr_4 | g17470 | g17470.t4 | exon | g17470.t4.exon1 | 13620535 | 13620891 |
| chr_4 | g17470 | g17470.t4 | cds | g17470.t4.CDS1 | 13620535 | 13620891 |
| chr_4 | g17470 | g17470.t4 | exon | g17470.t4.exon2 | 13620947 | 13621227 |
| chr_4 | g17470 | g17470.t4 | cds | g17470.t4.CDS2 | 13620947 | 13621222 |
| chr_4 | g17470 | g17470.t4 | TSS | g17470.t4 | 13621917 | 13621917 |
Sequences
>g17470.t4 Gene=g17470 Length=638
TATCAATGACAAACATTAATGAATTTATGGATGATTGGAAAAATAAAAGTTGTCAACCTA
ATTACTGGATGAATGTTCTTGATTCTGAACATAAATGTGGTCCTTATGAGAAAAATGAAA
ATATTGCTGGAAATGAAATTAAAGTGACTTTAGTTGATAACAGAAATCATGATACGATTG
GAATGATTGCAATTGATGAAGACGGAAATATTGCTGTTGGAACTTCTACTAATGGATTAA
CTTATAAACTACCTGGAAGAGTCGGTGACACTCCTATTGTTGGATCTGGTGGTTATGCAG
ATAATAAAGTAGGAGGTGCAGCAGCAACAGGTGATGGTGATGTAATGATGAGATTTTCAG
CTTCTTTTCTTGCTGTTGAGCTCATGAGGAATGGAAAAACACCACAAGAAGCTGCAGACT
TGGTTATTGCAAGAATTGCTGAATATTTTCCTGATAGCATAGCTGCAATTGTAGTATTAG
ATAAAGATGGAAATTATGGATCTGCTTGTCAAATTTTTGAATCTTTTCCTATTTCTATTT
ATAATTCTGAACTAGATAAAGTTAAAATTGAAGAGACAAAATGTAGACAAATTAATGAAC
AAATTACAACAACGACTGGAGCTGCATTTAGAATTTAT
>g17470.t4 Gene=g17470 Length=211
MTNINEFMDDWKNKSCQPNYWMNVLDSEHKCGPYEKNENIAGNEIKVTLVDNRNHDTIGM
IAIDEDGNIAVGTSTNGLTYKLPGRVGDTPIVGSGGYADNKVGGAAATGDGDVMMRFSAS
FLAVELMRNGKTPQEAADLVIARIAEYFPDSIAAIVVLDKDGNYGSACQIFESFPISIYN
SELDKVKIEETKCRQINEQITTTTGAAFRIY
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g17470.t4 | Gene3D | G3DSA:3.60.20.30 | (Glycosyl)asparaginase | 57 | 194 | 0 |
| 2 | g17470.t4 | PANTHER | PTHR10188:SF6 | N(4)-(BETA-N-ACETYLGLUCOSAMINYL)-L-ASPARAGINASE | 7 | 188 | 0 |
| 3 | g17470.t4 | PANTHER | PTHR10188 | L-ASPARAGINASE | 7 | 188 | 0 |
| 1 | g17470.t4 | Pfam | PF01112 | Asparaginase | 8 | 186 | 0 |
| 4 | g17470.t4 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 7 | 179 | 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 |
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.
