General information for g17470.t3
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase .
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.t3 | isoform | g17470.t3 | 13618552 | 13619966 |
| chr_4 | g17470 | g17470.t3 | exon | g17470.t3.exon1 | 13618552 | 13618998 |
| chr_4 | g17470 | g17470.t3 | cds | g17470.t3.CDS1 | 13618552 | 13618998 |
| chr_4 | g17470 | g17470.t3 | exon | g17470.t3.exon2 | 13619056 | 13619555 |
| chr_4 | g17470 | g17470.t3 | cds | g17470.t3.CDS2 | 13619056 | 13619555 |
| chr_4 | g17470 | g17470.t3 | exon | g17470.t3.exon3 | 13619619 | 13619676 |
| chr_4 | g17470 | g17470.t3 | cds | g17470.t3.CDS3 | 13619619 | 13619676 |
| chr_4 | g17470 | g17470.t3 | exon | g17470.t3.exon4 | 13619822 | 13619966 |
| chr_4 | g17470 | g17470.t3 | cds | g17470.t3.CDS4 | 13619822 | 13619965 |
| chr_4 | g17470 | g17470.t3 | TSS | g17470.t3 | 13619991 | 13619991 |
| chr_4 | g17470 | g17470.t3 | TTS | g17470.t3 | NA | NA |
Sequences
>g17470.t3 Gene=g17470 Length=1150
AATGAATTTAAAAATTCTTATTTTATTTTTATTTTTTATAGAGTTTTCTTTCTGTAAGAA
ATTTCCTATTGTTGTTAGTACTTGGGATTTTACAAATTCGACGATAAAAGCTTTTGAAGT
TTTGAATCAAAAAGGAAAAACTGCTATTGATGCAGTAGTTGAAGGTTGTGCAATATGTGA
AGAGCAATGTGAAGGAAGTGTTGGTTGGGGTGGATCACCAAATGAAGAAGGTGAAACGAC
ACTCGATGCAATGGTAATGGATGGAAAAACAATGAAAGTTGGAGCAGTTGGTGGTCTTCG
ATTTATAAAAGAAGCAATTGCTGTTGCACGTCATGTTTTTCAATATACAAAGCATACTTT
ATTAGTTGGTGATCAAGCGACAGAATTTGCTGTCAAAATGGGCTTTGAAAAACAAAATAT
ATCAATGACGAACATTAATGAATATATGGATGATTGGAAAAATAAAAGTTGTCAGCCAAA
TAATTGGATAAATGTCCATCCAGATCCTAGTAAAAATTGCGGTCCTTATACAAAGAATGA
AAATATTGCTGATAATGAAGTTAAAGTAAATTTAATTGATGAAAAAAATCATGATACAAT
TGGAATAATTGCAATTGATGAAGATGGAAATATTGCTGTTGGAACTTCTACAAACGGAAT
GACTTATAAAATACCTGGAAGAGTCGGTGATTCTCCTATTCCTGGATCTGGTGGTTATGC
AGATAATAAAGTAGGAGGTGCAGCAGCAACAGGTGATGGTGATGTAATGATGAGATTTTC
AGCTTCTTTTCTTGCTGTCGAGCTCATGAGGAATGGAAAAACACCACAAGAAGCTGCAGA
ATTGGTCATTGCAAGAATTGGTGAATTTTATCCGGAAAGCAGTGCTGCAATTGTTGTATT
AGATAAAGATGGAAATTATGGATTTGCTTGTCAATTTTTTAGTTATTTTTCAATTTCTAT
TTATCATCCTGAACTAGATAAAGTTAAAATTGAAGAGACAAAATGCAGGCAAATTGGTGA
TCCAATAACTACAACAACTAGCGCTGCATTTAGAATTCATTTTAATAGCATTATTTTGTT
TTTTTATTACATTTTTATTAGGAATGATATAATTAAAGGGAAAGAACTCTTAATAATTAA
AATAGAGTAA
>g17470.t3 Gene=g17470 Length=382
MNLKILILFLFFIEFSFCKKFPIVVSTWDFTNSTIKAFEVLNQKGKTAIDAVVEGCAICE
EQCEGSVGWGGSPNEEGETTLDAMVMDGKTMKVGAVGGLRFIKEAIAVARHVFQYTKHTL
LVGDQATEFAVKMGFEKQNISMTNINEYMDDWKNKSCQPNNWINVHPDPSKNCGPYTKNE
NIADNEVKVNLIDEKNHDTIGIIAIDEDGNIAVGTSTNGMTYKIPGRVGDSPIPGSGGYA
DNKVGGAAATGDGDVMMRFSASFLAVELMRNGKTPQEAAELVIARIGEFYPESSAAIVVL
DKDGNYGFACQFFSYFSISIYHPELDKVKIEETKCRQIGDPITTTTSAAFRIHFNSIILF
FYYIFIRNDIIKGKELLIIKIE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 14 | g17470.t3 | CDD | cd04513 | Glycosylasparaginase | 23 | 315 | 6.61257E-167 |
| 6 | g17470.t3 | Gene3D | G3DSA:3.60.20.30 | (Glycosyl)asparaginase | 199 | 336 | 7.4E-49 |
| 2 | g17470.t3 | PANTHER | PTHR10188:SF6 | N(4)-(BETA-N-ACETYLGLUCOSAMINYL)-L-ASPARAGINASE | 18 | 330 | 1.6E-128 |
| 3 | g17470.t3 | PANTHER | PTHR10188 | L-ASPARAGINASE | 18 | 330 | 1.6E-128 |
| 1 | g17470.t3 | Pfam | PF01112 | Asparaginase | 32 | 318 | 8.9E-83 |
| 9 | g17470.t3 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 10 | g17470.t3 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 4 | - |
| 11 | g17470.t3 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 5 | 13 | - |
| 13 | g17470.t3 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 14 | 18 | - |
| 8 | g17470.t3 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 347 | - |
| 12 | g17470.t3 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 348 | 366 | - |
| 7 | g17470.t3 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 367 | 382 | - |
| 4 | g17470.t3 | SUPERFAMILY | SSF56235 | N-terminal nucleophile aminohydrolases (Ntn hydrolases) | 21 | 323 | 3.54E-89 |
| 5 | g17470.t3 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
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 transcript has been annotated with K01424 (L-asparaginase)
Pathway
- This transcript belongs to the following pathways
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