Gene loci information

Transcript annotation

  • This transcript has been annotated as N(4)-(Beta-N-acetylglucosaminyl)-L-asparaginase .

Parent gene

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.t6 TTS g17470.t6 13620459 13620459
chr_4 g17470 g17470.t6 isoform g17470.t6 13620535 13621889
chr_4 g17470 g17470.t6 exon g17470.t6.exon1 13620535 13620891
chr_4 g17470 g17470.t6 cds g17470.t6.CDS1 13620535 13620891
chr_4 g17470 g17470.t6 exon g17470.t6.exon2 13620947 13621443
chr_4 g17470 g17470.t6 cds g17470.t6.CDS2 13620947 13621443
chr_4 g17470 g17470.t6 exon g17470.t6.exon3 13621522 13621572
chr_4 g17470 g17470.t6 cds g17470.t6.CDS3 13621522 13621572
chr_4 g17470 g17470.t6 exon g17470.t6.exon4 13621740 13621889
chr_4 g17470 g17470.t6 cds g17470.t6.CDS4 13621740 13621887
chr_4 g17470 g17470.t6 TSS g17470.t6 13621917 13621917

Sequences

>g17470.t6 Gene=g17470 Length=1055
CAATGAATTTTAAAATTCTCATTTTATTTTTATTTTTTATTGAACTTTCTTTTTGTAAGA
AATTTCCAATTGTTGTTAACACTTGGGATTTTACAAATGCAACAATTAAAGCTTTTGAAG
TCTTGAATCAAAAAGGAAAAACTGTTGTAATAGTTGAAGGTTGCACAATTTGTGAAGAGC
AGCAATGTGATGGAAGTGTTGGATTTGGTGGATCACCAAATGAAGAAGGTGAAACGACAC
TCGATGCAATGGTAATGGATGGAAAAACAATGAAAGTTGGAGCAGTTGGTGGTCTTCGTT
ACATTAAAGATGCAATTGCTGTTGCACGTCATGTTTTTCAATATACAAAACACACATTAT
TAGTTGGTGATCAAGCGACAGAATTTGCTGTCAAAATGGGCTTTGAAAAACAAAATTTAT
CAATGACAAACATTAATGAATTTATGGATGATTGGAAAAATAAAAGTTGTCAACCTAATT
ACTGGATGAATGTTCTTGATTCTGAACATAAATGTGGTCCTTATGAGAAAAATGAAAATA
TTGCTGGAAATGAAATTAAAGTGACTTTAGTTGATAACAGAAATCATGATACGATTGGAA
TGATTGCAATTGATGAAGACGGAAATATTGCTGTTGGAACTTCTACTAATGGATTAACTT
ATAAACTACCTGGAAGAGTCGGTGACACTCCTATTGTTGGATCTGGTGGTTATGCAGATA
ATAAAGTAGGAGGTGCAGCAGCAACAGGTGATGGTGATGTAATGATGAGATTTTCAGCTT
CTTTTCTTGCTGTTGAGCTCATGAGGAATGGAAAAACACCACAAGAAGCTGCAGACTTGG
TTATTGCAAGAATTGCTGAATATTTTCCTGATAGCATAGCTGCAATTGTAGTATTAGATA
AAGATGGAAATTATGGATCTGCTTGTCAAATTTTTGAATCTTTTCCTATTTCTATTTATA
ATTCTGAACTAGATAAAGTTAAAATTGAAGAGACAAAATGTAGACAAATTAATGAACAAA
TTACAACAACGACTGGAGCTGCATTTAGAATTTAT

>g17470.t6 Gene=g17470 Length=351
MNFKILILFLFFIELSFCKKFPIVVNTWDFTNATIKAFEVLNQKGKTVVIVEGCTICEEQ
QCDGSVGFGGSPNEEGETTLDAMVMDGKTMKVGAVGGLRYIKDAIAVARHVFQYTKHTLL
VGDQATEFAVKMGFEKQNLSMTNINEFMDDWKNKSCQPNYWMNVLDSEHKCGPYEKNENI
AGNEIKVTLVDNRNHDTIGMIAIDEDGNIAVGTSTNGLTYKLPGRVGDTPIVGSGGYADN
KVGGAAATGDGDVMMRFSASFLAVELMRNGKTPQEAADLVIARIAEYFPDSIAAIVVLDK
DGNYGSACQIFESFPISIYNSELDKVKIEETKCRQINEQITTTTGAAFRIY

Protein features from InterProScan

Transcript Database ID Name Start End E.value
12 g17470.t6 CDD cd04513 Glycosylasparaginase 23 320 4.96532E-163
6 g17470.t6 Gene3D G3DSA:3.60.20.30 (Glycosyl)asparaginase 197 334 3.3E-49
2 g17470.t6 PANTHER PTHR10188:SF6 N(4)-(BETA-N-ACETYLGLUCOSAMINYL)-L-ASPARAGINASE 18 328 2.4E-132
3 g17470.t6 PANTHER PTHR10188 L-ASPARAGINASE 18 328 2.4E-132
1 g17470.t6 Pfam PF01112 Asparaginase 30 326 2.0E-78
8 g17470.t6 Phobius SIGNAL_PEPTIDE Signal peptide region 1 18 -
9 g17470.t6 Phobius SIGNAL_PEPTIDE_N_REGION N-terminal region of a signal peptide. 1 4 -
10 g17470.t6 Phobius SIGNAL_PEPTIDE_H_REGION Hydrophobic region of a signal peptide. 5 13 -
11 g17470.t6 Phobius SIGNAL_PEPTIDE_C_REGION C-terminal region of a signal peptide. 14 18 -
7 g17470.t6 Phobius NON_CYTOPLASMIC_DOMAIN Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. 19 351 -
4 g17470.t6 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 21 319 2.16E-86
5 g17470.t6 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

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.

Raw TPM values