Gene loci information

Transcript annotation

  • This transcript has been annotated as Probable isoaspartyl peptidase/L-asparaginase GA20639.

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_1 g12196 g12196.t1 TSS g12196.t1 21686372 21686372
chr_1 g12196 g12196.t1 isoform g12196.t1 21686441 21687876
chr_1 g12196 g12196.t1 exon g12196.t1.exon1 21686441 21686486
chr_1 g12196 g12196.t1 cds g12196.t1.CDS1 21686441 21686486
chr_1 g12196 g12196.t1 exon g12196.t1.exon2 21686545 21687029
chr_1 g12196 g12196.t1 cds g12196.t1.CDS2 21686545 21687029
chr_1 g12196 g12196.t1 exon g12196.t1.exon3 21687085 21687208
chr_1 g12196 g12196.t1 cds g12196.t1.CDS3 21687085 21687208
chr_1 g12196 g12196.t1 exon g12196.t1.exon4 21687367 21687602
chr_1 g12196 g12196.t1 cds g12196.t1.CDS4 21687367 21687602
chr_1 g12196 g12196.t1 exon g12196.t1.exon5 21687666 21687737
chr_1 g12196 g12196.t1 cds g12196.t1.CDS5 21687666 21687737
chr_1 g12196 g12196.t1 exon g12196.t1.exon6 21687826 21687876
chr_1 g12196 g12196.t1 cds g12196.t1.CDS6 21687826 21687876
chr_1 g12196 g12196.t1 TTS g12196.t1 21687955 21687955

Sequences

>g12196.t1 Gene=g12196 Length=1014
ATGTCAAAAGAGCCCATACCCATTTGCTTGGTTCATGGTGGTGCTGGTGATATTCCTGCT
AGTCGAGTTCAAGCAAAATTGAATGGAGTAAAGCAAGCTGCTCAGATCGGATATCATCAT
CTTATAAACAATGGCAGTGCTCTGGAAGCAGTAGAATTAGCAGTTATTCATATGGAACTT
GATCCTGTTTTTAATGCTGGTTATGGAAGTGTACTAACAACTGAAGGTACGGTTGAAATG
GAAGCTTCAGTAATGGATGGAAAAACTTTAAAAGTCGGATGTGTCACTGGTGTTGTGGAT
ATTATGCATCCTATTTCAGCTGCTATTCGTGTTATGGAGAAAACTCCACACAACTTTTTA
GGCTTTCATGGAGCAAATAGATTTATAAAACAGCAAGAATTTGAACTTCTTAAGCCTGGA
GCATTGATAACAGATCAAGCAAAAGAAGCACTTGAACATTGGAAAGAGCAACAAAAAAAT
GGTGGATTTAAAGGTTTTGCAAAAACTGAAATTGGTCATAATCAGCATGAAAGAGGTGAG
ACGATTGGAGCTGTTGCGATCGATATTTTGGGAAACATTGCAGTTGCTACATCAACTGGT
GGAATTACTGGAAAATTACCGGGTCGTATTGGTGATACACCTTTGCTGGGTTGTGGTACT
TATTGTGATAATAGATTTGGAGGGGTTTCAACTACAGGCCATGGAGAAACAATCATGAAA
AGCTGCTTAGCTCATGATATCATAAAACGTATTGACTATCTTGGTGAAGATGCTCAAACT
GCAACTGAAACAGCATGCAACAATATGACTGAGAGGTTTTTCGGGAAAGGTGGAGCAATT
ACTATCGACAAAGACGGTAATGTTGGAATTTCATTTACATCTAAAAGAATGGCCTGGGCT
TATCAAAAATTAAACACAATGCATTATGGCATCGAAAAGGATGATCATTTTGAACAGATT
GTGGATCAAAATGAAGTTGACTCATTAGTCAATGTAGCTGGAAAATCTTCCTAA

>g12196.t1 Gene=g12196 Length=337
MSKEPIPICLVHGGAGDIPASRVQAKLNGVKQAAQIGYHHLINNGSALEAVELAVIHMEL
DPVFNAGYGSVLTTEGTVEMEASVMDGKTLKVGCVTGVVDIMHPISAAIRVMEKTPHNFL
GFHGANRFIKQQEFELLKPGALITDQAKEALEHWKEQQKNGGFKGFAKTEIGHNQHERGE
TIGAVAIDILGNIAVATSTGGITGKLPGRIGDTPLLGCGTYCDNRFGGVSTTGHGETIMK
SCLAHDIIKRIDYLGEDAQTATETACNNMTERFFGKGGAITIDKDGNVGISFTSKRMAWA
YQKLNTMHYGIEKDDHFEQIVDQNEVDSLVNVAGKSS

Protein features from InterProScan

Transcript Database ID Name Start End E.value
6 g12196.t1 CDD cd04702 ASRGL1_like 7 303 0
5 g12196.t1 Gene3D G3DSA:3.60.20.30 (Glycosyl)asparaginase 181 321 0
2 g12196.t1 PANTHER PTHR10188 L-ASPARAGINASE 10 315 0
3 g12196.t1 PANTHER PTHR10188:SF37 SI:CH211-256M1.8 10 315 0
1 g12196.t1 Pfam PF01112 Asparaginase 8 309 0
4 g12196.t1 SUPERFAMILY SSF56235 N-terminal nucleophile aminohydrolases (Ntn hydrolases) 22 314 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

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