Gene loci information

Transcript annotation

  • This transcript has been annotated as Putative Beta-ureidopropionase.

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_2 g4303 g4303.t9 TSS g4303.t9 1094367 1094367
chr_2 g4303 g4303.t9 isoform g4303.t9 1094401 1095700
chr_2 g4303 g4303.t9 exon g4303.t9.exon1 1094401 1094767
chr_2 g4303 g4303.t9 cds g4303.t9.CDS1 1094401 1094767
chr_2 g4303 g4303.t9 exon g4303.t9.exon2 1094847 1094941
chr_2 g4303 g4303.t9 cds g4303.t9.CDS2 1094847 1094941
chr_2 g4303 g4303.t9 exon g4303.t9.exon3 1094999 1095052
chr_2 g4303 g4303.t9 cds g4303.t9.CDS3 1094999 1095052
chr_2 g4303 g4303.t9 exon g4303.t9.exon4 1095145 1095700
chr_2 g4303 g4303.t9 cds g4303.t9.CDS4 1095145 1095150
chr_2 g4303 g4303.t9 TTS g4303.t9 1095691 1095691

Sequences

>g4303.t9 Gene=g4303 Length=1072
ATGTCTGCACCATTTAGTCTCAAAACATTGGAAGATTGCCTTAAGAATGTTCCAGCTGAT
GACTTAAAAGATTTAAAGACTCATATTTATGGTCGATCAAATGATAATGAGTTGCCAGTC
TCAACAAAGGCACAAAAAATTGCAAAAGACAACACTTTTGTAATTAAAAGTTATAAATTT
GAAGCTATTAAAGAAGATCTTCGTAAGCCAAGAGTTGTCAGAATTGGAGCTATCCAAACA
TCTCTTGCAGCCCCTACAACTGAACCGATCGGTGTACAACGTCAAAAGATTTTTGATAAA
GTTGCGAAAATCATCGAAGCTGCAGCACTTGAAAATGTGAATATATTGTGCCTCCAAGAG
CTATGGTATCTTCCTTATGTTTTCTGTACACGTGAAAAGTATCCATGGTGTGAATTTGCT
GAAAATCCAGAGTCTGGAGCTGCTGTAACTTTCTTATCAACTTTTGCTAGAAAATATAAT
ATGGTCATTGTGTCACCAATACTTGAACGTGATGAATGGTGATTTCAATGAGTCAACATA
TTATTTTGAGGGCAACACTGGTCATCCTGTTTTTGAAACAAAATATGGCAGACTTGCAAT
AAATATTTGCTATGGTCGTCATCATCCTCAAAACTGGATGATGTTTGGCTTGAACGGCGC
GGAAATTGTCTTCAATCCATCAGCTGAAATTGGAGGAAGCTTAAGTGACCGAATGTGGTT
TATTGAGGGACGTGCTGCAGCAGTTGCAAACTCTTTTTTCACTATTACAATCAATCGTGT
CGGTACAGAAGTTTTTGCAAATGAATTTACATCAGCTGATGGGAAGAAAGCACATAATGA
TATGGGGCCATTTTATGGCAGTGCATATCTCGCCACACCTGAAGGAATGAGAACACCCGG
CATGCCTAGAGACAGTGATGGTTTACTGATTTCTGAAGTTGATTTAAATGAATGTCGTCA
ATCGAGAGATTTACATACATTTAGAATGTGTCAACGACTTCCGATTTATGCTGAAGGTTT
CACCAGAGCTACAAAATTGGACTTTAAGCCACAAATTATTCGAGAAATTTAA

>g4303.t9 Gene=g4303 Length=173
MSAPFSLKTLEDCLKNVPADDLKDLKTHIYGRSNDNELPVSTKAQKIAKDNTFVIKSYKF
EAIKEDLRKPRVVRIGAIQTSLAAPTTEPIGVQRQKIFDKVAKIIEAAALENVNILCLQE
LWYLPYVFCTREKYPWCEFAENPESGAAVTFLSTFARKYNMVIVSPILERDEW

Protein features from InterProScan

Transcript Database ID Name Start End E.value
5 g4303.t9 Gene3D G3DSA:3.60.110.10 - 3 173 0.000
2 g4303.t9 PANTHER PTHR43674 NITRILASE C965.09-RELATED 7 172 0.000
3 g4303.t9 PANTHER PTHR43674:SF2 BETA-UREIDOPROPIONASE 7 172 0.000
1 g4303.t9 Pfam PF00795 Carbon-nitrogen hydrolase 93 170 0.000
6 g4303.t9 ProSiteProfiles PS50263 Carbon-nitrogen hydrolase domain profile. 73 173 13.598
4 g4303.t9 SUPERFAMILY SSF56317 Carbon-nitrogen hydrolase 67 171 0.000

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:0006807 nitrogen compound metabolic process BP

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.

Raw TPM values