General information for g4301.t4
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Beta-ureidopropionase.
Parent gene
- The parent gene g4301 is located on chr_2: 1092237..1092949 (+ 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_2 | g4301 | g4301.t4 | TSS | g4301.t4 | 1091561 | 1091561 |
| chr_2 | g4301 | g4301.t4 | isoform | g4301.t4 | 1091608 | 1092949 |
| chr_2 | g4301 | g4301.t4 | exon | g4301.t4.exon1 | 1091608 | 1091714 |
| chr_2 | g4301 | g4301.t4 | exon | g4301.t4.exon2 | 1091772 | 1092034 |
| chr_2 | g4301 | g4301.t4 | exon | g4301.t4.exon3 | 1092123 | 1092521 |
| chr_2 | g4301 | g4301.t4 | cds | g4301.t4.CDS1 | 1092219 | 1092521 |
| chr_2 | g4301 | g4301.t4 | exon | g4301.t4.exon4 | 1092572 | 1092949 |
| chr_2 | g4301 | g4301.t4 | cds | g4301.t4.CDS2 | 1092572 | 1092949 |
| chr_2 | g4301 | g4301.t4 | TTS | g4301.t4 | 1093079 | 1093079 |
Sequences
>g4301.t4 Gene=g4301 Length=1147
ATGGCTGAAAAAATTGAATTTAAAAATCTGGAAGAATCGTTCAAAAAGCATTTGCCAGAA
AATGAACTAAAGGAAGTCAAGAGAATTTTATATGGACGAGCAGATGATCATGAACTTTCA
ATTAATGATGCTGCACTAGCAATTGCAGCTGCAAATAATTTCGAAATCAAGTCATACAAC
TTTTCTGCTGCCAAAGAAGACCTTCGAAAACCGAAAATTGTAAAAATAGGAGCTGTACAA
AATTCAATTGCTGCTCTTACAACCGATCCTATTCATATTCAACGAAATAAATTACATGAG
AAAATTGGAAAAATTATTGATGCAGCGGGTGCAGATAATGTAAATGTGCTGTGCTTACAG
GAGGCTTGGATGTACACGTGAAAAACATCCATGGTGTGAATTTGCTGAAAATGCTGAAAA
TGGACCAACAACAGAATTTCTTAAAAATTATGCTAGAAAATATAATATGGTCATTGTGTC
ACCAATACTTGAACGTGATGAAGATCGCGGATCGGATATTATTTGGAATACAGCTGTTGT
TATCTCAAATTCTGGAAATGTAATGGGAAAGCATCGTAAAAATCATATTCCACGTGTTGG
TGATTTCAATGAGTCAACATATTATTTTGAGGGCAATACTGGTCATCCAGTTTTTGAGAC
CCAGTTTGGAAAAATCGCAATAAATATTTGCTATGGTCGTCATCATCCTCAAAACTGGAT
GATGTTTGGCTTGAACGGCGCGGAAATTGTCTTCAATCCATCTGCTACGATTGGAGCTTT
ATCGGAACCATTATGGGGCATTGAAGCCAGAAATGCAGCAATTGCTAATTCTTATTTTTC
TGTCGCAATCAACCGTGTTGGAACTGAAACTTTCCCAAATGAGTTCACTTCAGCAGATGG
AAAGCCTGCGCACAAAGAATTTGGACCATTTTACGGCTCATCTTATGTTGCTGCACCTGA
TGGTTCTCGTACGCCTAGCCTTTCACGTGACAGTGATGGACTTTTAATCGCCCAATTGGA
CCTTAATCTTTGTCGACAAATTAAAGATAAATGGGGTTTTAGAATGACACAACGATTATC
ATTGTATGGCGAGAAATTTACTGAAGCAAGCAAATTTGATTACAAACCACAAATTATAAA
AGAATAA
>g4301.t4 Gene=g4301 Length=226
MVIVSPILERDEDRGSDIIWNTAVVISNSGNVMGKHRKNHIPRVGDFNESTYYFEGNTGH
PVFETQFGKIAINICYGRHHPQNWMMFGLNGAEIVFNPSATIGALSEPLWGIEARNAAIA
NSYFSVAINRVGTETFPNEFTSADGKPAHKEFGPFYGSSYVAAPDGSRTPSLSRDSDGLL
IAQLDLNLCRQIKDKWGFRMTQRLSLYGEKFTEASKFDYKPQIIKE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 5 | g4301.t4 | Gene3D | G3DSA:3.60.110.10 | - | 1 | 226 | 0.000 |
| 2 | g4301.t4 | PANTHER | PTHR43674 | NITRILASE C965.09-RELATED | 1 | 225 | 0.000 |
| 3 | g4301.t4 | PANTHER | PTHR43674:SF2 | BETA-UREIDOPROPIONASE | 1 | 225 | 0.000 |
| 1 | g4301.t4 | Pfam | PF00795 | Carbon-nitrogen hydrolase | 1 | 193 | 0.000 |
| 6 | g4301.t4 | ProSiteProfiles | PS50263 | Carbon-nitrogen hydrolase domain profile. | 1 | 186 | 37.602 |
| 4 | g4301.t4 | SUPERFAMILY | SSF56317 | Carbon-nitrogen hydrolase | 1 | 209 | 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. There were no conditions that were differentially expressed