General information for g6489.t9
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Dihydropyrimidinase.
Parent gene
- The parent gene g6489 is located on chr_2: 17243932..17249327 (+ 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 | g6489 | g6489.t9 | TSS | g6489.t9 | 17242382 | 17242382 |
| chr_2 | g6489 | g6489.t9 | isoform | g6489.t9 | 17242757 | 17243932 |
| chr_2 | g6489 | g6489.t9 | exon | g6489.t9.exon1 | 17242757 | 17242767 |
| chr_2 | g6489 | g6489.t9 | exon | g6489.t9.exon2 | 17242829 | 17243577 |
| chr_2 | g6489 | g6489.t9 | cds | g6489.t9.CDS1 | 17242871 | 17243577 |
| chr_2 | g6489 | g6489.t9 | exon | g6489.t9.exon3 | 17243645 | 17243932 |
| chr_2 | g6489 | g6489.t9 | cds | g6489.t9.CDS2 | 17243645 | 17243690 |
| chr_2 | g6489 | g6489.t9 | TTS | g6489.t9 | 17244436 | 17244436 |
Sequences
>g6489.t9 Gene=g6489 Length=1048
ACTATGGATTGCATTGTGCAATAACATGGTGGAGTGTGGAAGTTAATAAAGATATGGAAA
TTTTGGCAAAAGAGAAAGGAATCAGTTCATTTAAAATGTTTATGGCTTATAAAGGATTAT
TTATGCTTGATGATAGTGAACTTTATGAAACATTTGAACGTTGTCGAGATATAGGAGCAT
TAGCGCAAGTCCATGCTGAGAATGGAGACATTATTGCGAAAAATACGAAAAAATTACTTG
AAAATGGTGTTAAAGGACCAGAAGGCCATCAACTTTCACGAACAGAAGACGTTGAAGCTG
AAGCTACAAATCGAGCATGTGTCATTGCTCATCAAACAAATTGTCCACTTTATGTTGTTC
ATGTTATGTCAATTTCAGCAGCAGAAGAAGTCGCAAGAGCGCGTGAACGATGGGGAAAGA
ATTTTATTTTTGGAGAAACTTTAGCAGCTGCTCTTGGTGCAAGCGGTGAAGAATATTACG
ATAAATGTTGGCATCATGCAGCTGCTCATGTTTTATCACCTCCATTGCGACCGAGAAAAG
AAACACGTGAAGTTTTAATGAAAATGCTAGCAAATGATGATCTTCAATCTACTGGTTCTG
ATAATTGTACTTTTAACAAGAAGCAGAAGGAACTTGGACTTGATGATTTTTCAAAAATTC
CTAATGGTGTAAATGGCGTGGAAGATCGAATGAGTGTCATTTGGGAAAAAGGTGTGCATG
CTGGAATTTTTGATCCAAAGAAATTTGTTGCTATTACTTCTGTGCAGCGAAAATATTCAA
TCTATATCCAAAGAAAGGAAGTTTGACAGTTGGAGCTGATGCTGATATTGTCATCTGGAA
TTATAAAGATACTAGAACTATTTCAGTTAAAACACATCATCATGCATGCGATTTTAATAT
TTTTGAAGGAATGGTTTGTCATGGTGTACCTGAAATTGTCATTGTTGGCGGAAAAATTTG
TGTCCGTGATGGAAAATTGAGTGTTACTCCCGGATCAGGAAAATTTTTACCAAGAAATGC
TTTTAATACGTTTATTTTTAAATCATAA
>g6489.t9 Gene=g6489 Length=250
MEILAKEKGISSFKMFMAYKGLFMLDDSELYETFERCRDIGALAQVHAENGDIIAKNTKK
LLENGVKGPEGHQLSRTEDVEAEATNRACVIAHQTNCPLYVVHVMSISAAEEVARARERW
GKNFIFGETLAAALGASGEEYYDKCWHHAAAHVLSPPLRPRKETREVLMKMLANDDLQST
GSDNCTFNKKQKELGLDDFSKIPNGVNGVEDRMSVIWEKGVHAGIFDPKKFVAITSVQRK
YSIYIQRKEV
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g6489.t9 | Coils | Coil | Coil | 245 | 250 | - |
| 5 | g6489.t9 | Gene3D | G3DSA:3.20.20.140 | - | 1 | 247 | 1.0E-79 |
| 2 | g6489.t9 | PANTHER | PTHR11647 | HYDRANTOINASE/DIHYDROPYRIMIDINASE FAMILY MEMBER | 1 | 239 | 2.3E-109 |
| 3 | g6489.t9 | PANTHER | PTHR11647:SF50 | DIHYDROPYRIMIDINASE | 1 | 239 | 2.3E-109 |
| 1 | g6489.t9 | Pfam | PF01979 | Amidohydrolase family | 20 | 237 | 6.9E-6 |
| 4 | g6489.t9 | SUPERFAMILY | SSF51556 | Metallo-dependent hydrolases | 4 | 237 | 3.29E-62 |
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 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