General information for g1309.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Probable allantoinase 1.
Parent gene
- The parent gene g1309 is located on chr_3: 9502264..9504245 (+ 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_3 | g1309 | g1309.t1 | TSS | g1309.t1 | 9502234 | 9502234 |
| chr_3 | g1309 | g1309.t1 | isoform | g1309.t1 | 9502264 | 9504245 |
| chr_3 | g1309 | g1309.t1 | exon | g1309.t1.exon1 | 9502264 | 9502443 |
| chr_3 | g1309 | g1309.t1 | cds | g1309.t1.CDS1 | 9502264 | 9502443 |
| chr_3 | g1309 | g1309.t1 | exon | g1309.t1.exon2 | 9502527 | 9502672 |
| chr_3 | g1309 | g1309.t1 | cds | g1309.t1.CDS2 | 9502527 | 9502672 |
| chr_3 | g1309 | g1309.t1 | exon | g1309.t1.exon3 | 9503050 | 9503311 |
| chr_3 | g1309 | g1309.t1 | cds | g1309.t1.CDS3 | 9503050 | 9503311 |
| chr_3 | g1309 | g1309.t1 | exon | g1309.t1.exon4 | 9503370 | 9504245 |
| chr_3 | g1309 | g1309.t1 | cds | g1309.t1.CDS4 | 9503370 | 9504245 |
| chr_3 | g1309 | g1309.t1 | TTS | g1309.t1 | 9504329 | 9504329 |
Sequences
>g1309.t1 Gene=g1309 Length=1464
ATGGAAACTGTAGAATTAGATTCATTATTTCTTAGTAAAAGAATATTGGTGAATATTGAT
GAGTGCAAAGACTTTATATCAGGTGGAATTTTAGTTTCAAATGTCGATGGAATCATAAAA
CGAATTTTTACGTCACAGCAAGAAATAAATTCTTGGATGTTTGGTGCACACGGAGCTGAG
GTCTATGATTTTGGTGAGAAAGTTATTATGAGCGGTTTAATTGATGCCAATGTAAACATT
TGTTCGGGCGGTGATTGTGAAGATTTTTGTTCAATAACAAAAGCGGCTGGTGCTGGTGGA
TATACATGCATTGTTGATAATCCTTTAACATCAAAACCACCAACAACGACATTAAAGAAT
CTTAAAGATAAAATCACAGAAGCAAGAAAGAAAAATTCTCTTCATATTGATGTTGCATTT
TGGGGTGGAGTAATAGCAGACAACCATGAAGAGCTCTTGCCTATGGCTAACCTTGGTGTG
TGTGGATTTAAAGGAGCACTTAACTCGAGTGATTGTACTTTACATTTGAATAAGGAAAGC
CTAAAGAGTGCCTTAGAGACACTTGAAGAAACAAATTGTGTGTTTGCTATCAAATCAAAT
CTTGATGGAAAATCAGCTGATGGCACATGCAGTAAAGAATATCAATCGTTTCTTGCACTA
AATCCAGCTTCAATTGAACGAGCTGGCGTTGAAATTGTCATTGAACTCATAAAACAGCAT
AAAATGCATATCCATCTTACCGACATTTCATCTGCTGAATGTCTTCCATTAATTTCCAAA
TATAATAGCCAAAAAACGTCAAAACAGTCAACACTTTCAATTGAAACTTCATACCCATAT
TTAACTTTGACATCTGATGAAATTTCAAATGGTAAAACTGAGAACAAATGCATGCCACCA
ATACGAAATGCAAACAATAAAAGCAAGTTGTGGGAAGCAATGAAATGTTATGAATTTAGC
AATATTTCAAGCAGTCATATGGCAAGCACTATTAAATCAAAATGTCTCATTGGTGGAAGA
AATCGTGGAAATTTTATTGAAGCATCTTTTGGTATTTCTTCGTTGCAATTTGGTCTACCA
ATATTTTGGACAGAATGTCAGAAAAACAGCATGAGCATTCATGATGTTCATCGTTTTATG
AGTTATCATCCAGCAAAGCTTTGTGGACTGGATAAAAATAAAGGATTACTAAAAGTCGGT
TATGATGCAGATTTTTGTATTTGGGATCCATCAGAAGAATGGACAATAACAAAAGAAGCA
GATTTATTGAAAAATAAAACATCGCCATATTATGGTATGGTTGTTAAAGGGAGAGTTTAT
GCCACTGTTGTGCGCGGATTCTTTGTTTATGATGGAAATCATCCGAATGATTTTGACGAG
GCGATTGGCACGATTATATTGAAAAAACCTATGAAGCGATCAGAAAGGAGACTTTTATTA
GATGATGACGATGAGACTGAATGA
>g1309.t1 Gene=g1309 Length=487
METVELDSLFLSKRILVNIDECKDFISGGILVSNVDGIIKRIFTSQQEINSWMFGAHGAE
VYDFGEKVIMSGLIDANVNICSGGDCEDFCSITKAAGAGGYTCIVDNPLTSKPPTTTLKN
LKDKITEARKKNSLHIDVAFWGGVIADNHEELLPMANLGVCGFKGALNSSDCTLHLNKES
LKSALETLEETNCVFAIKSNLDGKSADGTCSKEYQSFLALNPASIERAGVEIVIELIKQH
KMHIHLTDISSAECLPLISKYNSQKTSKQSTLSIETSYPYLTLTSDEISNGKTENKCMPP
IRNANNKSKLWEAMKCYEFSNISSSHMASTIKSKCLIGGRNRGNFIEASFGISSLQFGLP
IFWTECQKNSMSIHDVHRFMSYHPAKLCGLDKNKGLLKVGYDADFCIWDPSEEWTITKEA
DLLKNKTSPYYGMVVKGRVYATVVRGFFVYDGNHPNDFDEAIGTIILKKPMKRSERRLLL
DDDDETE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g1309.t1 | Gene3D | G3DSA:3.20.20.140 | - | 13 | 452 | 0 |
| 2 | g1309.t1 | PANTHER | PTHR43668:SF2 | ZGC:103559 | 9 | 468 | 0 |
| 3 | g1309.t1 | PANTHER | PTHR43668 | ALLANTOINASE | 9 | 468 | 0 |
| 1 | g1309.t1 | Pfam | PF01979 | Amidohydrolase family | 368 | 446 | 0 |
| 4 | g1309.t1 | SUPERFAMILY | SSF51556 | Metallo-dependent hydrolases | 72 | 395 | 0 |
| 5 | g1309.t1 | SUPERFAMILY | SSF51338 | Composite domain of metallo-dependent hydrolases | 395 | 458 | 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:0016810 | hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds | MF |
KEGG
Orthology
- This transcript has been annotated with K01466 (allantoinase)
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. There were no conditions that were differentially expressed