General information for g1041.t2
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Vanin-like protein 1.
Parent gene
- The parent gene g1041 is located on chr_3: 7811755..7813983 (- 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 | g1041 | g1041.t2 | TTS | g1041.t2 | 7811704 | 7811704 |
| chr_3 | g1041 | g1041.t2 | isoform | g1041.t2 | 7811755 | 7813397 |
| chr_3 | g1041 | g1041.t2 | exon | g1041.t2.exon1 | 7811755 | 7812298 |
| chr_3 | g1041 | g1041.t2 | cds | g1041.t2.CDS1 | 7812281 | 7812298 |
| chr_3 | g1041 | g1041.t2 | exon | g1041.t2.exon2 | 7812702 | 7813397 |
| chr_3 | g1041 | g1041.t2 | cds | g1041.t2.CDS2 | 7812702 | 7813220 |
| chr_3 | g1041 | g1041.t2 | TSS | g1041.t2 | 7814014 | 7814014 |
Sequences
>g1041.t2 Gene=g1041 Length=1240
TTATCTTCTCCATCTTCATCAACTTATCAAGCTGGAGTAGTTGAATTCAATGTTGGAATT
TTAACAAATCGAAATTCAACGACGTTATTAAATGAACGATTGGCAAGGTATCTTGAAATT
TTGGACAATGCACCATCAACACTCGATATAATTGTTTTTCCTGAGTTAACTCTCAATATG
ATCTTAACAGCTTCAGAAATTCCAAAGCCAGAAGATGAAATTACACCTTGTGATGATGAA
AATTCTGAAGTTGAGAATTTTATTAGAAATATTTCCTGTTCAGCTAAGAAATATAAGCGT
TATGTGGTGATAAATATTACAGAAAAATCAAAATGTCCTGATCCTGAAATGATTGGTAAT
GAAGATCCTCAAGAATGTCGTCCAAATGGTCTAAATTATTATAACACAAATGTCGTATTT
GACCGCAATGGAAAAATAGTTTCTCGCTATCGGAAATATCATTTATTTAGAGAAAGCGTC
GATAGGCCTTTGAAACCAGAATTTTCAATTTTTGAGACAGATTTTGGTGTCACTTTTGGT
CAGTTTATTTGCTTCGATATAATTTTTAAAACACCAGCTCTTGATCTTGTGCGAAATTAC
AATTTGACTGATTTCATTTTCCCTGCTTTATGGTTTGGTGAGCTTCCATTTTTAACGGCG
GTTCAACTTCAACAAAATTGGGCTTATGCTAATAACGCATTATCAAGAAAATGATTTCTG
TGAAAGTGAAATTTGCTGCAAAATTAAAGTCAATTTCACAATTTTAAATTCAGAAGAAGT
TCCTCACTATCAATATGCAATGGCATTTTTTCATGGCAATAGAACATTTCAAGGTTTTGC
TGATGCAAACATCACTGCATGTGCATTAATTGCTTGTCCATCGAGAAATACTTCGTCTTG
TGGATCTCGCAATGAAGAGCTGGAAAATTTTCATACTTGGACTTCAATTGAAGTTGAAAT
TGAAACACCTAAAAAGGATGGAAATATTTTCTACATGCCAACATCACTTGATTCTTCTAT
CATGCCACTTCAACCTGGTGATTTCGATTATGAAGAAATTGATTTGAAAAATGAACGTGT
TAGAAATGTTATGAAATTAAATTCACATGTTGATGAACTGCTTACTTTTGGTATTTATGG
ATTTGATTATGATTTAGACTACAAACCTGAAAATTCTGGAGAAAAGCATGAAGTTTTTGT
GATTTTGATAGCAGTTTCGTTCGTTATAACAATTTTGTGA
>g1041.t2 Gene=g1041 Length=178
MILTASEIPKPEDEITPCDDENSEVENFIRNISCSAKKYKRYVVINITEKSKCPDPEMIG
NEDPQECRPNGLNYYNTNVVFDRNGKIVSRYRKYHLFRESVDRPLKPEFSIFETDFGVTF
GQFICFDIIFKTPALDLVRNYNLTDFIFPALWFGELPFLTAVQLQQNWAYANNALSRK
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 4 | g1041.t2 | Gene3D | G3DSA:3.60.110.10 | - | 2 | 176 | 0.000 |
| 2 | g1041.t2 | PANTHER | PTHR10609 | BIOTINIDASE-RELATED | 5 | 174 | 0.000 |
| 1 | g1041.t2 | Pfam | PF00795 | Carbon-nitrogen hydrolase | 11 | 137 | 0.000 |
| 5 | g1041.t2 | ProSiteProfiles | PS50263 | Carbon-nitrogen hydrolase domain profile. | 1 | 178 | 26.401 |
| 3 | g1041.t2 | SUPERFAMILY | SSF56317 | Carbon-nitrogen hydrolase | 23 | 173 | 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