General information for g3277.t1
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 g3277 is located on chr_3: 24164054..24166060 (- 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 | g3277 | g3277.t1 | TTS | g3277.t1 | 24163865 | 24163865 |
| chr_3 | g3277 | g3277.t1 | isoform | g3277.t1 | 24164054 | 24166060 |
| chr_3 | g3277 | g3277.t1 | exon | g3277.t1.exon1 | 24164054 | 24165522 |
| chr_3 | g3277 | g3277.t1 | cds | g3277.t1.CDS1 | 24164054 | 24165522 |
| chr_3 | g3277 | g3277.t1 | exon | g3277.t1.exon2 | 24165835 | 24165907 |
| chr_3 | g3277 | g3277.t1 | cds | g3277.t1.CDS2 | 24165835 | 24165907 |
| chr_3 | g3277 | g3277.t1 | exon | g3277.t1.exon3 | 24166010 | 24166060 |
| chr_3 | g3277 | g3277.t1 | cds | g3277.t1.CDS3 | 24166010 | 24166060 |
| chr_3 | g3277 | g3277.t1 | TSS | g3277.t1 | 24166089 | 24166089 |
Sequences
>g3277.t1 Gene=g3277 Length=1593
ATGTGGTTAGTAAAAATTCTTCTATTAATTTTCATCAAAACTTCTATTCAAGCATCAGAT
CCATCATCATTTACTTATAAAGCTGGTGTAGTTGAATTAAATGTCAGCCCACGACCAGAT
TTTGAAAGGAATTCTACACAATGGACGAAACAACAATTAAGCCAATATCTTGAAATTCTA
CATACTTTACCAGAAGATTTGGACATTCTAGTTTTTCCAGAATCCACTCTCAACGCTCTG
GACACCGCTTTTGAAATTCCAGAAGTCAATGATAAAATAGTTGCATGCAATAACTCAAAT
TATGAAGATGATAATTTAATAAAAATCTTTTCTTGTGAAGCAATAATTCACAAAGTTTAC
ATCGTTATCAATTTAGTTACAAAAGCTAAATGTCCAGATCCTGAAATGATTGTCAATAAT
GATCCAAGAAATTGCAATAATCGTCCAGATGGATTCAGTTATTACAATACAAATATAGTT
TTTGACAGAAATGGAACATTGATTTCACGCTATAGAAAATATCATTTGTATAATGAGCAA
GTCGATAGACCTCTTAAGCCAACGATGGAATATTTTGATACAGATTTTGGTGTAAGATTT
GGACATTTCATCTGCTTTGACATTGCCTATCAATATCCAGCATTGGAATTAGTACGCAAT
TATAATTTAACTGATATTGTCTACCCAACAATGTGGTTTAGCGAGTTACCATATTTAACA
GCAATACAAGTTCAACAAAACTGGGCTTATGCTAACAATGTGAACTTATTAGCTGCTGGT
GCAAATAATATTCAGTCAACTTCGACTGGAAGTGGAATTTATGGTGGTAAAAAAGGAGCT
TATGTATTAGATATGGCTGGAACTTCAAAAACTGAACTACACACTGCAACAGTTTACAAG
ATCAAAGATTTTCTACAAAATGAGAATGAAATAATTGAGCATAAAGTTGTAGAATATACA
AAAGAAGAGTTAAGAAACCTAACACTATTACGTGATCCAATGATTGATCATCCAATTGAA
TTTTTGGATGACACAATTGGGGAACATTATGCATCAATAGGAACATGCAAAAATTCTTTC
TGCTGTAATATTAATGTCAATTATACAATTCCAAACCTTGCACTAAACAATCGTATTCAA
TATGGAATTTCATTTTTTCATGGCATACGATCATTTCATGGTGTTGATGATGGAGGAATT
GTTGTTTGTACTGTTGTTGCATGTTTAAGCAAAAATATTTCTACTTGTGGTTTACGAAAT
GATTCACTTGAAAATATTCACATTTGGAATTCAATCAATATTGAAGCTGAGTTTTTAGAA
AAAAATAATAAATACCTTTATTTCCCAAACACACTTAATACAGCAATCGTGCCACTTCAA
CCAAAAGCATTTGATTATCAAATCACAGATTTGAAAAATGATAAAATCAAGATAACAATG
AAATTGCATGGAAACCAAAATATTGATAACTTAATTACTTTCGGCATTTATGGTAGAGAC
TTTACTCTTGATAATGGAGTAATTCAAAAAGTTTCGATTTTATTGATGACTTCTTTGTTG
ATGGTTTATTTTGGATTTACAAAAATGTTTTGA
>g3277.t1 Gene=g3277 Length=530
MWLVKILLLIFIKTSIQASDPSSFTYKAGVVELNVSPRPDFERNSTQWTKQQLSQYLEIL
HTLPEDLDILVFPESTLNALDTAFEIPEVNDKIVACNNSNYEDDNLIKIFSCEAIIHKVY
IVINLVTKAKCPDPEMIVNNDPRNCNNRPDGFSYYNTNIVFDRNGTLISRYRKYHLYNEQ
VDRPLKPTMEYFDTDFGVRFGHFICFDIAYQYPALELVRNYNLTDIVYPTMWFSELPYLT
AIQVQQNWAYANNVNLLAAGANNIQSTSTGSGIYGGKKGAYVLDMAGTSKTELHTATVYK
IKDFLQNENEIIEHKVVEYTKEELRNLTLLRDPMIDHPIEFLDDTIGEHYASIGTCKNSF
CCNINVNYTIPNLALNNRIQYGISFFHGIRSFHGVDDGGIVVCTVVACLSKNISTCGLRN
DSLENIHIWNSINIEAEFLEKNNKYLYFPNTLNTAIVPLQPKAFDYQITDLKNDKIKITM
KLHGNQNIDNLITFGIYGRDFTLDNGVIQKVSILLMTSLLMVYFGFTKMF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g3277.t1 | Coils | Coil | Coil | 302 | 322 | - |
| 8 | g3277.t1 | Gene3D | G3DSA:3.60.110.10 | - | 11 | 303 | 7.6E-62 |
| 3 | g3277.t1 | PANTHER | PTHR10609:SF14 | BIOTINIDASE | 5 | 523 | 8.0E-115 |
| 4 | g3277.t1 | PANTHER | PTHR10609 | BIOTINIDASE-RELATED | 5 | 523 | 8.0E-115 |
| 2 | g3277.t1 | Pfam | PF00795 | Carbon-nitrogen hydrolase | 67 | 219 | 4.5E-9 |
| 1 | g3277.t1 | Pfam | PF19018 | Vanin C-terminal domain | 354 | 503 | 3.1E-32 |
| 12 | g3277.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 18 | - |
| 13 | g3277.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 1 | - |
| 14 | g3277.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 2 | 12 | - |
| 16 | g3277.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 18 | - |
| 11 | g3277.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 19 | 506 | - |
| 15 | g3277.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 507 | 526 | - |
| 10 | g3277.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 527 | 530 | - |
| 19 | g3277.t1 | ProSiteProfiles | PS50263 | Carbon-nitrogen hydrolase domain profile. | 26 | 300 | 35.835 |
| 5 | g3277.t1 | SUPERFAMILY | SSF56317 | Carbon-nitrogen hydrolase | 26 | 275 | 8.5E-31 |
| 7 | g3277.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 17 | g3277.t1 | SignalP_GRAM_NEGATIVE | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 6 | g3277.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 18 | - |
| 18 | g3277.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 505 | 527 | - |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
## Warning: Removed 1 row(s) containing missing values (geom_path).
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