General information for g1041.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 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.t1 | TTS | g1041.t1 | 7811704 | 7811704 |
| chr_3 | g1041 | g1041.t1 | isoform | g1041.t1 | 7811755 | 7813983 |
| chr_3 | g1041 | g1041.t1 | exon | g1041.t1.exon1 | 7811755 | 7812533 |
| chr_3 | g1041 | g1041.t1 | cds | g1041.t1.CDS1 | 7811755 | 7812533 |
| chr_3 | g1041 | g1041.t1 | exon | g1041.t1.exon2 | 7812653 | 7813397 |
| chr_3 | g1041 | g1041.t1 | cds | g1041.t1.CDS2 | 7812653 | 7813397 |
| chr_3 | g1041 | g1041.t1 | exon | g1041.t1.exon3 | 7813930 | 7813983 |
| chr_3 | g1041 | g1041.t1 | cds | g1041.t1.CDS3 | 7813930 | 7813983 |
| chr_3 | g1041 | g1041.t1 | TSS | g1041.t1 | 7814014 | 7814014 |
Sequences
>g1041.t1 Gene=g1041 Length=1578
ATGTTTCTATTGAAGCTGTTGACTTTGGTTACTTTTTTTGGAGCAAGTTTTCAATTATCT
TCTCCATCTTCATCAACTTATCAAGCTGGAGTAGTTGAATTCAATGTTGGAATTTTAACA
AATCGAAATTCAACGACGTTATTAAATGAACGATTGGCAAGGTATCTTGAAATTTTGGAC
AATGCACCATCAACACTCGATATAATTGTTTTTCCTGAGTTAACTCTCAATATGATCTTA
ACAGCTTCAGAAATTCCAAAGCCAGAAGATGAAATTACACCTTGTGATGATGAAAATTCT
GAAGTTGAGAATTTTATTAGAAATATTTCCTGTTCAGCTAAGAAATATAAGCGTTATGTG
GTGATAAATATTACAGAAAAATCAAAATGTCCTGATCCTGAAATGATTGGTAATGAAGAT
CCTCAAGAATGTCGTCCAAATGGTCTAAATTATTATAACACAAATGTCGTATTTGACCGC
AATGGAAAAATAGTTTCTCGCTATCGGAAATATCATTTATTTAGAGAAAGCGTCGATAGG
CCTTTGAAACCAGAATTTTCAATTTTTGAGACAGATTTTGGTGTCACTTTTGGTCAGTTT
ATTTGCTTCGATATAATTTTTAAAACACCAGCTCTTGATCTTGTGCGAAATTACAATTTG
ACTGATTTCATTTTCCCTGCTTTATGGTTTGGTGAGCTTCCATTTTTAACGGCGGTTCAA
CTTCAACAAAATTGGGCTTATGCTAATAACGTAAATATGTTAGCAGCTGGAACAAATAAT
GTCCCTGTCGGTTCAACAGGTTCAGGAATTTATGGTGGCAAGAAAGGTGCATATGTTGCT
GAAATGGCTAAAGGAAACATCACAGAACTTTACACAGCAACAATTTATAAAATCAAAAAT
TTTCCTGAACATGAAAATGTCACGATTGAACATAATGTTATAAAACATTCAAAAGATGAA
ATGAAAAATTTGTTGATTAATCGCGACTTTTTAGATTTTTATGAAATGGAATTTATTGAT
GACATTAATGGCACGCATTATCAAGAAAATGATTTCTGTGAAAGTGAAATTTGCTGCAAA
ATTAAAGTCAATTTCACAATTTTAAATTCAGAAGAAGTTCCTCACTATCAATATGCAATG
GCATTTTTTCATGGCAATAGAACATTTCAAGGTTTTGCTGATGCAAACATCACTGCATGT
GCATTAATTGCTTGTCCATCGAGAAATACTTCGTCTTGTGGATCTCGCAATGAAGAGCTG
GAAAATTTTCATACTTGGACTTCAATTGAAGTTGAAATTGAAACACCTAAAAAGGATGGA
AATATTTTCTACATGCCAACATCACTTGATTCTTCTATCATGCCACTTCAACCTGGTGAT
TTCGATTATGAAGAAATTGATTTGAAAAATGAACGTGTTAGAAATGTTATGAAATTAAAT
TCACATGTTGATGAACTGCTTACTTTTGGTATTTATGGATTTGATTATGATTTAGACTAC
AAACCTGAAAATTCTGGAGAAAAGCATGAAGTTTTTGTGATTTTGATAGCAGTTTCGTTC
GTTATAACAATTTTGTGA
>g1041.t1 Gene=g1041 Length=525
MFLLKLLTLVTFFGASFQLSSPSSSTYQAGVVEFNVGILTNRNSTTLLNERLARYLEILD
NAPSTLDIIVFPELTLNMILTASEIPKPEDEITPCDDENSEVENFIRNISCSAKKYKRYV
VINITEKSKCPDPEMIGNEDPQECRPNGLNYYNTNVVFDRNGKIVSRYRKYHLFRESVDR
PLKPEFSIFETDFGVTFGQFICFDIIFKTPALDLVRNYNLTDFIFPALWFGELPFLTAVQ
LQQNWAYANNVNMLAAGTNNVPVGSTGSGIYGGKKGAYVAEMAKGNITELYTATIYKIKN
FPEHENVTIEHNVIKHSKDEMKNLLINRDFLDFYEMEFIDDINGTHYQENDFCESEICCK
IKVNFTILNSEEVPHYQYAMAFFHGNRTFQGFADANITACALIACPSRNTSSCGSRNEEL
ENFHTWTSIEVEIETPKKDGNIFYMPTSLDSSIMPLQPGDFDYEEIDLKNERVRNVMKLN
SHVDELLTFGIYGFDYDLDYKPENSGEKHEVFVILIAVSFVITIL
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g1041.t1 | Gene3D | G3DSA:3.60.110.10 | - | 13 | 301 | 7.9E-69 |
| 3 | g1041.t1 | PANTHER | PTHR10609:SF14 | BIOTINIDASE | 7 | 510 | 2.9E-120 |
| 4 | g1041.t1 | PANTHER | PTHR10609 | BIOTINIDASE-RELATED | 7 | 510 | 2.9E-120 |
| 2 | g1041.t1 | Pfam | PF00795 | Carbon-nitrogen hydrolase | 52 | 214 | 9.8E-14 |
| 1 | g1041.t1 | Pfam | PF19018 | Vanin C-terminal domain | 330 | 499 | 4.3E-33 |
| 10 | g1041.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 25 | - |
| 11 | g1041.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 5 | - |
| 12 | g1041.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 6 | 17 | - |
| 13 | g1041.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 18 | 25 | - |
| 9 | g1041.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 26 | 525 | - |
| 14 | g1041.t1 | ProSiteProfiles | PS50263 | Carbon-nitrogen hydrolase domain profile. | 34 | 297 | 36.62 |
| 5 | g1041.t1 | SUPERFAMILY | SSF56317 | Carbon-nitrogen hydrolase | 22 | 295 | 4.58E-34 |
| 7 | g1041.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 18 | - |
| 6 | g1041.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 24 | - |
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