General information for g11242.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 g11242 is located on chr_1: 14869242..14871211 (+ 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_1 | g11242 | g11242.t1 | TSS | g11242.t1 | 14869148 | 14869148 |
| chr_1 | g11242 | g11242.t1 | isoform | g11242.t1 | 14869189 | 14871211 |
| chr_1 | g11242 | g11242.t1 | exon | g11242.t1.exon1 | 14869189 | 14869236 |
| chr_1 | g11242 | g11242.t1 | cds | g11242.t1.CDS1 | 14869189 | 14869236 |
| chr_1 | g11242 | g11242.t1 | exon | g11242.t1.exon2 | 14869299 | 14869536 |
| chr_1 | g11242 | g11242.t1 | cds | g11242.t1.CDS2 | 14869299 | 14869536 |
| chr_1 | g11242 | g11242.t1 | exon | g11242.t1.exon3 | 14869597 | 14869691 |
| chr_1 | g11242 | g11242.t1 | cds | g11242.t1.CDS3 | 14869597 | 14869691 |
| chr_1 | g11242 | g11242.t1 | exon | g11242.t1.exon4 | 14869760 | 14871211 |
| chr_1 | g11242 | g11242.t1 | cds | g11242.t1.CDS4 | 14869760 | 14871211 |
| chr_1 | g11242 | g11242.t1 | TTS | g11242.t1 | NA | NA |
Sequences
>g11242.t1 Gene=g11242 Length=1833
ATGAAAAAGCTACTCTTTATTATCTTTATTTCATTAAATATTATTTTAATAACAAAATGT
GAAGAAACTGAAGAAGAACCGGTTATGAATAAAAATGACGTAGATAATGAAACGTCAAAA
TATTACATCGCAGCAGTTTTAGAATTTAATGCTCCAGGCGATGAATATAATGTTCCTGAG
CAAATTATTGATGCAAATTTAAAAGAGTATATCAAATGGATTTTCAGAGCAAAGGAACAT
AATGTCGACATTCTTGTGTTTTCTGAGGCTTCACTTAATTACAATGGCTTAAACAAACGA
GACGATTTGATTGAGTTCGCTATCGAATTGCCAGAAGAAATATCTGATGACAACTATGGC
TGCGATTATACATCGAACTTTATTCTAAATGAATTGTCGGAAGCTGTATCAAATGCAAGT
ATTTACGTATTAGTAAATATAGTCGAGAAACGTAATGAGAGCGATGATGACGACAATGAT
GTGTCATTGTTTAATACAAATATTGTTTTTGATCGCAATGGATGTATTGTTTCCAGATAT
CGGAAATTTAATTTATTTATTGAACCAAACATAAACAGAACAAAAGAATCTGAACTGTCT
TTTTTCGAAACAGACTTTGGCGTCACATTTGGACATTTCATTTGCTTTGATATTCTCTTC
AAAGCTCCAGCATACGATTTAATAAACTTGAATATTTCACATTTTCTCTATCCATCCATG
TGGTTCTCAGAGGTTCCATTTTTGACAAGTATTCAAATTCAACAGCATTATGCATATCGT
AACAATATCGTGCTTTTATCATCTGGAACAAATTCACCATCAAACTCAAACACTGGTAGT
GGAATATTTATTGGAAAACATGGAGCAGTTGAATCAATAATCTCTTATATAAATGAGTCA
AAAATGATTGTGGCAAAGGTACCTAAAGATGTAAATGATTCAGAATATTGTCCAGAAAAG
CCAACAATTAAGCCATATACATCGATTGAAATGGATAGATTAAAGCTTTGGTCTAATCTA
CCCAAATCAGCTCTCACATATTCTCTCAACGAAGGTTCGATTATTCATGAGAATGGACTC
GAATGTGAATTTTCAATCGATTTTACGAGACTGTCGGATGAAGAGCAAAATGAACACGAG
GAGGATGACAATAATATGGAAAGATACGGATACAGACTCATTGCTTTCAATGGCATTAGA
AATTATGCAAACATTTCAAACGGAGGTGAAATCTATTGTGCAATCGTTGCATGTATCAAT
GAAAGTGATCCGATGACGTGCGGCATGAGATTTCAAAATAGTGAAAAACTTGTGCCATCA
GTTCTTTTTCATTCCATTAAAATTAAAGCGACAATAGATGAGAACGAGAGCAGCAGTTTT
TTGATCATGCCAACTACTTTAGATTTTTCAATCAGACCACTTTCAGTTGATGATTTTGAA
TTTTCAGTTGACGAGAAAGAAGAGAATGTGCAAATGTACAATATAGAAGCGACAAATGAA
TTAAGTGAAATTTTTACTTTTGGGATATTTGGGAGAAATTTTGAAAGAGATCATTTACAA
ATCACAGAAGACAATGTCGAAATGATTGCATCCACAATGAGAATTAATGATGAATATGAG
AATATTGAGGAAATAGAGGAAGTGCATAAAATTAAGGAAGCAATTAGGGGACAAGGTGAT
CCAAATGTTTATCTCACAGTAGCGATATACGTTCCACTTATGATTTTGCTTTGTATTACT
GCAGCAATTTTAGTGCGTCGTCGTTTACGAGAACCTTATGAACATCCGTTAATTATATTG
AGAAGAAAAAGTGAAATGCCTCAATTATCATAA
>g11242.t1 Gene=g11242 Length=610
MKKLLFIIFISLNIILITKCEETEEEPVMNKNDVDNETSKYYIAAVLEFNAPGDEYNVPE
QIIDANLKEYIKWIFRAKEHNVDILVFSEASLNYNGLNKRDDLIEFAIELPEEISDDNYG
CDYTSNFILNELSEAVSNASIYVLVNIVEKRNESDDDDNDVSLFNTNIVFDRNGCIVSRY
RKFNLFIEPNINRTKESELSFFETDFGVTFGHFICFDILFKAPAYDLINLNISHFLYPSM
WFSEVPFLTSIQIQQHYAYRNNIVLLSSGTNSPSNSNTGSGIFIGKHGAVESIISYINES
KMIVAKVPKDVNDSEYCPEKPTIKPYTSIEMDRLKLWSNLPKSALTYSLNEGSIIHENGL
ECEFSIDFTRLSDEEQNEHEEDDNNMERYGYRLIAFNGIRNYANISNGGEIYCAIVACIN
ESDPMTCGMRFQNSEKLVPSVLFHSIKIKATIDENESSSFLIMPTTLDFSIRPLSVDDFE
FSVDEKEENVQMYNIEATNELSEIFTFGIFGRNFERDHLQITEDNVEMIASTMRINDEYE
NIEEIEEVHKIKEAIRGQGDPNVYLTVAIYVPLMILLCITAAILVRRRLREPYEHPLIIL
RRKSEMPQLS
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 8 | g11242.t1 | Gene3D | G3DSA:3.60.110.10 | - | 28 | 315 | 2.0E-60 |
| 3 | g11242.t1 | PANTHER | PTHR10609:SF14 | BIOTINIDASE | 8 | 564 | 2.2E-105 |
| 4 | g11242.t1 | PANTHER | PTHR10609 | BIOTINIDASE-RELATED | 8 | 564 | 2.2E-105 |
| 2 | g11242.t1 | Pfam | PF00795 | Carbon-nitrogen hydrolase | 65 | 263 | 1.5E-10 |
| 1 | g11242.t1 | Pfam | PF19018 | Vanin C-terminal domain | 350 | 517 | 1.3E-33 |
| 11 | g11242.t1 | Phobius | SIGNAL_PEPTIDE | Signal peptide region | 1 | 20 | - |
| 12 | g11242.t1 | Phobius | SIGNAL_PEPTIDE_N_REGION | N-terminal region of a signal peptide. | 1 | 3 | - |
| 13 | g11242.t1 | Phobius | SIGNAL_PEPTIDE_H_REGION | Hydrophobic region of a signal peptide. | 4 | 12 | - |
| 15 | g11242.t1 | Phobius | SIGNAL_PEPTIDE_C_REGION | C-terminal region of a signal peptide. | 13 | 20 | - |
| 10 | g11242.t1 | Phobius | NON_CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the extracellular region. | 21 | 562 | - |
| 14 | g11242.t1 | Phobius | TRANSMEMBRANE | Region of a membrane-bound protein predicted to be embedded in the membrane. | 563 | 585 | - |
| 9 | g11242.t1 | Phobius | CYTOPLASMIC_DOMAIN | Region of a membrane-bound protein predicted to be outside the membrane, in the cytoplasm. | 586 | 610 | - |
| 17 | g11242.t1 | ProSiteProfiles | PS50263 | Carbon-nitrogen hydrolase domain profile. | 49 | 309 | 27.077 |
| 5 | g11242.t1 | SUPERFAMILY | SSF56317 | Carbon-nitrogen hydrolase | 63 | 311 | 2.62E-33 |
| 7 | g11242.t1 | SignalP_EUK | SignalP-noTM | SignalP-noTM | 1 | 20 | - |
| 6 | g11242.t1 | SignalP_GRAM_POSITIVE | SignalP-TM | SignalP-TM | 1 | 23 | - |
| 16 | g11242.t1 | TMHMM | TMhelix | Region of a membrane-bound protein predicted to be embedded in the membrane. | 563 | 585 | - |
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.
