General information for g12411.t10
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as Putative Vesicle-associated membrane protein 7.
Parent gene
- The parent gene g12411 is located on chr_1: 23432129..23433523 (- 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 | g12411 | g12411.t10 | TTS | g12411.t10 | 23431760 | 23431760 |
| chr_1 | g12411 | g12411.t10 | isoform | g12411.t10 | 23432129 | 23432893 |
| chr_1 | g12411 | g12411.t10 | exon | g12411.t10.exon1 | 23432129 | 23432278 |
| chr_1 | g12411 | g12411.t10 | cds | g12411.t10.CDS1 | 23432245 | 23432278 |
| chr_1 | g12411 | g12411.t10 | exon | g12411.t10.exon2 | 23432397 | 23432709 |
| chr_1 | g12411 | g12411.t10 | cds | g12411.t10.CDS2 | 23432397 | 23432709 |
| chr_1 | g12411 | g12411.t10 | exon | g12411.t10.exon3 | 23432767 | 23432893 |
| chr_1 | g12411 | g12411.t10 | cds | g12411.t10.CDS3 | 23432767 | 23432893 |
| chr_1 | g12411 | g12411.t10 | TSS | g12411.t10 | 23433461 | 23433461 |
Sequences
>g12411.t10 Gene=g12411 Length=590
ATGCCTCTTCTATATGCAGTTATCACAAGAGGAAATACTGTATTGTGTAAATATGCCGAC
TGCGTTGGAAACTTTTCAGAAGTCACAGAAAATCTCATCTCAAAAATTCAATTGACAAAC
CATAAAATGACATACACACATGGCCAATACCTTTTCCATTATATTTGTGCTGATAAAATA
ATTTACATGACCATAAGTGATGATGAGTTTCCACGACAGCGTGCCTTTCTATATCTCTCA
GAAATAAAACAGAAATTTTTAGCAACTTATGGTTTGACAGCAGCAACAGCTCTTCCTTAT
GCAATGAATACAGAATTCTCTCGTGTGATGTCAGCCGAAATGAAGAAATGCAATGAAAGT
GGCGAGTATGATAGCATACAGCGAGTACATGGACAAATTGATGAATTAAAAGATATTATG
GTTAAAAATATTGAAAATATGCTGTTTCATTCAGACAAACAAGTAGAACAATAGCAAGAA
CACTATTTTGGAGAAATGTAAAAATGTATATTCTACTTGGTCTCTTAATACTTTTCATAA
TATACATTATTGTTGCCATGTTTTGTGGATTTGCTTTGAAATGTCGCTAA
>g12411.t10 Gene=g12411 Length=157
MPLLYAVITRGNTVLCKYADCVGNFSEVTENLISKIQLTNHKMTYTHGQYLFHYICADKI
IYMTISDDEFPRQRAFLYLSEIKQKFLATYGLTAATALPYAMNTEFSRVMSAEMKKCNES
GEYDSIQRVHGQIDELKDIMVKNIENMLFHSDKQVEQ
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 9 | g12411.t10 | CDD | cd14824 | Longin | 4 | 117 | 0.000000 |
| 7 | g12411.t10 | Gene3D | G3DSA:3.30.450.50 | - | 1 | 120 | 0.000000 |
| 6 | g12411.t10 | Gene3D | G3DSA:1.20.5.110 | - | 121 | 153 | 0.000012 |
| 2 | g12411.t10 | PANTHER | PTHR21136:SF179 | VESICLE-ASSOCIATED MEMBRANE PROTEIN 7 | 1 | 147 | 0.000000 |
| 3 | g12411.t10 | PANTHER | PTHR21136 | SNARE PROTEINS | 1 | 147 | 0.000000 |
| 1 | g12411.t10 | Pfam | PF13774 | Regulated-SNARE-like domain | 31 | 107 | 0.000000 |
| 8 | g12411.t10 | ProSiteProfiles | PS50859 | Longin domain profile. | 7 | 110 | 28.758000 |
| 5 | g12411.t10 | SMART | SM01270 | Longin_2 | 28 | 109 | 0.000000 |
| 4 | g12411.t10 | SUPERFAMILY | SSF64356 | SNARE-like | 3 | 117 | 0.000000 |
Transmembrane regions from TMHMM
Disordered region
IUPRED3 score over 0.5 is predictive of a disordered region.
GO terms from InterProScan
There are no GO annotations for this transcript.
KEGG
Orthology
- This transcript has been annotated with K08515 (vesicle-associated membrane protein 7)
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