General information for g11692.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been annotated as hypothetical.
Parent gene
- The parent gene g11692 is located on chr_1: 17822381..17828147 (+ 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 | g11692 | g11692.t1 | isoform | g11692.t1 | 17821627 | 17822381 |
| chr_1 | g11692 | g11692.t1 | exon | g11692.t1.exon1 | 17821627 | 17821740 |
| chr_1 | g11692 | g11692.t1 | cds | g11692.t1.CDS1 | 17821627 | 17821740 |
| chr_1 | g11692 | g11692.t1 | TSS | g11692.t1 | 17821659 | 17821659 |
| chr_1 | g11692 | g11692.t1 | exon | g11692.t1.exon2 | 17821815 | 17821986 |
| chr_1 | g11692 | g11692.t1 | cds | g11692.t1.CDS2 | 17821815 | 17821986 |
| chr_1 | g11692 | g11692.t1 | exon | g11692.t1.exon3 | 17822041 | 17822381 |
| chr_1 | g11692 | g11692.t1 | cds | g11692.t1.CDS3 | 17822041 | 17822381 |
| chr_1 | g11692 | g11692.t1 | TTS | g11692.t1 | 17822508 | 17822508 |
Sequences
>g11692.t1 Gene=g11692 Length=627
ATGCATCAACAATTTTTAAATAATGCAACAAGCAGTTTATATTCACTCTCATCTGATGAA
TTACGTGAAATATTCGGGGATGATGACAAACTTGATCAAAGAATAGATGAAATATTGAAA
TCGCTAGAGAATGAAAAGGATGTGATAATTACTGAAAATCGCACATTAGCTGAAAGTAAT
TTAGAGAAGGAGCCACTACTCATTGAAGCAAGATCGCGTATAAATGATTTAACAGAAGAA
TTCAGAAATTTGAGTGAAAATGTACAACTGAAATTGACACAGATTAAATCAAAGGCATCA
ACTACTGACCCTGAATCTGTTTTGGCTAGATTACAAGCTTTAGCAGCTGAATCAGAGGAG
CAAAGTGAAAAAATTGCCGATGAATTATTTGAAAATAATCTTTCAACTGAAGAGTTTCTT
GAACAATTTAAAGCATCACGTACAATAATGCATCTAAGAAAATTGAAAGCTGAAAAAATG
CAAGAATTATTAAGGAGAGGAGCACATCGAAACACTCAACCTGGAATGAATAACAATTTT
CCAACAACTGGATTTTATCAGAATACTCCATATCCTAACAGCATGCCTGGTTTTCCTATG
CCTATGATGCCTAGGCCTTCTTTCTAA
>g11692.t1 Gene=g11692 Length=208
MHQQFLNNATSSLYSLSSDELREIFGDDDKLDQRIDEILKSLENEKDVIITENRTLAESN
LEKEPLLIEARSRINDLTEEFRNLSENVQLKLTQIKSKASTTDPESVLARLQALAAESEE
QSEKIADELFENNLSTEEFLEQFKASRTIMHLRKLKAEKMQELLRRGAHRNTQPGMNNNF
PTTGFYQNTPYPNSMPGFPMPMMPRPSF
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 7 | g11692.t1 | Coils | Coil | Coil | 39 | 59 | - |
| 5 | g11692.t1 | Coils | Coil | Coil | 67 | 94 | - |
| 6 | g11692.t1 | Coils | Coil | Coil | 108 | 128 | - |
| 2 | g11692.t1 | PANTHER | PTHR13678 | WILLIAMS-BEUREN SYNDROME CRITICAL REGION PROTEIN-RELATED | 7 | 182 | 6.1E-44 |
| 3 | g11692.t1 | PANTHER | PTHR13678:SF18 | LD45836P | 7 | 182 | 6.1E-44 |
| 1 | g11692.t1 | Pfam | PF07200 | Modifier of rudimentary (Mod(r)) protein | 16 | 156 | 4.8E-31 |
| 8 | g11692.t1 | ProSiteProfiles | PS51314 | VPS37 C-terminal domain profile. | 85 | 175 | 29.373 |
| 4 | g11692.t1 | SUPERFAMILY | SSF140111 | Endosomal sorting complex assembly domain | 104 | 158 | 8.5E-6 |
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 K12185 (ESCRT-I complex subunit VPS37)
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.
