General information for g8051.t1
Yuki Yoshida
22/1/2022
Gene loci information
Transcript annotation
- This transcript has been not been annotated.
Parent gene
- The parent gene g8051 is located on chr_2: 28221268..28221863 (- 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_2 | g8051 | g8051.t1 | TTS | g8051.t1 | 28221138 | 28221138 |
| chr_2 | g8051 | g8051.t1 | isoform | g8051.t1 | 28221268 | 28221863 |
| chr_2 | g8051 | g8051.t1 | exon | g8051.t1.exon1 | 28221268 | 28221582 |
| chr_2 | g8051 | g8051.t1 | cds | g8051.t1.CDS1 | 28221268 | 28221582 |
| chr_2 | g8051 | g8051.t1 | exon | g8051.t1.exon2 | 28221639 | 28221655 |
| chr_2 | g8051 | g8051.t1 | cds | g8051.t1.CDS2 | 28221639 | 28221655 |
| chr_2 | g8051 | g8051.t1 | exon | g8051.t1.exon3 | 28221713 | 28221863 |
| chr_2 | g8051 | g8051.t1 | cds | g8051.t1.CDS3 | 28221713 | 28221863 |
| chr_2 | g8051 | g8051.t1 | TSS | g8051.t1 | 28222394 | 28222394 |
Sequences
>g8051.t1 Gene=g8051 Length=483
ATGTTGAGATCAAGAGACAGTAATATCAGATCTTTTGTAAAATTCAAGAATTGTTCATGC
CGAGTAGTAGAAGTTCATTGGATAAATTTTCATGGAAACAATATACACTATAGCAATTTG
AAGTGTGGCGAAACTATAGTAGTTAATACATTTACAACTCATCCATGGATATTTATATGC
CAAAAAACAGGCGAGAGATTACGAGTGAATAACAATGAGGTCTTTTTAGCGAAACCATGG
TTCAATTTTATCGCTAATAGCGATAATGGGTTAGTGTCAGTAGAAAGAGAGGAGGCTCAA
ATTCATATAGCACTTAAATCACTAAAGGATATATGTCTATGGAAAATAATATATTTAATA
CGACAAAAAGACGATATCGATTATCTACAAATTCCGAAGACTTTAAAAAATGATCTAGCA
TATTTTTTCTATCTCTCAACGAGATATCGCGAAATCGAATCCGAAAATTCTACTAGCGAA
TAA
>g8051.t1 Gene=g8051 Length=160
MLRSRDSNIRSFVKFKNCSCRVVEVHWINFHGNNIHYSNLKCGETIVVNTFTTHPWIFIC
QKTGERLRVNNNEVFLAKPWFNFIANSDNGLVSVEREEAQIHIALKSLKDICLWKIIYLI
RQKDDIDYLQIPKTLKNDLAYFFYLSTRYREIESENSTSE
Protein features from InterProScan
| Transcript | Database | ID | Name | Start | End | E.value | |
|---|---|---|---|---|---|---|---|
| 6 | g8051.t1 | CDD | cd05468 | pVHL | 3 | 136 | 0 |
| 5 | g8051.t1 | Gene3D | G3DSA:2.60.40.780 | - | 1 | 89 | 0 |
| 2 | g8051.t1 | PANTHER | PTHR15160 | VON HIPPEL-LINDAU PROTEIN | 2 | 140 | 0 |
| 3 | g8051.t1 | PANTHER | PTHR15160:SF10 | VON HIPPEL-LINDAU TUMOR SUPPRESSOR | 2 | 140 | 0 |
| 1 | g8051.t1 | Pfam | PF01847 | VHL beta domain | 2 | 79 | 0 |
| 4 | g8051.t1 | SUPERFAMILY | SSF49468 | VHL | 2 | 145 | 0 |
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 K03871 (von Hippel-Lindau disease tumor supressor)
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.
