BtaINT0159927 @ bosTau6
Intron Retention
Gene
ENSBTAG00000017305 | VPREB
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1N160]
Coordinates
chr17:73920711-73921209:-
Coord C1 exon
chr17:73921168-73921209
Coord A exon
chr17:73921031-73921167
Coord C2 exon
chr17:73920711-73921030
Length
137 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
CGTCTCTCTACCACCCACAGATC
3' ss Score
9.36
Exon sequences
Seq C1 exon
CGTGGTTTACCTTTGGCAGCGGGACCAAGGTCACCATACCAG
Seq A exon
GTAAGCGGCTCTCACCCCTTCCCCAGCCTGTCCCACCCTCTGCTCTCTCGTGAAAGTCACTTTTCTCTGTCTCCCGAGGTCAGAGGCTCCGCCAGGGATGCTGCCATGATGACCTTCCGTCTCTCTACCACCCACAG
Seq C2 exon
ATCAGCCCAAGTTCCCACCTTCCGTCACCCTGTTCCCACCCTCCACGGAGGAGCTCAGCACCTACACGGCCACCCTGGTGTGTCTCATCAGCGACTTCTACCCGGGCAACGTGACCGTGGCCTGGAAGGCAGACGGCAGCCCCGTCACCCGGGGTGTGGTGACCAGCCAGGCCTCCCAACAGAGCAGCAGCAAGTACGTGGCCAGCAGCTACCTGACCCTGACGGGCAGCGAGTGGAAACCTAAAAGCAGCTACAGCTGCGAGGTCACGCACGAGGGGAGCACCGTGACGAAGACAGTGAAGCCCTCAGCGTGTTCTTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000017305:ENSBTAT00000023005:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.057
Domain overlap (PFAM):
C1:
PF0768612=V-set=PD(10.1=80.0)
A:
NA
C2:
PF0765410=C1-set=WD(100=81.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGACCAAGGTCACCATACCA
R:
TCAGGGTCAGGTAGCTGCTG
Band lengths:
244-381
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development