BtaINT0159739 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107156952-107157275:+
Coord C1 exon
chr2:107156952-107157052
Coord A exon
chr2:107157053-107157137
Coord C2 exon
chr2:107157138-107157275
Length
85 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
TAGCCTGGTACCGGCCCCAGATG
3' ss Score
2.54
Exon sequences
Seq C1 exon
CCAAGGTGGAACAGGTGAAGTTTGATGCCATGTCCATGCATGTCCAGCCTCAGGTGGCTGCCCAGCAGAAGATGGTGGACGATGGGAGTGGGGAGGTGCAG
Seq A exon
GTATGACGGGGAGAGAGGCCCGGGCCAGGGGGCAGGGTTGGTGGAGTCTGTCCTGGACCTCACACTAGCCTGGTACCGGCCCCAG
Seq C2 exon
ATGTGGCGCATCGAGAACCTAGAGCTGGTGCCTGTGAATACCAAGTGGCTTGGCCACTTCTTTGGGGGCGACTGCTACCTGCTGCTCTACACCTACTTCATCAACGAGAAGCCGCACTACTTGCTCTACATCTGGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.029 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0062617=Gelsolin=PU(48.2=87.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATGCATGTCCAGCCTCAGG
R:
TGCGGCTTCTCGTTGATGAAG
Band lengths:
183-268
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]