BtaINT0159755 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107155428-107156382:+
Coord C1 exon
chr2:107155428-107155526
Coord A exon
chr2:107155527-107156228
Coord C2 exon
chr2:107156229-107156382
Length
702 bp
Sequences
Splice sites
5' ss Seq
CTGGTGGGT
5' ss Score
6.29
3' ss Seq
ACTCTTCCTTCTCGTCCCAGAAC
3' ss Score
9.45
Exon sequences
Seq C1 exon
GACTGTTACATCCTGGACCAGGGAGGCCTAAAGATCTATGTGTGGAAGGGGAAGAATGCCAACGCCCAGGAGAAGAAGGAAGCCATGAACCAGGCACTG
Seq A exon
GTGGGTCTGGGTGTCGAGGAGGAGAACTTGGAGGAGGGGCAGAGAAGGCCACCCAGCAGGGAGAGGGCAGTGGGGGCTAAAGGCCAGGGGTGGCTCTGGGGCTGACTTAGTTCTGGGGGGTCATCTTGAGGGTTCTCTGCACCCCAGGAAGCCAACCACCCAGCGACCTCAAGAATCGTCACAAAAAGGGAGCCTCCTCAGGGCTTGCACCTTGAGTTTGGCTCTGAAAAGGGAGAGAGAAACGGAGGCCAGCCTCCTTACAAGAAGCGGGGTGGGTCAGCATGGGGCTGAGGCCAAGTCAGAGTTTGGGGTCATTGTAGGAGCTGGAGTCAGTAACCCTGAACTGGCTGGGGGTCAACGTTGGATTGGGGGTTGGGCTCAAGTTTGGAGATGGAGACTGGGGTCAGGTTTGGGTCAGATTTGGCCTTGGAGTGAGGGGTCTGAAGTGGGTTTGGGGGTTAGAGTTAGATTCAGGGTTGAGGTCAGAGTTAGGTTTGAGGTGGAGTCTGGTGTGACCTGGGGTGGGAGTCAGCTGGGTTAGATTTGAGGCCAGCACTGGGACAGTGAATAGAGTCTGGTTTGGGCTTGGGGCCAGGGCAGGTTAGTGGTGGGTCTGATTGGGGTTACAGCCAGGCTTTAGCTCCTGTTGGGGGGTGGAGCCTGGGGGAGGGACACACCCCAGACTCTTCCTTCTCGTCCCAG
Seq C2 exon
AACTTTATCAAAGCGAAGCAGTACCCGCCGAGCACACAGGTGGAGCTGCAGAACGACGGGGCCGAGTCAGCTGTCTTTCAGCAGCTCTTCCAGAAGTGGACAGTACCCAACCGGACCACCGGCCTAGGCAAAACCCACACCGTGGGCTCCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.030 A=NA C2=0.077
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=FE(42.1=100)
A:
NA
C2:
PF0062617=Gelsolin=PD(34.2=50.0)
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:
GACTGTTACATCCTGGACCAG
R:
CACGGTGTGGGTTTTGCCTAG
Band lengths:
243-945
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]