BtaINT0159746 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107164471-107166051:+
Coord C1 exon
chr2:107164471-107164539
Coord A exon
chr2:107164540-107165910
Coord C2 exon
chr2:107165911-107166051
Length
1371 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
GTTTTCTGTTTCTTCCCCAGGAG
3' ss Score
12.05
Exon sequences
Seq C1 exon
AACTCCAAATCCTATGAGGACCTGAAGGCGGAGCTCGGAAACTCTGGGGACTGGAGCCAGATCACTGCT
Seq A exon
GTGAGTACCGGGCAGGTGGCAGGGGCCCCCACAGTGTCCACTGACAGTGGTTAGACCCATGAAAGCTGAGAAAGCTCCAGAGAAGGTGCCAGGGTCTTCTGCTTTCTTTCCACCATTTTCTCCTTCTTCTCCTGGAAGTTCTTCTTGTTATTTAACTTCAGTGTCTTGCGTGGGTTTGTCTCCTCCATTCCCTAGTGAAATGGTCCCCAAATTTTATCATGTGTAAGAGTCTGGGTGATGGGGAACTTGGGGGTGGGGGAAGCTTATTGAAATGAAGATTCTGGGACTTCCCTGGTGGTACAGTGGTTAGGACTCCGTGCTTCCACTGCAGGAGGCACAGGTTCGATCCCTGGTCAGGGAACTAAGATCCCACAAGCCGTGCCCCCCCATCCACAAAGAAGGAAATCCCAAAGTCCCATTTCCTGAAATTCTGGTTTGTAGAATTGGGTTGAGACCTGTTAATATGTGTTTTTCACAAAGGGCCCAGGTAATTTGATCCAGTTAGTCCTCAGACCATACTTGGAGAAGTAATGATTTCTCTACTATCATCACCCTTCTCCAGGTAGAAAAACCTTCTCCTTTGATCTTTCAGTTAGTTCATAGAGATATGTTCAGCCTGCAGGCTTAGAATGTGGAAATATGAAGTCAAAGATGTTCATAGGCTTGCAGGGGGGATAAGACCAAGTAGACTCTGCAGAATTGTGGCCAGTACATGAGAACAATTTCCCAAGCACACCGGGGTTATCAGCAGATAACATGTGAATTCCTCGGACCCACCCACAGCCTGGGAACCCCATGGCACTATTAACCCTTCTTGGTTGACTGATGGTGCAGGCAGGAAAGCGTAGGTAGTTAGGTCAAGGCTAAGAGAATTTATGGTTGACAGTTTCATATCAGATAAGAGAAAGGTCATAAATGTCCAAGGTAGACCTCGAACATTCGCGGTAGCCATAGAGAAGTTTATGTCATAGAACAAAACAGTTTTGTTTACGTGTTTTTCAAAGCTGGTCATAGAGCCAACCAGCTTTGGTTGAATATAGACCTCCAAGCTTTAGCTTGTGGATCCTGTCCAGTATGCCATATTCTTATGAAGAGTGTGTGTATACGTATGTGGACAGTGGGAGGCAGGGGTCATGGAAGGCTTATATTTTTTTGGTCACACTGCACAGCTTGAGGGATCATAGTTCCCTGACCAGGATTGAATGTGGGCCCTCAGCAGCGAACGTGCTGGGTCCTCACCCCTTGACTGCCAAGGAACTCCACGGAGGGCTTCTTGAAGGTTCCCTAGGGTCATTGATGACTTCAGAGAAAAATGCAGCCTGGGAGGCAGCCACAAACCGGCTGAAGTAACGTTTTCTGTTTCTTCCCCAG
Seq C2 exon
GAGCTCACAAGCTCTAAACCGGAGGCGTTCAATGCTAACAGCAACCTCAGTTCTGGACCTCTACCCATCTTTCCCCTGGAGCAGCTGGTGAACAAGCCCACAGAGGAGCTTCCTGAGGGCGTGGATCCCAGCCGAAGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.174 A=NA C2=0.511
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
TCCTATGAGGACCTGAAGGCG
R:
CCTTCGGCTGGGATCCACG
Band lengths:
198-1569
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]