BtaINT0159745 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107162711-107164539:+
Coord C1 exon
chr2:107162711-107162899
Coord A exon
chr2:107162900-107164470
Coord C2 exon
chr2:107164471-107164539
Length
1571 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGT
5' ss Score
7.8
3' ss Seq
GTCACTTACTTTATATGCAGAAC
3' ss Score
6.84
Exon sequences
Seq C1 exon
GTCTTTTTCTGGATTGGGAAGAATGCCAATGAGGACGAGAAGAAAGCCGCAGCCACCACAGTGCAGGAATATCTCAAGACCCACCCCGGCGGTCGGGACCTTGAGACCCCCATAATTGTGGTGAAGCAAGGGCACGAGCCCCCTACCTTCACAGGCTGGTTCCTGGCTTGGGATCCCTTCAAGTGGAAT
Seq A exon
GTGAGTGGCCCCAGCCCGCCTGGTCCTCCCACCCCAGCACATGCTTCATAGCACATGCGAGGAAGCCAGGGTAGACTCCTGGGTTTTTCTGTTCACTGGGATAGATGACCTGTGATGTATTTGTAAAGGGGCTTCAAGAGACTGAGAGTGGACAGTAAGGCTGAAGGAAGACTATGAGGCCCCCTGGTAAGGGAGAGGGAAGGAAGTCCATCAAAAATTTAGGCTAATGACAGTGTCTTGCTTGTACACTAGATTTAGCTCAAAGCTCCTGGGACATTATTGGGAAGAGCTGTACTGATTATTTAAATGCAAATGAATTGAAATTAAGCAAAATCAAAAAATTGATTTCTCACATTTCTCACTAGTCATGTGTGGCTGGCTGGTGGTTGCCATACTGGACAGCACAGAAAAAGAACGTCCATCATCATTGTGGAAACTTCTATGAGATGGCATTGATGGGTCCTCCAAACACATCAGTTCTACAAGTCTAAATATGTGTCTTCTAGCACTAAATTCTAAGCAAAATGGGTCCTACGTGGTCCTGACCTGAGGAACAATGAAGTAGACTTCCACAGAATTTTCCTAAACAGGCCCCAGAGAGAAGCAGAGGGCAGGTCCTCAAAATGGAAAAGGAAATGGCAACCCATTCCAGTATCATTACCTGGAAAATCCCATGGACAGAGGAGCCTGGCAGGCTACAGTCCATAGGGTCGCAAAGAGTAGGATACGACTTAGTGACTAAACCACAAATCACAGTGAAGGTTTTCTGCAGGAGGAAGGAAAGCTAAGGTAGAATGAGTGTTGCCCTGGTGGCTTTGGGTACACAAAATTGGCACAACAGATGAGATTAGGGAAACTGAGAGCTTAATTTCCTCAAATGCCTTAAAAAAAATCAGTGTTTGATGAGCTAAGTGTTTGATGAGGGAGCCCAACAAATCTCAAGTCTGCACACCTAGATGTGTCCAGAACTTCTCAAACCCAGGTCAGTGTCCCACATCAACAACTCTGGCAGGTCTTCCCCCACCCAGATCTGTGCCGGCTTCTTTCTCAGACTCATTCATGTACTCACTAGTTCATGCTGTCAGCATAGCTGGAACTCATAATGTGCCATGCTTGCTGCCAAGTCCTGGGATGTGGAGATGGGGCTCCCCATGGAGCCAAGGTCCTCTCTATTCCTTTTACTCCTCTGTGACAGTGTCCCCTCCAGGCTCTGAGGGGAGCTCCCCAGTTCTCCAGGACCCCTGAGTCCCGCACAGTGTGGGTAGGGTTTCCAAGGCTGCATGCAGCTTCTTAAACTCAGAGGGTGGGGAAAGATCATACTCTCCATCTCCGTGGTGGGCTGAGCGAGGCAAATAGTCCCTTGCCCCAGCCAGTTACCTGTCAGCCCTTCATGCTCATCCTTACCATCCAACCTGATTTTTCAGGGACAGCCTCCAGCCTCCCCCTGATTCCCCCTTCCCCTTCTCATCGCCCCTCGGCCCTAGAGCAGCCTTCTTTCAACGCCTGAAGGAAAATGGTCCTGTCTCCTCTGCTGAAACCCAGGTCTAATTTGTCACTTACTTTATATGCAG
Seq C2 exon
AACTCCAAATCCTATGAGGACCTGAAGGCGGAGCTCGGAAACTCTGGGGACTGGAGCCAGATCACTGCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.302 A=NA C2=0.174
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PD(63.3=79.4)
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:
TTTTCTGGATTGGGAAGAATGCCA
R:
AGCAGTGATCTGGCTCCAGTC
Band lengths:
254-1825
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]