BtaINT0159743 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107161306-107162261:+
Coord C1 exon
chr2:107161306-107161451
Coord A exon
chr2:107161452-107162116
Coord C2 exon
chr2:107162117-107162261
Length
665 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACT
5' ss Score
8.77
3' ss Seq
ATTTCCTTTCCGCCTTGCAGGCT
3' ss Score
10.9
Exon sequences
Seq C1 exon
GGTTGCAGTGGAGATGAGCGGGAGATGGCCAAGATGGTTGCTGACACTGTCTCCCGGACTGAGAAGCAAGTGGTGGTGGAGGGGCAGGAGCCGGCCAACTTCTGGCTGGCCCTGGGCGGGAAGGCCCCCTATGCCAGCACCAAGAG
Seq A exon
GTAACTCCCAGGTCCCTCGACCTCCAGCTTACCTTCTGAGGCTGGAGAGCCTCCCAGCACCTCTACCCACATCACCTAGACCCTGCAGCAGGCGTGGATTGAGGACTCTGTGTGTCGGGCTCACAGGGCTACCAGATGAGGAAGGGGCAGCCGAGGCTCTGGGAGCCTCTTGGCACAGGGGCTGTGTCTGTGCTACTTATTGTGGGATTCCCAGGGCCTGGGGTGGATATTTCCTGCAAAGGGAGTGCACACCCAGAGGAGGCAGCTCAAAGAGAGGGGTAGGACTCTAGGTGTGCCCTTTGGGAGGAAGATGCCAGGGTCCCATCAGCCACTGTCTTTCCATGCTGCCACAGGACCAGATGCTGAGGAACACAAGTTGTAAGCCTAGTTTTCTGAAGAAGGTCCATGATCCACCATTTCCTCAAAAGCAAAAAGACATGTACTATATTAGCAGCAGGAGCGATAGAGGAAAGATATTAGGAAGAACTTCCTAACAGGACTATAGAAGAGCCCACTGAAATGCTTGTCCTGGGAGAGTAGTGGGAATTTCTCCTTTGGAGGGCTCCTGGACTCTTGGTAGGATGGGGGACTTTTGGTGTGATCAGAAGAAAGAACATTTTTCTAGGAGATGAGCTTTCCAACACAATTTCCTTTCCGCCTTGCAG
Seq C2 exon
GCTGCAGGAGGAAAACTTGGTCATCACTCCCCGGCTCTTTGAATGTTCCAACCAGACTGGGCGCTTCCTGGCCACAGAGATCCCTGACTTCAATCAGGATGACTTGGAAGAGGATGATGTTTTCCTGCTAGATGTCTGGGACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.061 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PD(48.6=69.4)
A:
NA
C2:
PF0062617=Gelsolin=PU(34.2=55.1)
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:
GTTGCAGTGGAGATGAGCGG
R:
TGGTCCCAGACATCTAGCAGG
Band lengths:
289-954
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]