BtaINT0159754 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107155171-107155526:+
Coord C1 exon
chr2:107155171-107155249
Coord A exon
chr2:107155250-107155427
Coord C2 exon
chr2:107155428-107155526
Length
178 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TGCTTTCTCTCCCGCTCCAGGAC
3' ss Score
10.87
Exon sequences
Seq C1 exon
TGTGTCTGACTCAGAGGGAAAGGTGGTGGTCAGAGAAATCGCCACGCAGCCACTCACACAAGACCTGCTCAGTCACGAG
Seq A exon
GTGAGAGGGTCCGGGGTGCCCCCAGCCCCAGCTCCCCATCACCCACCCGCCCCCTGTCCACTCTCCACCAGGGACCTGGGGTGGTTGGGGTGGGGTCGCAAGAGGCAAACTTCTGTGTCTGCAGCTCCCCCAGCCTGCGCCCTCAGGCTCTTGCCCTGTGCTTTCTCTCCCGCTCCAG
Seq C2 exon
GACTGTTACATCCTGGACCAGGGAGGCCTAAAGATCTATGTGTGGAAGGGGAAGAATGCCAACGCCCAGGAGAAGAAGGAAGCCATGAACCAGGCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.030
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(19.7=55.6)
A:
NA
C2:
PF0062617=Gelsolin=FE(42.1=100)
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:
TGTGTCTGACTCAGAGGGAAAGG
R:
CAGTGCCTGGTTCATGGCTTC
Band lengths:
178-356
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]