BtaINT0159742 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107160061-107161451:+
Coord C1 exon
chr2:107160061-107160240
Coord A exon
chr2:107160241-107161305
Coord C2 exon
chr2:107161306-107161451
Length
1065 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
GCCACCCCCCCTTTTTCCAGGGT
3' ss Score
9.51
Exon sequences
Seq C1 exon
GGAGGCACATCCCGGGCCAACAGCGTGGAGCCTGTGCCCTCCACCCGGCTATTCCAGGTCCGAGGAACCAGCGCCAACAACACCAAGGCCTTTGAGGTCTCACCCCGGGCCGCCTCCCTCAACTCCAACGACGTCTTCATCCTCAAGACTCAGTCCTGCTGCTACTTGTGGTGTGGGAAG
Seq A exon
GTGTGTGCAGAGTTGAGTGGCCTCCCCCTCCAACTCCCCCCGCCCCCCCATAGGCCCCGCCTCCTGGTTTCCCAGCTGCCTCTGGCCCCGCCTCCCACCTCCTCAACACTGGATCTGGATCCCTACTCTCTGCCTCTGTGTCTGAGTAGGTCTTTCTCATTCTGTTTGTCTCTGGTGACTCCTGTCTGTCCCTGTGTTGGTCCGTCTTCATGTTTTTTTTTTTTAACCCTTGCCTGAGATCAACACGTGCACAATGCTGTATTTATTTATGGCTGCGCTGGATCTTCATTGCTGCATGCGGGCTGCTGTCTGGTCGTGGTGCGCAGGGTTCCCATTGCAGTGGCTTCTCTTGCACAGGCTCTAGGCGCACAGGCTTCAGCAGTTGCAACACTGGGGCTCAGCAGTTGTGATCTGCTGGCTCTAGGGCTTGAGGGCTTCAGTAGTTGTGGCACAGAGGATCATTAGTTGTGGCTCTTGGGCTCTAGAGCTCAAGCTCAGTAGTTGTGGTGCACGAGTCAATTTGCTTTGTGGCATGTGGGATCTTCCTGGACCAGGATTCGAATCCATGGTCCCTGCATTGACAGGCAGATTCTTATCCACGATGTCACCAAGGAAGTCCCTTTAAAAAAATATTTATTTACTTATTTGACTATGCTGGATCTTAGTTGCAACAGGTGGGCTCTAGGTCCCTGATCAGGGATCAAATCCAGGCCCCCTGCATTTTGAGCACAGAGTCTTAGCCACTGGACTACCAGGGAAGTCCCCTGTCTCTATGTCTTGGGCTCTCTGACTCTCCCTGTGTGTGCCTGTTGCTGCCTCCCCCTTTATCTCTATCATGAGGACTCAGTCTCTTGGAGGCCTCCGCCTATCCACTGGGAGGGTCTATCCACTTGTCTCCTCTGCCATCCTTTGGAGCATCAAGGACGCTGGGCTGTGTGCACAGGGCCTTGATCCAGGAGAGTCTCTCAGGCCCAGGAGCTCTAGGCCAGTGAATGTGGTGGAAGGAGGGGGAGGCGGGGCACCGGAGGTGGACTCCCCCAGTACAGCCACCCCCCCTTTTTCCAG
Seq C2 exon
GGTTGCAGTGGAGATGAGCGGGAGATGGCCAAGATGGTTGCTGACACTGTCTCCCGGACTGAGAAGCAAGTGGTGGTGGAGGGGCAGGAGCCGGCCAACTTCTGGCTGGCCCTGGGCGGGAAGGCCCCCTATGCCAGCACCAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:14
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=0.061
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(48.6=56.7)
A:
NA
C2:
PF0062617=Gelsolin=PD(48.6=69.4)
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:
CACATCCCGGGCCAACAG
R:
CTCTTGGTGCTGGCATAGGG
Band lengths:
321-1386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]