BtaINT0159744 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107162117-107162899:+
Coord C1 exon
chr2:107162117-107162261
Coord A exon
chr2:107162262-107162710
Coord C2 exon
chr2:107162711-107162899
Length
449 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATT
5' ss Score
8.55
3' ss Seq
GACTCTGGGATGCTCCACAGGTC
3' ss Score
7.16
Exon sequences
Seq C1 exon
GCTGCAGGAGGAAAACTTGGTCATCACTCCCCGGCTCTTTGAATGTTCCAACCAGACTGGGCGCTTCCTGGCCACAGAGATCCCTGACTTCAATCAGGATGACTTGGAAGAGGATGATGTTTTCCTGCTAGATGTCTGGGACCAG
Seq A exon
GTAATTTTGAGGCCTGGGGACCGCCCTTCCGACCACCCTAATCCCAGGGCCAATAAATAGTGGCTTTAAGGATAGGTAAGGTTTGATGTTTTCTTGGCTTCCATATACATTTTCTCTGAGATTGGTGTTACGAACAGCAGGAGCATAAGAAAGAAGAAGGCAGGTCAGAGAGGAGGATGCCCAGTGGGGCTGCAGGGCACGACGTGTACTCCCAAAGTCCAGTTGATTTTATGAGGCAGAGGAGTGTTTCTGAGGGTCTTTGGCTCTGAAGAGGCTGGGAGTCACACATCTACAGAATATCGAAGTAGAGGGCATCTGTCCAACCCCAATTTCCAGAGGCAAAGTTAAGGCCGGATGGGGCCTGCCTAAGGTCAGGGTCCACAGCAGGATGTCTGAGCCTGGGTGAGCCGAGGGTGGGCAGGGGAGGCTGACTCTGGGATGCTCCACAG
Seq C2 exon
GTCTTTTTCTGGATTGGGAAGAATGCCAATGAGGACGAGAAGAAAGCCGCAGCCACCACAGTGCAGGAATATCTCAAGACCCACCCCGGCGGTCGGGACCTTGAGACCCCCATAATTGTGGTGAAGCAAGGGCACGAGCCCCCTACCTTCACAGGCTGGTTCCTGGCTTGGGATCCCTTCAAGTGGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:16
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=0.302
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(34.2=55.1)
A:
NA
C2:
PF0062617=Gelsolin=PD(63.3=79.4)
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:
GCTGCAGGAGGAAAACTTGGT
R:
ATTCCACTTGAAGGGATCCCA
Band lengths:
334-783
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]