BtaINT0159749 @ bosTau6
Intron Retention
Gene
ENSBTAG00000018543 | VIL1
Description
Bos taurus villin 1 (VIL1), mRNA. [Source:RefSeq mRNA;Acc:NM_001013591]
Coordinates
chr2:107150794-107152338:+
Coord C1 exon
chr2:107150794-107150868
Coord A exon
chr2:107150869-107152141
Coord C2 exon
chr2:107152142-107152338
Length
1273 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
TGGACGTGTTCTCTCCCTAGATC
3' ss Score
10.96
Exon sequences
Seq C1 exon
GCCATGCAGATGGTGCCTGTTCCTTCCAACTCCTTTGGCAGCTTCTTCGATGGTGACTGCTATGTAATCCTGGCT
Seq A exon
GTGAGTGGGGAATGGGCAGGGGAGGGGGCGCAGCAGAGAGCAAAGCTTAGGGCAGCAGCAGGAGGAACCAGGAAGCTGGGGGCAATGGGGACTGCTGCCCAGCTTCATCCCAAGATAGTGTTCAGTGGGCGTTCCCAGCCTAGCCGTAGCACCAGAGGGTCAGAGATCTAAGAGCCAATTGCTGCCCTTGAACCACTGAGCTCCCAGCTGGGGTGACCCTCTGTGGATTTATAGTCTTGGACGAGCTTCTGAACTGGTGGGATGTCACCCTACTTTGAGTCCATGTTCCCAAAATCCACAGTCAACTTCATTTGACTGTCTTGGTTTCTTCTGCATCCTGTATCATTAATGCATTTGTACTTTTACTGATTCACTTTTAAAATTTAAATCTATTTATTTAAAAACTTAACTCATGGAGAAGGAAATGGCAACCCACTCTAGTAATCTTGCCCGGAAAACACCATGGACAGAGGAGCCTGGCAGGCTACAGTCCGTGGGATCACAAGAGTCAGACACGACTTAGCGACTAAACCATCCACCACTACAAAGTGAATATATGCCTAAAGATAATATGTGAAAAGGATATTTGCCATATACTAGCTAGTTTTTTGGTGGGAGGGTGGGAGTCAAGGAAGACTTGGGATTATTTTTTCATCAACTTCCATTTTATACTTATTTATAATGGCCATTATTTTTACTAATACCGTAAAACTATGAAAATGAATAAAATACTAAAAGTTTCATATAAAAAAAACTTAACTCAGTGTCATTATCACAAATGGAAAGCAGTATCCCGTTTCACAAACAGAAAGTAGCTATAAAATATTTCCATAATCAGGGATTTCCTGGAAGACCGCTGGTTAAGACTCCACACTTCCACTGCAGCGGACATGGGTTCTATCCCTGGTTAGGGAACTAAGATCCCCTATGCTGAGAGGGGTGGACAAAAAAAATTTTCAAAGTCATCTCACTGTATACTACCAAGTCACCTCCTAGACCTCTGATGGTCTGTGCACATAACTTCGGAAAATGCTGCCGTAGTCCAACCAAGTTATTTCCAAGGCCCAGGGGAAGACACCTGCCCCATGTCTCAGAGGGTCTGAGGAACTACAACAACACAGGGCTCCTGACCTCTCATCCCATGAACTTCTCCATGCCAAGCTCCCCTGTGGTGCTGGCCCCACACGTTCAGGAGACCATGTAAAGCAGGGAGGCAGGGAGAGGACTGTGGGAGCCCAGGGCCTTGGGCCCACTGGACGTGTTCTCTCCCTAG
Seq C2 exon
ATCCACAAGACAGGCAGCAACCTGTCCTATGACATTCATTACTGGATCGGCCAGGCCTCGTCCCAGGACGAGCAAGGGGCGGCTGCCATCTACACCACGCAGATGGATGACTTTCTGAAGGGCCGGGCCGTCCAGCACCGTGAGGTCCAGGGCAACGAGAGTGACACCTTCCGAGGCTACTTCAAGAAGGGCATTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000018543:ENSBTAT00000024683:3
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=0.015
Domain overlap (PFAM):
C1:
PF0062617=Gelsolin=PU(28.9=96.0)
A:
NA
C2:
PF0062617=Gelsolin=PD(68.7=86.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGATGGTGCCTGTTCCTTCC
R:
TGCCCTTCTTGAAGTAGCCTC
Band lengths:
262-1535
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]