BtaINT0160599 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006860 | VWA2
Description
von Willebrand factor A domain containing 2 [Source:HGNC Symbol;Acc:HGNC:24709]
Coordinates
chr26:35044751-35046055:+
Coord C1 exon
chr26:35044751-35045302
Coord A exon
chr26:35045303-35045929
Coord C2 exon
chr26:35045930-35046055
Length
627 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CCTCCCGTCTTCCCTTGCAGAAG
3' ss Score
12.71
Exon sequences
Seq C1 exon
GCTGCCAGGCCCAGTCGCTGGACCTGGTCTTCATGCTGGACGCCTCGGTCTCAGTGGGGCCCGAGAACTTCGCCCAGATGCAGAGCTTCGTGAGAAGCTGTGTCCTCCGGTTTGACGTGAACCCCGATGTGACGCAGATCGGTCTGGTGGTGTACGGCAGCCGTGTCCAGACAGCCTTCGGGCTGGACACCCACCTCAGCCGTGCTGCAGTGCTGCGGGCCCTGAGCCAGGCCCCCTACCTGGGAGGGGTGGGCTCAGCAGGCACGGCCTTGCTGCACATCTATGACAAGGTGATGACGGTCCAGGGCGGTGCCCGGCCTGGCGTCCCCAAGGCGGTGGTGGTGGTCACGGGTGGGAGCGGGGTGGAGGACGCGGCTGTCCCGGCCCAGAAGCTGAGGGACAACGGCGTCTCGGTCTTGGTGGTGGGTGTGGGGCCCGTCCTGAGGGAGGCACTGTGGAGGCTTGCGGGTCCCCGTGACGCCCTGATCCACGCAGCAGCCTATGCAGACCTGAGTCACCACCAGGATGCACTCATCGAGTGGATATGCAGAG
Seq A exon
GTGAGTGGGGGAATCTGCAACTTTGGGGTTGCCTCCAAAGGGCGGACCTCAGCCAGAGCCTTCATGGACATCCCTATGGGGACAGCAGCTCCTCCCAACTACCGGGGACTTTCCATGTGCTGGGCTCTGTGCTAAATCCCATAGTCACATGGAACCCTGCAGGAGGCACACACAACTGTCCCCATTTAAGATGCAGAGAATTTTAGACAAGCATCTCTCCCCAGACTTAATGTATGCACCCCACCTAAAAAGAAGAGATTTGTTAGGATATCCACCAAGACCCCAGGATGGCACTGACCTTGCTAGGAACAGACACAGCCAGGCTAGCCTGACTTCAAGCCTCCTTTTACTAGGAACATTCTCTGCACCTTTTTAAAAGCCTGTGGCCGTAATAATGATAGTAAGCACTGCTGTGTGCTCAGCCCATCTTAAAGAAAGCGGCTGCTTGCCTGCAGGCAAGCTGAATGGAGGCTGGGGCCCACCCGTGTGCTCACCTGTGGCTCAAGAGCCCACAGAGCCACTGTGACACCTGCTCTGGTGGCCTCACCTTCGTCCTGGGTGAGGGTAGGGTCCGCAGGGCTGACCCAGGCTGGGTCTGCTGACACGTCCTCCCGTCTTCCCTTGCAG
Seq C2 exon
AAGCCAAGCGGCCAGTTAACCTCTGCAAACCCAGCCCATGCATGAACGAGGGCATCTGTGTCCTGCGCAACGGGAGCTACCGCTGCGAGTGCCAGGGTGGCTGGGAGGGCCCCCACTGCGAGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006860:ENSBTAT00000009011:11
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=0.000
Domain overlap (PFAM):
C1:
PF0009223=VWA=WD(100=93.5)
A:
NA
C2:
PF0000822=EGF=WD(100=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCCTTGCTGCACATCTATGA
R:
AGATGCCCTCGTTCATGCATG
Band lengths:
344-971
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]