BtaINT0160815 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021568 | VWCE
Description
von Willebrand factor C and EGF domains [Source:HGNC Symbol;Acc:HGNC:26487]
Coordinates
chr29:40499767-40501934:-
Coord C1 exon
chr29:40501806-40501934
Coord A exon
chr29:40499884-40501805
Coord C2 exon
chr29:40499767-40499883
Length
1922 bp
Sequences
Splice sites
5' ss Seq
CCGGTGAGA
5' ss Score
8.72
3' ss Seq
AGTGTTTCCTCTCTCCCTAGACA
3' ss Score
10.54
Exon sequences
Seq C1 exon
AAGCCCACGGACCCTGCGGGGAATATGGCTGTGACCTCACCTGTAACCACGGCGGCTGTCAGGAGGTGGCCCGAGTGTGCCCCGTGGGCTTCTCCATGACCGAGACAGCGGTTGGCATCAGGTGTACCG
Seq A exon
GTGAGAGGCCTGGGAGCAGCAGAGAGGGGCGGGTGGGAAGGGGGTCTCCTCCCTGTCCTCCGAGGCCNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCCTTCCCCATAGATGCTACTGTGACCAGCTTCTTACTTGTCTTTCCAGAGAGCTTGAAAGCCATCCCCCACCCCCACCCTTGTGCCTTTTTAACATTTTGTGGAAATAAACATTTCTTCCCCTGAATATAAAAATAAAAAATAACTTACTTTGGAACATTTGGAAAGTAAAAGAAGGGTATAAAGGCGAAAATAAACATGTCCCAGAAGTTCCTACCCAGAGATATTTGTTACTAAAATGAAGTTGTTTTTTTTCCTGCCCTTCTCCCCTGGGTCTGTATGTGTACTTGTGTGTGTGGGACATGCCTCTCTGTCTGTTTTATAAAATTGGGATCATACCTTATCTATCACTTTCGTTCGTTGTTTTTCTCACTTTGTGCTGTGAGCAGGAAATATTAGTAGTCCTTACAACATCACTTTTAATGGCTGCAGATGTGGCTACTGTAATCTAAGTACCTACTTCTGTGCTATCCATCCTTAGCTTGTCTGCAGTGTTCGGCTGCTATGAATAATGCTTCAGTAAAGTGGCTTCTAGTTGGCCTCTCTGATTATTTCCAGAAGGAAGACTATTGGGTCAAAGGTCCCATGAAGGAGTTTTGGTGCTTACTCCTCCCCCACCCCCTTCCCCTCCTTTTTCAGAAGGTTGAAGTACTTTCCAGACACATTTCTCCTTGCAGAGGCAAACTGGAGTAAGGAAAAGCCAGAGACCAATGTCAAAGCAAGTGCAGGGCAGGGGAGTCACAGGGGTGGGATAGGGTGAGTCAGAGTGGATGTCTTAGAGGAAGTGGGCATAGTCCCAAAGGTGCCTGCCGTGGGAAGAGCAAGAAAGGAGAATGGAGGGGACCAGTAGGCATGGGGGCAGGGGGTGGAAGGGAGACTCAGGTGGGCAGAGTAGACTGGAGTGGGAGGAGCTGACCTCGTAGGTCTTCATGGTTCTGAGATAGGAAAGGATGTTTTGAAGCTGGGTGGGGGGGATTTCTGTCTCTCAGCCCCCTCCCTCCCCCAGGCTTGAACCTCCCTAAAGCAATATTGGCTCCCCCTGGACAGAAGCCTGGGGGCTCCTTTGTGCCCCACAGCTGAACCTTAACCCACCACCTCTCCAACTCAGCATCCCACCAGACTGCCCCCCTCCCCACTCCTCCACTGTGTTCCCTGTGCTTCCTGGAAGCTCCATTCGACAGCCCCATTCTTGATGCCACCTGGTCCTCTCAGCCCATGTCTCCTCCATCACACAACTGCTGTGGGGGGTGGTCCCTGGTGGGACACATACATAGCCCCTGCCCCACACTGGCCTCTCATGGATGTGCCTCATGACTCCTGTGTTCTCAGGCTGCAACCGTCTGGAGAGCCAGCACTGTGTCTTAGTCATGTTTGTGTCCTCGACAGATCCCTTCCAGGTCCACTGCATGCCAGCGGTGCTCCACAAGAACTAAAGGGAATTTAATCAACCTTCCTGCCCCTTCCCCTGGCCTTTTTTGGGTTGCCTTGCAGGTGAAACTGTTGGAAATAGTTCTATTTCAACCAGTCTCTCCCGTCATCTGTTCTGTGTGGGTCAGAAGAGGCCTGGCCCCATGGCCTCTTCTTTCTTGGACTGGGGGCCCCTAAAACCAGAAGATTTACCTAGTGTCTTCTTTCTTCCTGGGGTGGCAGTGGGGCATGCCCCATGTGGGCTCAGGGTCCTTGTGGGATGCAGTCCCTCCCCATAAACAAAACACGTTCAGAGTGAGCTATGTAAGAGTGTTTCCTCTCTCCCTAG
Seq C2 exon
ACATTGATGAATGTTTAAGCTCCTCTTGCGAGGGCCACTGCGTGAACACGGAAGGCGGGTTCGTGTGCGAGTGTGGGCCGGGCATGCAGCTGTCTGCGGACCGCCACAGCTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021568:ENSBTAT00000028738:4
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:
PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.0),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGAATATGGCTGTGACCTC
R:
CAGACAGCTGCATGCCCG
Band lengths:
208-2130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]