BtaINT0160817 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021568 | VWCE
Description
von Willebrand factor C and EGF domains [Source:HGNC Symbol;Acc:HGNC:26487]
Coordinates
chr29:40496679-40497825:-
Coord C1 exon
chr29:40497709-40497825
Coord A exon
chr29:40496808-40497708
Coord C2 exon
chr29:40496679-40496807
Length
901 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGG
5' ss Score
9.31
3' ss Seq
GTAGCGAGGCTCTCCCGCAGATG
3' ss Score
2.36
Exon sequences
Seq C1 exon
ACACTGATGAATGCCTTGGGACCCCCTGCCAGCAGAGATGTAAAAACAGCATTGGCAGCTACAGGTGTTCCTGTAGAACTGGCTTCCATCTCCATGGAAACCGGCACTCCTGTGTAG
Seq A exon
GTAAGGCCAGGGACCCTGCTGTCTTCATACTTAGGTTGCCAATCAGGAAGACTGACAGAGTGAGCCCAGGGACAGGGAAAGGTCAACAGTCTGGACCTCCTTGGTTCCCTGGAGCCTGCAAGTGCTTGAGCCTTTGCTCAGAGCCTACCTTTCCCTGGGGTTGGCGTGGCTCCTGATGGAAGACCCCGTCTTGGACTTTTCCTGGCCACATGCCACTTTCATGCTGTTATGTTTCTCTTCCACCCTCTCCCAGATACACCCCAAGGATTCCTCTCTGCTCACCCATTTTCTTGGCTGCCTTTGCTCCCCTTGGTAAATAAAGCACGTTATGTCTTGGTTCCTCTGGTTTAGAAGGAGACCCCTGTTTTCTCAGCCCATTAGCAGAAATTTCCAGAAAGGGATTGGCATGTTTGGCTTGAGCTTGGCTCATGGGTTGAAGGTGGGGTCCCATGGGCCTGAAAAAAGACCTTGTTCTAGCAAAGTTGGGTGTTTGTCCTGAAGCCTGCCCTGAGCAGTGCAGTGATTTTTTTTGGAGACTCTTTTTCAGAAGGGCCCACAGCACCCGATGCCCAACACTGGGATGGTGGAGGGTTTGGAGCCGAGATTCCCAATGGGGGCCCATCCCCACCAGCCAGCACTTAATCACTGCTGCACAGTGCTGGAGTGCGAGTCACTGGTGCATCCATTAAACGCCTACTGGATGTACAGACCTTCCAAGGGGACCAGCACTAGACTTCAGCCCCGTTCCCAGACTTCTGAGTCACGTCATCGCCCTGGGGCAGGGAAGGACCCCGTAAGAATACAGCAGGGAGACTTCCCCGGTCTTTAGGGCTAAGAGATGGAGGAAAGATAACTTGGTAGCCCTGACAAGGCAGCCGTCGGTAGCGAGGCTCTCCCGCAG
Seq C2 exon
ATGTAAATGAGTGTCGGAGGCCCCTGGAGAGAAGAGTCTGTCACCATTCCTGCCACAACACCGTGGGCAGCTTCCTGTGCACCTGCCGACCTGGCTTCCGGCTCCGGGCTGACCGAGTGTCCTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021568:ENSBTAT00000028738:6
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=WD(100=95.0),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.5)
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:
ACACTGATGAATGCCTTGGGAC
R:
CTTCACAGGACACTCGGTC
Band lengths:
246-1147
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]