BtaINT0143742 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020243 | SVEP1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:HGNC Symbol;Acc:HGNC:15985]
Coordinates
chr8:101603665-101605268:-
Coord C1 exon
chr8:101605095-101605268
Coord A exon
chr8:101603842-101605094
Coord C2 exon
chr8:101603665-101603841
Length
1253 bp
Sequences
Splice sites
5' ss Seq
AACGTGTGT
5' ss Score
3.87
3' ss Seq
TTTTCTTTTCTTTTTAACAGCAA
3' ss Score
10.6
Exon sequences
Seq C1 exon
AGATCATGTGTGAAGCTCCACTTAAGTTTCTGAATGGGAAAGCTGAAGTTGAAAACAGTACCGCTGGGCCCAGCGTGATATACTCCTGCAACAGAGGCTACAGCCTTGAAGGGGCGCCTGAGGCTTCCTGCACAGAAAATGGGACTTGGAGCCACCCTGTTCCTCTCTGCAAAC
Seq A exon
GTGTGTGTTGACCATAGAAGGGGTTTAAATCAGATTCAGTTTCCCCGGATGTCTAAAACATAGTAGAAACTCCATTGATAAGTGAGATTGGCCCAGAGAAAGAAATCTGTGCATATCCAAGCCGAATACTATGGGGTGTTTTAAAAATCAACTGTATTGTATAAAATAGCCTGTCTGAGAATCAGCTTTCATAAGATTCCTTAGATGAGTACAAGTCCAAAAACACTCACAGAAAATGCAACTTAATTAAAAAAAATTTGACATAAATGTATAATGAATTGCATGTGATAGGAGTAATGAAAGAAAATATATTTGATGTTCAATATTAATATAATAAAGTAAACATAAATATAGTGTATGAAGATAATTAGCTATAGCCACTGGAATGAAAACAATATTCCCAAGCAAGGTATAAATTGAGAAAACTCTAGCTATTGTTTAAAGTATTACAACACATTAATCAAACCTTTGGAAGTCAGCTGACACCCTTCTTACGAACAAAGACTTCGTTTGTGCCCATTGAAAATTAGAAAAACTGAAATTGCGTGAAATTGGTGTTGTATGTGCATCACAGTCTTACACTAAAAGCACACTTCCTGTTTTTCCTTCAGACCCGAAGAAAAATGAGTCCATTTTTACCAAAAAGCCTGGGAAACTCTATAATTTCAGCTCTGATGCTCTGATAGAGTAGTGTGGGTCTAAAGTTATATTCAGCTCTCTGAGAAATGTCTGACTTTTCTCTGGCTCATCCTTCTGAAGGATGTTCAGTAAAAGAAAGTACAGGGACAGTAGGAAGCGTTCATCCCATGTTCTTAATAGTCTTCAAACATGAAGGGGATATTTGATATACTCCTTGGTTTCTAGCACAGCTTTGGTTTCACTGGTGAAGGGCTGCAGTTGTGAACAAGCCTTTAATTTTCCATCTTAGAATTTTAGGACCACGCGTTAGTGGTTGAATAGCTTGATGTTTTCAGATCTTACCTGTTTTATCCTGACAAATAATTCCATGGGGATGCAAACTAAGTCTATTTAATGTTTGAAGTTCTATATTTTGAAGTATCATCTTACCTATTTTATCCTGACAAATAATTCCATGGGGATGCAAACTAAGTCTATTTAATGTTTGAAGTTCTATATATTTGAAGTATCATCACTGGGAACTCAACTCTGGCAGAGTTCATACTCTGCCTTCAAAGAAACAAACTAAAAAAGGAGAGAAAATACCAGTAAGCATTTTCTTTTCTTTTTAACAG
Seq C2 exon
CAAATCCATGCCCTGTCCCATTTGTGATCCCTGAGAATGCTGTGCTTTCTGAAAAGGAGTTCTATGTCGATCAAAACGTGTCTATCAAGTGTAGGGAAGGCTTCCTGCTCCGGGGCCAGAGCACCATCACATGCAACCCCGACGAGACGTGGACACAGACAAGCGCCAAATGTGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020243:ENSBTAT00000001939:42
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:
PF0008415=Sushi=WD(100=91.5)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGATCATGTGTGAAGCTCCACT
R:
CACATTTGGCGCTTGTCTGTG
Band lengths:
348-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]