BtaINT0143730 @ 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
chr8:101645131-101646845:-
Coord C1 exon
chr8:101646675-101646845
Coord A exon
chr8:101645305-101646674
Coord C2 exon
chr8:101645131-101645304
Length
1370 bp
Sequences
Splice sites
5' ss Seq
AACGTGAGC
5' ss Score
6.06
3' ss Seq
AAGTAGTTGTCACATTCTAGGCA
3' ss Score
2.62
Exon sequences
Seq C1 exon
ATTGCCCGTCTTTAGAAGGATCAGTACCTCATCTGCGAACTGCATCAAGAGACGTAAAGCCAGGCTCCAAAATCAGTCTGTTCTGTGATCCAGGCTTCCAGATGGTCGGGAACTCTGTGCAGTATTGCCTGAATCAAGGACAGTGGACACAACCATTGCCTCGCTGTGAAC
Seq A exon
GTGAGCAGCCTTTGTTGAAGGCATTTCAGTAGCTCTTGAAAATTACTGAAACCCTAAGAACACTTTTTGAGGAATGCTAGATAAAAGTGAAGTACTTCTTAACAGCCAATATAGCAGATACTCATTACTTTCTTTGTGTAATGAAGTGTGCTGGGCACCATGAGGGAGGTGGGAAATGAGGATACAGAGAGCACACCACCCGTGAAGGCACCCACGTGGCCCAAGGAAATGAATGGAGGGAAAGACAGGTGTGAAGCCTGGAGCCCAGAGGGAGACGGGCCGTTGCTGGGTGGGAAAACAGGGCTATATCTCTTTAAGTTGGATGCACCCATGCATTCATTTATTCAACAATTTTGAAAGTACCTAGTATGTGCTAGACACTGAACTAAGTTCTGGAGATACAGCAGTTGGGGAAACTCTTTCTGTGGAGTTTACATTGTAGTAGGAAAGGCAAGAAGTAACAAGTAACATTATTATTTACAGTAAGTAAGAACAGCAAATGCAGAAGTAAAGGCTTTGAAGAAAACTAAAGTGGGGTGGTGCTTTGGTGGTTTGGCCGCTCAGTTGTGTCTAACTCTCAGGACCCATGGACTGTAGCCCTCCAGGCTCCTCTGTCCATGGGGTTTCCCAGGCAAGAATACGGGAGTGGGTTGCCATTTCCTTCTCCAGGGTATTTTCCCAACCCAGGGATCAAACCTGTGTCTTCTGCATTGGAGGCGGGTTTTTTAGCGACTGAGCCAGCAGGGGAAAGGCAGGATAGGAAGATATAAAGTGAGAGGGTTGGGTGGAAGCAGGACTGCTATTGTAGACAGGGTGATTGGGGAAGTTCCTCCATAACATCTCTTTCCCCCTGGGGCATATTTATCTGTTTCATGTGTCTCATCTCTGACTAGACACTACACTTTGTAAGGCAGGGATTTTGTCTGTTTGGTTCAACCTAAGCACCCAGACAATGTCTAGCAGGTAGTGGGGTCACCATAATTTTCTTTTCAGTATTTATTTATTTGGCTGTGTTGGGTATTAGTTGTGACACTTTAGATCTTTACTTGCGGCATGTGGGATCTAGTTCCCTGACCAGGAATGGAACCCAGGCCCCCTGCTTTGGGACCGCAAAGTCTTAGCTACTGGACGACCAAGGAAGTCCCTCCATAAATATTTTTTTAAATGAATGAATTGCATGCCCATTGTGAGCCAGACACTGTGCTTGATGCTCTGGGCTCAAGCGTGGCTGCAGCCTGCCACCACCCCTGTAGTATTTTCAGTGTAATGTTTGTGTGCATCGAAGAGTTCATGCTTAACTCAACTACAGGTTTAATATAAATAAGATGTTCATTGAGTATTTTGCTCCTTAAGTAGTTGTCACATTCTAG
Seq C2 exon
GCATTAGCTGTGGGGTGCCACCCCCTTTGGAGAATGGCTTCTATTCAGCTGAGGACTTCCATGCTGGCAGCACAGTGACCTACCAATGCAACAATGGCTACTATTTGTTGGGTGATTCAAGGATGTTCTGTACGGATAATGGGAGCTGGAATGGCATTTCACCATCGTGTCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020243:ENSBTAT00000001939:30
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.052 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=PD(94.8=94.8)
A:
NA
C2:
PF0008415=Sushi=WD(100=91.5),PF0764510=EGF_CA=PU(0.1=0.0)
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:
TTGCCCGTCTTTAGAAGGATCA
R:
TGGTGAAATGCCATTCCAGCT
Band lengths:
334-1704
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]