BtaINT0143732 @ 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
chr8:101642031-101642709:-
Coord C1 exon
chr8:101642533-101642709
Coord A exon
chr8:101642116-101642532
Coord C2 exon
chr8:101642031-101642115
Length
417 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
GTCGGTTTTCCTCCTTTAAGCTG
3' ss Score
7
Exon sequences
Seq C1 exon
AACCCATAAAATGCAAGACTCCAGGAAATCCAGAAAACGGCCACTCTTCTGGAGAGACTTATACCGTGGGTGCCGAGGTCACGTTTTCATGTGAAGAAGGATACCAGCTGGTGGGGGCGGCCAGAATCACATGTTTGGAGTCTGGAGAATGGAGTCATCTGATACCATATTGTGAAG
Seq A exon
GTATGTTGAGTAAATTCCCCATGTTTATGGTGTACAGCAGTGCTAGAAAGTCAGGGTGGAGAAATGCCAAGTGTGGTCCCAATATTTTTTATATTTAAAGCCCAAATTATGGACTGATATTTATTTTTGTAAAGATTTTTTTGATGTGAACCATTTTTAAAGTCTTTATTGAATTGGTTCCAGTTTTGTTTCTATTGTTCATGTTCTGGTTGGCCACAAGGCATGTACATCTTAGCTCCCTGACCAGGGATCAAACCCACACTCCCTGCATTGGAAGGCAGAATCTGAACCACCAGACCACCGGGGAAGCCCCTAGGCTCATATTTAAACGTGACCAAAATCCTGGAGCTGCCCTTAAAGAGATTTTTACACATACTGGCTAAGAAAAGTAATGCCTGTCGGTTTTCCTCCTTTAAG
Seq C2 exon
CTGTTTCCTGTGGTGCACCAGCTCTCCCAGAAAATGGTGGTGTTGATGGATCTGCATTTACCTATGGCAATAAAGTAATATATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020243:ENSBTAT00000001939:33
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.067 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008415=Sushi=WD(100=90.0)
A:
NA
C2:
PF0008415=Sushi=PU(46.3=86.2)
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:
ACCCATAAAATGCAAGACTCCAGG
R:
TTACTTTATTGCCATAGGTAAATGCA
Band lengths:
254-671
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]