DreINT0020479 @ danRer10
Intron Retention
Gene
ENSDARG00000013526 | SVEP1
Description
sushi, von Willebrand factor type A, EGF and pentraxin domain containing 1 [Source:HGNC Symbol;Acc:HGNC:15985]
Coordinates
chr7:24056289-24057634:+
Coord C1 exon
chr7:24056289-24056402
Coord A exon
chr7:24056403-24057432
Coord C2 exon
chr7:24057433-24057634
Length
1030 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAAT
5' ss Score
4.06
3' ss Seq
TTTTGGTCATTTATGTGTAGGTC
3' ss Score
6.57
Exon sequences
Seq C1 exon
GCTTGCTGTGTGAGGCAGAGGTGAACGAGTGCAGCTCTTCTCCATGCCTGAATGAAGGAATCTGTGTGGATGAAGTGAATTATTTTTCGTGTAGCTGTCCAGATGGATTCACAG
Seq A exon
GTCAATACATTTCACTCACATATAATGTCATTTATTAAAATAAAGTTTTTAAGATGTTTTAAGGATATCTACAGTTAGGTTCATAAATATTTGAACATTAACACAATTCTAACATTTTTGGCTCTTTACACTTACACAATTGATTTGAAATGATGTGGCAACACAGTGGCGCAGTAGGTAGTGCTGTCATCTCACAGCAAGAAGCTTGCTGGGTCGCTGGTTCATGCCTCGGGTGGGTCAGTTGGAGTTTCTGTGTGGAGTTTGCATGTTCTCCCTGCGTTCTTGTGGGTTTCCACCGGGTGCTCCGTTTTCTCCAAAATGCGGTACTGGTGAATTAAGTAGGCTAAATTGTTTGTAGTGTATGAGTGTGTGTGTGGATGAGTTGGTTGTTTGTTCCGCTGTGGCGACCCTGGATTAATAAAGGAACTAAACCGAAAATAAAATGAATGAATGTATGAATGAATGAACAAGATGTGCCTTAACTGCTGGCTGTCAGCTTTAATTTGAGGGTGTTTACATCCAAATTAGGTGAGTGTTGGCATATGTGCCTCCCACTTGTTAAGGGTCCAAAAGTAATTGGACAATTGGCTTCTAAGCTGTTCCATGGCTAGGTGTGTGTTATTCTCTCATTATCCCAATTATTGTTGTTGTATAGGCAAAAATGTTAGAATTGTGTCGATGTCCAAATATTTATGGACGTAACTGTATAAAAGCTAATGTGCTCCAAAACAGTACCAAAATTTGCGTTTAGAAGATACACACCTGAAATATTAATTTCTGCCTAAATAGAGAAATCATTTTTGATCACCACATACTACAGTTTCCCCTTCAAGACACCTCTCTTTTGCATTTAATTTGAAACAAAATACTATTCTCTGTTTTTAAAAAGAGGAGCAGCTACACTATTTTCCACTCTCTTTACATCAAACATCAAATAAAAATGCACGTTTCAAAGCACTTCATAGGACTTTTAAATTGTATAACAGCAATCTTCAAATTACACATAATGTTTTTGGTCATTTATGTGTAG
Seq C2 exon
GTCCACGTTGTGAGATGGAAATAAATGAGTGTGCCTCCAGCCCATGCCAAAACGAAGGTGTTTGTAAAGATTTGGAGGGTGGGTATTTCTGCACATGTGCTCAGGGCTTCACTGGCGACAACTGTGAGGTTGACGTTAATGAGTGCTACAGTGCCCCCTGTCTGAATGGAGGAACATGTGTGGACGCTATCAATGATTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000013526:ENSDART00000076882:17
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:
PF0000822=EGF=PD(6.5=5.1),PF0000822=EGF=PU(90.3=71.8)
A:
NA
C2:
PF0000822=EGF=PD(6.5=2.9),PF0000822=EGF=WD(100=45.6),PF0000822=EGF=PU(61.3=27.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTTGCTGTGTGAGGCAGAG
R:
TCATTGATAGCGTCCACACATGT
Band lengths:
310-1340
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]