DreINT0132423 @ danRer10
Intron Retention
Gene
ENSDARG00000009123 | sele
Description
selectin E [Source:ZFIN;Acc:ZDB-GENE-041014-221]
Coordinates
chr20:34072845-34073482:-
Coord C1 exon
chr20:34073096-34073482
Coord A exon
chr20:34072956-34073095
Coord C2 exon
chr20:34072845-34072955
Length
140 bp
Sequences
Splice sites
5' ss Seq
CGGGTAGGT
5' ss Score
8.53
3' ss Seq
TGCTGTTGTCTTTACCTTAGCTT
3' ss Score
6.71
Exon sequences
Seq C1 exon
CGCTAAACTTATGGAGATGCAGTGAAGGTTGGTCATACCACTACTCAGACTCCACCATGACATGGCAAAATGCCAGAAACTGGTGCAGGCAGCACTACACCGACTTGGTGGCCATCCAGAACAAAAATGAGATTGCTCACCTCAACGGAATTCTTCCAAGACGCAATGGCTATTACTGGATTGGTATTCGTAAAATTAATAACCAGTGGACCTGGGTGGGAACTAACAAAACACTTACTGCTGAAGCTGAAAACTGGGCAGAAAAGGAGCCCAACAACAAAGGAAATAATCAAGACTGTGTGGAAATATATATTCAAAGAGAGAAAGATGAAGGTAAATGGAATGATGAATCCTGCTCAAAATCAAAGACAGCGTTGTGCTACACGG
Seq A exon
GTAGGTAGCTTTTACGGATTTATAAGATCTTGTATGGCCTTCCAACCAATGCATTTAGATGAAAATGAAAAGTCATTCTGCTGTATTTGTTGTATAAATACAACCATCATCAAATAAGTATGCTGTTGTCTTTACCTTAG
Seq C2 exon
CTTCCTGCGCGAGTGACTCCTGTGTCAGTGGTCATGGAGAGTGTGTAGAAACCATAAACAGTCATACATGCTCATGCTTTGAAGGCTTCTATGGAAAAGTATGTGAAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009123:ENSDART00000136834:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=84.2),PF0008415=Sushi=PU(4.5=7.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCTTCCAAGACGCAATGGCT
R:
GAGTCACTCGCGCAGGAAG
Band lengths:
256-396
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]