DreINT0132422 @ danRer10
Intron Retention
Gene
ENSDARG00000009123 | sele
Description
selectin E [Source:ZFIN;Acc:ZDB-GENE-041014-221]
Coordinates
chr20:34073096-34073614:-
Coord C1 exon
chr20:34073563-34073614
Coord A exon
chr20:34073483-34073562
Coord C2 exon
chr20:34073096-34073482
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
CCAATGTTTCATTTCTGCAGCGC
3' ss Score
8.72
Exon sequences
Seq C1 exon
GACATTTGCAACAAGTTGCAGTTCTTTGCTTCGTTTGTTCTTATCTCTTCAG
Seq A exon
GTAGGAAAGTAAACCATATAACTGCATACTGTAAATAGTTCAAATAGTTCATTAATAGTTCCAATGTTTCATTTCTGCAG
Seq C2 exon
CGCTAAACTTATGGAGATGCAGTGAAGGTTGGTCATACCACTACTCAGACTCCACCATGACATGGCAAAATGCCAGAAACTGGTGCAGGCAGCACTACACCGACTTGGTGGCCATCCAGAACAAAAATGAGATTGCTCACCTCAACGGAATTCTTCCAAGACGCAATGGCTATTACTGGATTGGTATTCGTAAAATTAATAACCAGTGGACCTGGGTGGGAACTAACAAAACACTTACTGCTGAAGCTGAAAACTGGGCAGAAAAGGAGCCCAACAACAAAGGAAATAATCAAGACTGTGTGGAAATATATATTCAAAGAGAGAAAGATGAAGGTAAATGGAATGATGAATCCTGCTCAAAATCAAAGACAGCGTTGTGCTACACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009123:ENSDART00000136834:2
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=0.069
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005916=Lectin_C=WD(100=86.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAAGTTGCAGTTCTTTGCTTCGT
R:
TTTTGTTCTGGATGGCCACCA
Band lengths:
167-247
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]