DreINT0132424 @ danRer10
Intron Retention
Gene
ENSDARG00000009123 | sele
Description
selectin E [Source:ZFIN;Acc:ZDB-GENE-041014-221]
Coordinates
chr20:34072562-34072955:-
Coord C1 exon
chr20:34072845-34072955
Coord A exon
chr20:34072754-34072844
Coord C2 exon
chr20:34072562-34072753
Length
91 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
GACTTTTTTCTGCTGTTTAGTTG
3' ss Score
6.2
Exon sequences
Seq C1 exon
CTTCCTGCGCGAGTGACTCCTGTGTCAGTGGTCATGGAGAGTGTGTAGAAACCATAAACAGTCATACATGCTCATGCTTTGAAGGCTTCTATGGAAAAGTATGTGAAAATG
Seq A exon
GTGAGTAACATTTTCTGGTGATGTTTCCCATATCAGTTCTGACAATGAAAGGTGTAAAATCTAAACTGTGTGACTTTTTTCTGCTGTTTAG
Seq C2 exon
TTGTTAAATGTGAACCAAATGAAGTCAATGCATTGGATCATTCTAGTAAGCAGTGCTCTCATCCTCATGGAAACTTCGCATATGACTCTCAGTGTGAATATTCATGTGAGGAGGGTTATGAACTGAAGGGTTCCAGTACAACGAGATGCAATTTTACAGCGGAGTGGACAAGCAAACCACCATCTTGTGAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000009123:ENSDART00000136834:4
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=WD(100=84.2),PF0008415=Sushi=PU(4.5=7.9)
A:
NA
C2:
PF0008415=Sushi=PD(93.9=95.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGACTCCTGTGTCAGTGGT
R:
CCATGAGGATGAGAGCACTGC
Band lengths:
170-261
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]