DreINT0060188 @ danRer10
Intron Retention
Gene
ENSDARG00000076426 | dsg2l
Description
desmoglein 2 like [Source:ZFIN;Acc:ZDB-GENE-120229-2]
Coordinates
chr2:2275593-2276010:+
Coord C1 exon
chr2:2275593-2275727
Coord A exon
chr2:2275728-2275824
Coord C2 exon
chr2:2275825-2276010
Length
97 bp
Sequences
Splice sites
5' ss Seq
ATAGTAAGT
5' ss Score
8.65
3' ss Seq
ATGATGTGTGTGTTTCTCAGTAT
3' ss Score
7.63
Exon sequences
Seq C1 exon
AAAATAGACTCGTACACACTGACCGTTAAAGGCACTGACATGAACGGAGCTCCAGGGGGAAATTCAGGAACAGGGAAAGTCGTCATCAATATTCTTGATGTCAATGATAACGTTCCTACTCTGGAGAAGAACATA
Seq A exon
GTAAGTGTTTTCTTTATTATAATGATGATGATTATCCTTTGGTCATTTAAGAAAAGAGTCTGTTAAGTCTTACAGGAATGATGTGTGTGTTTCTCAG
Seq C2 exon
TATGAGTGCAGGGTGGAGGAAAACACCAGATTTGTCGAAGTGGTGAGAATTCAAGCTATCGATGCGGATCTGATCTACACCGATAACTGGCTGGCCGTCTTCACACTGGTGTCAGGAAATGAGGCCGGTTATTTCTCCATAACCACAGACAAAAAAACCAACGAAGGCATCCTCATGCTCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000076426:ENSDART00000109073:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.156 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=PD(32.3=68.9)
A:
NA
C2:
PF0002812=Cadherin=PU(59.2=98.4)
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:
GGGGGAAATTCAGGAACAGGG
R:
GAAGACGGCCAGCCAGTTATC
Band lengths:
183-280
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]