DreINT0011222 @ danRer10
Intron Retention
Gene
ENSDARG00000039665 | FO834840.1
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:E7F8C1]
Coordinates
chr20:7379303-7379719:+
Coord C1 exon
chr20:7379303-7379472
Coord A exon
chr20:7379473-7379584
Coord C2 exon
chr20:7379585-7379719
Length
112 bp
Sequences
Splice sites
5' ss Seq
GAGGTATGT
5' ss Score
9.81
3' ss Seq
ATTCCTTTTCTTTTGAACAGGAA
3' ss Score
10.21
Exon sequences
Seq C1 exon
GTACGTTTGTAACTAAAGTTGAGGCAACAGACGCAGATGAGCCAAACACTCTTCACACTAAGATAGCATTCAGTATAATCAAACAAGAACCCAACAACAACAACCATTTCTTCACTATTGATAAAGACAGAGGAATAATCTCTCTGAAAAACCCAGCACTTGACAGAGAG
Seq A exon
GTATGTTTTCAGTTATAATGTTACTCCCATATGCCTGTTTATGTGTCTACTTTATAAAGAGATCATTCAGTCAAACAGTCTGGATGCATTTAATTCCTTTTCTTTTGAACAG
Seq C2 exon
GAAAACAGTTTGTATGTTCTTACAGTACAAGCTGCTGACATGTATGGAGATGCTACAGGAAATTCTGCTACAGTTACTATACCCATAGATATCCTGGATGTCAATGACAATATTCCCACTTTGGAGAAAGATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000039665:ENSDART00000057981:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.123 A=NA C2=0.067
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(57.1=100)
A:
NA
C2:
PF0002812=Cadherin=PD(31.6=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGCAGATGAGCCAAACACTCT
R:
TGACATCCAGGATATCTATGGGT
Band lengths:
242-354
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]