DreINT0142003 @ danRer10
Intron Retention
Gene
ENSDARG00000062750 | si:ch73-74h11.1
Description
si:ch73-74h11.1 [Source:ZFIN;Acc:ZDB-GENE-091204-215]
Coordinates
chr20:17066350-17066753:-
Coord C1 exon
chr20:17066584-17066753
Coord A exon
chr20:17066485-17066583
Coord C2 exon
chr20:17066350-17066484
Length
99 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACA
5' ss Score
8.1
3' ss Seq
TCTGGACATTTTTTTTACAGAGA
3' ss Score
6.81
Exon sequences
Seq C1 exon
GAACACCTGTTATGCAGATAAGAGCTACTGATGCAGACGAGGAGGGCACAATCAATTCCAAAATAGCATACAGTATAATAAAACAATCCCCTGCAGAATCAGGAAATATGTTCTCCATCGATAGAGCAACTGGGAATGTCTATGTGAAGGAGAAAATCCTGGATCGAGAG
Seq A exon
GTAACATTAAACGGATAAAAATATCCCATGATATTTGCAGGTTCATGTAAAATGCAACATGATAGTTTAAATTCAGGTTTCTGGACATTTTTTTTACAG
Seq C2 exon
AGACATGATAAATATACTTTAATAGTTCAGGGAGTTGATATGGACGGACATCCATCTGGCAACACAGGAACAGGCACAGTGCATATTAATATTCTGGACATAAATGACAATGTTCCCACTCTTGAGAAAGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000062750:ENSDART00000148312:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.175 A=NA C2=0.333
Domain overlap (PFAM):
C1:
PF0002812=Cadherin=FE(56.0=100)
A:
NA
C2:
PF0002812=Cadherin=PD(31.0=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACGAGGAGGGCACAATCAAT
R:
TCCGTCCATATCAACTCCCTGA
Band lengths:
183-282
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]