DreINT0041431 @ danRer10
Intron Retention
Gene
ENSDARG00000067672 | card9
Description
caspase recruitment domain family, member 9 [Source:ZFIN;Acc:ZDB-GENE-060531-94]
Coordinates
chr5:50511688-50512316:-
Coord C1 exon
chr5:50512128-50512316
Coord A exon
chr5:50511724-50512127
Coord C2 exon
chr5:50511688-50511723
Length
404 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
TAATTTTGTTTACTCCTCAGAAC
3' ss Score
6.7
Exon sequences
Seq C1 exon
GCTATTTGTACGAGAGAGGAGTACCATCTGGAAAACTCAAAAAATCTCCAAGACAAAGACCAGTACCGCAAGCAGATCCGGGAAATGGGAGAACGCTATGATGAACTTCAAGTCCAGTTGTTTCGAACTCAAGGAGAAGTTCTTGCTCTTCAAGCTACACTTCGCAAACAGAAGAGCCCCATTCGAGTG
Seq A exon
GTATGTTCGCTTGAAAACCACCACTCTGTTACATAGAAATGGCATTATAGACCATTTTGAGGGATGTAAACAAAAACAGTGGTCCCAATGTTTTTCCTGTTTTACGTTTTTAATTTCTATAGCTTCCGAGAATCCAAAAAGAGCCACATATTGATAAATAATGTTATCATAGCTAATTTAATATTATGTTATGATTGAATTGCCTCTTGTTACAGTTATGAAATAGTTTGATAACAAGCAGGAAATGTTCATAGGCCAATGACATGACCACATTTAAATGATCTATACGGTATGTTTGAATGGAAGAGATGAATCATTAGATGTGTTACTCTAAGTTACTCATGGCCACTGGGTATTAGTTTAAAATAAAAAGCATGTTGATTATAATTTTGTTTACTCCTCAG
Seq C2 exon
AACTCAGGAGAGAGTTCCTTGCTGAGTTCATTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000067672:ENSDART00000097471:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.413 A=NA C2=0.417
Domain overlap (PFAM):
C1:
PF115593=ADIP=FE(56.9=100)
A:
NA
C2:
PF115593=ADIP=PD(8.3=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTATTTGTACGAGAGAGGAGTACC
R:
TCAAATGAACTCAGCAAGGAACTCT
Band lengths:
224-628
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]