DreINT0136758 @ danRer10
Intron Retention
Gene
ENSDARG00000078451 | si:ch211-165b19.4
Description
si:ch211-165b19.4 [Source:ZFIN;Acc:ZDB-GENE-070912-132]
Coordinates
chr9:32844620-32845119:-
Coord C1 exon
chr9:32844957-32845119
Coord A exon
chr9:32844881-32844956
Coord C2 exon
chr9:32844620-32844880
Length
76 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTT
5' ss Score
7.64
3' ss Seq
TGATTTTCTCTTCTTTGCAGTTG
3' ss Score
10.28
Exon sequences
Seq C1 exon
CAACAATGATCGGAGTCACTTTGAGGTTGTACTTGGAGCCCACAACATCAGCAAACATGAGAAAAGCCAGCAGAGGATTCAAGTAAAAAAACATATCCAGCATCCTATGTTTCTAAACAGCAACAATGAAAAGGACTACAGCTATGATATCATGTTGCTAAAG
Seq A exon
GTATTTTCATCTTAACCTAACGAAACTCAATGTTATGTTTTTTTCTCTCTGTAAAATGATTTTCTCTTCTTTGCAG
Seq C2 exon
TTGAAGAACAAAGCTAAGATCAACAAATTTGTTAAAGTTTTGTCTCTTCCTAAAAAAAATGAGAAACTTCCAGAAAATGTCAAATGCTCAATAGCTGGCTGGGGGACGAAAGAATCAAATGGAAATAAGCCATCAGATGTACTGGAGGAAGTCACTGTCAAACTGCAGAACAACCATGAATGTGAAAGAAAATGGCAGCAACATTTTAACCCTGAAAGAATGTTCTGTAGTGTCTCAGATGGGAAACATGCTTTTTGCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000078451:ENSDART00000078399:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.127 A=NA C2=0.080
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(23.8=100)
A:
NA
C2:
PF0008921=Trypsin=FE(37.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
AAACAGCAACAATGAAAAGGACT
R:
TTGATTCTTTCGTCCCCCAGC
Band lengths:
167-243
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]