DreINT0136704 @ danRer10
Intron Retention
Gene
ENSDARG00000045752 | si:ch211-161n3.4
Description
si:ch211-161n3.4 [Source:ZFIN;Acc:ZDB-GENE-110913-46]
Coordinates
chr4:10953936-10954737:-
Coord C1 exon
chr4:10954423-10954737
Coord A exon
chr4:10954251-10954422
Coord C2 exon
chr4:10953936-10954250
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
ACCAACATGTCTTTGCACAGGTT
3' ss Score
7.31
Exon sequences
Seq C1 exon
ATCATAAACAGTCCAGACTTATTGACGGATCTCATCTGTGCTCTGGGAGGTTAGAGATCCTTCATGATCAGACGTGGATGTCAGTGTGTGATGCTGCATTTGACCAGCAGGATGCAGAGGTTGTGTGTAGAGAGCTGGACTGTGGGGCTCCTGCTCAGGTGCTGAGAGCTGCTGCTTTTGACAAAGGAGACACTCAGATGTGGACACAAGAGATTCACTGCAGAGGAGATGAGACTCGCATTTCATTCTGTTTAATGTCACAATCACACAAAAACAATTGCACAAATGCCAGTAGAGTAAGCCTGATATGTTCAG
Seq A exon
GTAAGGAAATAATGTACTGTACAGGGTCCTTAAATGTGTTACTGTACAGAACTTGTCTCATTGTTAAGTATTATTTGGCACTTCTTTAATCACTAAAGCATGTCTCTGTCTGCATGTTGTATAATAGACATTTTTGTAAAGGGCCTTACAATACCAACATGTCTTTGCACAG
Seq C2 exon
GTTACACGGATTTTCGACTGGTCAATGGTTCAGACTCTTGTTCTGGAAGAGTGGAGCTTCAGTATTTCAGTAAATGGGGCACAGTGTGTGATGCATGCTGGGATATGAGAGCTGCCAGTGTCCTCTGTAAACAGCTGAATTGTGGGATTGCTGTGTCTGTTGTGGGATCAGACTGGTTTGGAGAGGGAAGTGGTGAAATCTGGGCTGATGTGTTTGATTGTGACGGGAATGAAACAAAACTCTCCGAATGTTCAATCTCTTCATGGAGTCGAGCTGAACGTTCTCATAGACGAGATGTTGGAGTCATCTGCTCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000045752:ENSDART00000150478:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=92.5)
A:
NA
C2:
PF0053013=SRCR=WD(100=97.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATGCTGCATTTGACCAGCA
R:
TGACCAGTCGAAAATCCGTGT
Band lengths:
251-423
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]