DreINT0143834 @ danRer10
Intron Retention
Gene
ENSDARG00000061260 | si:dkey-202e22.2
Description
si:dkey-202e22.2 [Source:ZFIN;Acc:ZDB-GENE-141215-27]
Coordinates
chr11:34512327-34512671:+
Coord C1 exon
chr11:34512327-34512395
Coord A exon
chr11:34512396-34512500
Coord C2 exon
chr11:34512501-34512671
Length
105 bp
Sequences
Splice sites
5' ss Seq
ACGGTGAGG
5' ss Score
9.2
3' ss Seq
CTGTTATTTGGTGACTGCAGTGA
3' ss Score
3.48
Exon sequences
Seq C1 exon
GGAAGTGCAGCTGTAAGGAAAAGAAGCTGAAAAGCGCGGCTGATCTTTGCAAGATGAAACATGCATACG
Seq A exon
GTGAGGCTTTTTCATGATACGTAATGCTATGAATCGATTCAGTTGGCATTTGCTGTCTGAACAGGCATTTATAACTGATGAGTGACTGTTATTTGGTGACTGCAG
Seq C2 exon
TGATCAAAGCCAGTGTTCTGTCAGCTCACGATAAAGGCACACATGCTGTAGTCCTGGTGAAGGTGAGAAAGGTCTTCCGTTCAGGAAAACTGACGCTTTCTCAGGGCACACACACTCTGTACCCGCTGTCCTGGACCAGCCGTGGCTGCACCTGTCCCATCCTCAACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061260:ENSDART00000087216:8
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:
PF0175916=NTR=PU(9.4=41.7)
A:
NA
C2:
PF0175916=NTR=FE(53.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAAGTGCAGCTGTAAGGAAA
R:
TGGGACAGGTGCAGCCAC
Band lengths:
228-333
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]