DreINT0140641 @ danRer10
Intron Retention
Gene
ENSDARG00000016464 | si:ch211-89p3.3
Description
si:ch211-89p3.3 [Source:ZFIN;Acc:ZDB-GENE-041014-372]
Coordinates
chr20:35291975-35292344:+
Coord C1 exon
chr20:35291975-35292059
Coord A exon
chr20:35292060-35292220
Coord C2 exon
chr20:35292221-35292344
Length
161 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTG
5' ss Score
9.04
3' ss Seq
CATTATTTGTGTGTGTTTAGAGG
3' ss Score
6.54
Exon sequences
Seq C1 exon
GTCCGGCCATTAAACATGGATGGCTCTTTGAATCTCCTGGGCCTAGAAACGGTCAGACTCATCTACTTCAGAAACAAGACCGCAG
Seq A exon
GTACTGTAATAGCAGTGACTTCGTAACTCAGTCAAATGCATTCATCATGGCTCTTGTTGGGTTCTGATGTTTGAGCTTTTGGTTTAGTACTGCTGTTTGAAATATTAAATATGTGCAATTGGAATAATGTGTCTGATAATGCATTATTTGTGTGTGTTTAG
Seq C2 exon
AGGGGGATGAACTGGTGGTGCCTGAAGTGTGTGATAACAGCAGAAAGCAGATGGTGCGAAGCATGAGCAACAAGAGACGATTCTCGTTTCGTATTCCTGAGGAGGAGAGACTGCAGCAGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000016464:ENSDART00000040456:32
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=0.452
Domain overlap (PFAM):
C1:
PF0078017=CNH=PD(2.7=24.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATTAAACATGGATGGCTCTTTGA
R:
CTCCTCTGCTGCAGTCTCTCC
Band lengths:
202-363
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]