DreINT0138656 @ danRer10
Intron Retention
Gene
ENSDARG00000042213 | si:ch211-233h19.2
Description
si:ch211-233h19.2 [Source:ZFIN;Acc:ZDB-GENE-061009-14]
Coordinates
chr18:8972917-8973262:+
Coord C1 exon
chr18:8972917-8973022
Coord A exon
chr18:8973023-8973109
Coord C2 exon
chr18:8973110-8973262
Length
87 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
GTGATTTTTCTCTCTTTCAGGTG
3' ss Score
14.04
Exon sequences
Seq C1 exon
GTGAATCTTAAATCTGGCACTAATATCCTGTACTGGAGAACTACTAGAATCTTGCTCGGCTCTAAAGCAGTCAAACCTGTGCTTTTGAAGAACATCTGGATTGAAG
Seq A exon
GTGAGGACATTCTATTCATTCTGCTACATTCTAATCTGAAAATGTTCATAGAAGGTTATACAACGGGGTGATTTTTCTCTCTTTCAG
Seq C2 exon
GTGTGGCGTACACATCAGAGTGTTTCCCATGTAAGCCTGGTACTTTCAGTCACAGCCCAGGCTCGTCCTCGTGTGATTCCTGTCAACGGGACACATACTCTGGCCGTGGGGCAAGCTCCTGTACACCCTGCAACACAAAAACACACTACGCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042213:ENSDART00000145226:6
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:
PF076998=GCC2_GCC3=PU(0.1=0.0)
A:
NA
C2:
PF076998=GCC2_GCC3=WD(100=84.6)
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:
GCAGTCAAACCTGTGCTTTTGA
R:
GTGTTGCAGGGTGTACAGGAG
Band lengths:
176-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]