DreINT0083564 @ danRer10
Intron Retention
Gene
ENSDARG00000014655 | itpr1a
Description
inositol 1,4,5-trisphosphate receptor, type 1a [Source:ZFIN;Acc:ZDB-GENE-070604-3]
Coordinates
chr6:39947568-39947959:+
Coord C1 exon
chr6:39947568-39947612
Coord A exon
chr6:39947613-39947804
Coord C2 exon
chr6:39947805-39947959
Length
192 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGT
5' ss Score
7
3' ss Seq
TTCCACTGTTTCTCTCTCAGATG
3' ss Score
11.17
Exon sequences
Seq C1 exon
GTAAATCCAGACTATGAAGAAGAATGCCTGGAGTCCCGCTCCTCT
Seq A exon
GTGAGTGTGTGCTTGAGTGTGTGTGTGTCTGTGTGTGTGCCTGTGCTTTTTCCCTTGCATCTGAGCTCTTCTGAATTCATAGCTTGAGCAATTTGAGGGTTTCTTTAGCATTTTTATACACACCTTAGCTTAGCTAAAGCAGAAAGTGAATGTGAGTGTGTGTTCATGGTTCTTCCACTGTTTCTCTCTCAG
Seq C2 exon
ATGGATTCGGAGCATGAAGTGATTCGGGCTCGTGCACGTAACCCTCAGGATAAGGTGATGTACACACTGGTGTCTGTTCCTGATGGAAATGACATATCCTCCATCTTTGAGCTTGACCCTACAACTTTGAGGGGCGGAGACTCACTTGTGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014655:ENSDART00000149019:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.333 A=NA C2=0.173
Domain overlap (PFAM):
C1:
PF0281514=MIR=FE(7.0=100)
A:
NA
C2:
PF0281514=MIR=FE(25.4=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:
AATCCAGACTATGAAGAAGAATGCCT
R:
GGCACAAGTGAGTCTCCGC
Band lengths:
194-386
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]