DreINT0083756 @ danRer10
Intron Retention
Gene
ENSDARG00000061741 | itpr3
Description
inositol 1,4,5-trisphosphate receptor, type 3 [Source:ZFIN;Acc:ZDB-GENE-070605-1]
Coordinates
chr8:21303273-21303698:+
Coord C1 exon
chr8:21303273-21303445
Coord A exon
chr8:21303446-21303533
Coord C2 exon
chr8:21303534-21303698
Length
88 bp
Sequences
Splice sites
5' ss Seq
AATGTAAGT
5' ss Score
8.62
3' ss Seq
TGTTGTCTTTTTTTATCCAGCTC
3' ss Score
8.49
Exon sequences
Seq C1 exon
GTAGCATCGACTCTTCTCTTCTGCTCATGGGATTCTGGTGTTTTGCTGGACTGGCTGTTTTAGGCCTGCTATTCAAGCGATATGGGTTTCAGTCACTGACCGTTGCCATCACGCTGCGCTGCATCTATCACTTCGGTATTGGTCCGACACTCCTCTTGCTGGGGGCTCTCAAT
Seq A exon
GTAAGTCTTAAAGTAAAATTCGATTTGTATTATACAATACTACACGTTTGCTTATATACAAATAAATATGTTGTCTTTTTTTATCCAG
Seq C2 exon
CTCATCAATAAGATAGTGTACTTGGTGAGCTTTGTGGGAAACAACGGCACCTTCATCATGGGTTATAAAGCCATGGTAATGGATGTAGAATTCCTGTATCATGTGGCTTACGTGTTAACCAGCAGTCTGGGGCTGTTTGTCCATGAGTTCTTCTACAGCATATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000061741:ENSDART00000142836:40
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:
PF0052026=Ion_trans=PU(3.5=13.8)
A:
NA
C2:
PF0052026=Ion_trans=FE(23.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTTTGCTGGACTGGCTGTT
R:
TGTTTCCCACAAAGCTCACCA
Band lengths:
178-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]