DreINT0083601 @ danRer10
Intron Retention
Gene
ENSDARG00000014655 | itpr1a
Description
inositol 1,4,5-trisphosphate receptor, type 1a [Source:ZFIN;Acc:ZDB-GENE-070604-3]
Coordinates
chr6:39978451-39979075:+
Coord C1 exon
chr6:39978451-39978561
Coord A exon
chr6:39978562-39978979
Coord C2 exon
chr6:39978980-39979075
Length
418 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAT
5' ss Score
7.84
3' ss Seq
CATTTGTCTTAATTCTTCAGAAT
3' ss Score
8.23
Exon sequences
Seq C1 exon
AATTGCATTGCCACCCATGAGTCTAATGGCATCGACATCATTATTGCACTGATTCTGAATGATATTAATCCACTGGGCAGGAAGAGAATGGATCTGGTTCTAGAACTAAAG
Seq A exon
GTATATCATTTTACACTCAATTGACAAAGTAACAATACTTTTCAGTTGTAGTTTCTGAAGTTTGTGTAATTTTAAAGACTTGTAAAGCAGAAATTTTTCAGACGTTTTGAATTTTTTTTAAGGCTTTCAAGATATTTCTGGAAGATCTGTAATAATTGCATGAAAAAAGTTGCTCAATTTTTTTTTACAAAAACTAGGATTTATGCTATATTAAAATTAACAAATAATATTATTATAAATATTTAAATTCCATAATTCTAGAATGTTTTTGTAATAATATTATTTCAGTAAAATATTGTGTTTCAATAATATTTAATTTTATTTATTTTAATATATCTGTTAAATATTCAGTTTTTGAAATATTCAGATATTTTTTAAAATTGTATCTTGTGAACCATCATTTGTCTTAATTCTTCAG
Seq C2 exon
AATAATGCATCTAAGCTGCTGCTGGCCATCATGGAGAGCCGTCATGACAGTGAGAATGCAGAAAGAATTCTGTACAACATGAGACCAAAAGAACTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014655:ENSDART00000149019:45
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=0.062
Domain overlap (PFAM):
C1:
PF084546=RIH_assoc=PD(18.3=59.5)
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:
AATTGCATTGCCACCCATGAG
R:
AGTTCTTTTGGTCTCATGTTGTACA
Band lengths:
206-624
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]