DreINT0083598 @ danRer10
Intron Retention
Gene
ENSDARG00000014655 | itpr1a
Description
inositol 1,4,5-trisphosphate receptor, type 1a [Source:ZFIN;Acc:ZDB-GENE-070604-3]
Coordinates
chr6:39976097-39977137:+
Coord C1 exon
chr6:39976097-39976280
Coord A exon
chr6:39976281-39976883
Coord C2 exon
chr6:39976884-39977137
Length
603 bp
Sequences
Splice sites
5' ss Seq
GAGGTCTGG
5' ss Score
2.59
3' ss Seq
AACAAGACACTGATCTCCAGGTA
3' ss Score
1.87
Exon sequences
Seq C1 exon
CATTCCTTCTTCAAACGTTTAACAGAAGACAAAAATTCAGAGAAGTTTTTCAGGGTGTTTTATGACAGAATGAAAGTGGCTCAGGTGGAGATCAAAGCCACGGTTACTGTCAACACTAGTGACCTCGGCAACAAGCGGCGTGACGACAACACTCCAGACAAAGATACTCCACAACGCCGCAGAG
Seq A exon
GTCTGGACTGGCAGTTTTTAATTAGCTCTGAGCAGATACTGTCTTTATTTGCACTTAATCTCAACGTACAGTTACTGAAAAAAATCGAGAGACCAACTGAAAATTCTGTTTCGGTAGAATAATAAATTTGGCTTGCGTTTGAGTAAAAAGTTAAGATGTTTTGTTTCAATACTGATTACATTTTTTATGCATGTTTATGTATATTTTTTTGGCAACATATTAATAATGATGTAACTTTGGAAAAGTTAAGAATTCAGTATTTACTGGAAAAACCCTGATTTCAGTCAAAACAAATGAAAAAATCTTTTATTCTGGCCAATTGTGATTTTCAGTAGAAAACACTCTAAATTACTTTTCTTATTTGTAAATTTTTTGTTTTAGATCTTTACAAAACAAAACTTACAAATTAACATATTATTCAAACTCATACCTAATAAATTTCCAGAGAAACTGTCTCTTAATTATTGCCATAGTTTTATATTTGTGATTAGAGCATCAAAATCCATTTGTGAGGTCACTGCATGTTGTTTTAAAGTTTGCTATGTCATATTATAAAATATATATACATCAGTATGAGATTAAAAACAAGACACTGATCTCCAG
Seq C2 exon
GTAAAGACTCCGGTGTGGTGGTGACAGATGATGCTCGTGAGCAGCTGTTGGAGGCTTCAGCTGCGACTAAGAAGGCCTTTGGTTCATATCGTCGAGATGCTGATCCCGAGGAGACGTTTGGCACGGCTGATGGAGATAAAGGAGGTGGAGATAAAGGCACAGAGCAGGGCGAGATGAGCCCTGTCATCCTCATAATGCAGCCAATCCTGCGCTTCCTGCAGCTGCTGTGCGAAAACCACAATCGAGACCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000014655:ENSDART00000149019:42
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.371 A=NA C2=0.376
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF084546=RIH_assoc=PU(24.2=34.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGAGATCAAAGCCACGGTT
R:
CGATTGTGGTTTTCGCACAGC
Band lengths:
344-947
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]