DreINT0083659 @ danRer10
Intron Retention
Gene
ENSDARG00000074149 | itpr1b
Description
inositol 1,4,5-trisphosphate receptor, type 1b [Source:ZFIN;Acc:ZDB-GENE-070604-2]
Coordinates
chr11:35582428-35583114:-
Coord C1 exon
chr11:35582931-35583114
Coord A exon
chr11:35582679-35582930
Coord C2 exon
chr11:35582428-35582678
Length
252 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGG
5' ss Score
6.23
3' ss Seq
TAATCCTCTCTATCTCTCAGTCA
3' ss Score
6.77
Exon sequences
Seq C1 exon
CGGTCGTTCTTCTGCCGCTTGACGGGTGATAATAAGTCAGAGAAGTTCTTTAAGGTGTTTTACGAGCGGATGAAACTCGCCCAGCAGGAGATCAAGGCCACAGTGACGGTGAACACCAGCGATCTAGGCAGCAAACGCAAAGATGAGGACACCAATGATAAGGATGTACAATCACGCAAGAAAG
Seq A exon
GTCAGGACTAATCGTAACAAGTAGTCGAAATCTAATGATCTAAAGTTTTGCAATTAGTTAATCGCCACGTCTATGCTATATTGAAAAAAAGTGATATGCTATAGCATGCTAAATAGTGTCATAATCAATATGTGGACTGATTTATTGACCTTAAAATTGTTTTTTTAAAAAATGAAAAACTGCTTGAGTGCATTATAAACTACAGACAAATGCACATCATGCTACACAAACATAATCCTCTCTATCTCTCAG
Seq C2 exon
TCAAAGATGTGGCTGTTATAACCGAAGAAGTGCGAGAGCAGCTACTAGAAGCCTCTACGGTCACTAAGAAGGCCTTCAGCACTTACAGAAGAGAAGCGGACGCGGATGAGCATCTGAATGCTACGGAGGGACCAAGCAGCACAGCTGAGAAGAACCAGGACGAGAACGAGATGAGCGTCATCATCACCATCATGCAGCCAATCCTGCGCCTCATGCAGCTGCTCTGCGAAAACCACAACCGAGAGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000074149:ENSDART00000031993:45
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.323 A=NA C2=0.262
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF084546=RIH_assoc=PU(25.4=36.9)
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:
GAGATCAAGGCCACAGTGACG
R:
GGATTGGCTGCATGATGGTGA
Band lengths:
301-553
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]