RnoINT0076674 @ rn6
Intron Retention
Gene
ENSRNOG00000007104 | Itpr1
Description
inositol 1,4,5-trisphosphate receptor, type 1 [Source:RGD Symbol;Acc:2933]
Coordinates
chr4:140549380-140550016:+
Coord C1 exon
chr4:140549380-140549519
Coord A exon
chr4:140549520-140549850
Coord C2 exon
chr4:140549851-140550016
Length
331 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CCACTCTCTCTCATTCACAGGAG
3' ss Score
10.02
Exon sequences
Seq C1 exon
AGCTGCTCCCTGTGGAAGAAACGGAACAGGATAAGGAGCACACGTGTGAGACACTGCTCATGTGCATCGTCACCGTTCTGAGTCACGGGCTGCGGAGTGGGGGCGGAGTAGGAGATGTGCTCAGGAAGCCATCCAAAGAG
Seq A exon
GTAAAGGGATCCCAAAGGAAAGGAAGGGGCACTGGCAGCGTGACAAGCCACTGTGCAGAAGCCAGTCAGAGCCTGTCCCCACAAGAGCCCACTAAGACGTGTTGAGGCCCCAGAACAACTCCCTAAACAGAGGTTTGCTTTAATATTAGGTCTGGCCACCCCACCCCAATGTCCTTACAGAATCTCCCTGCTTGTGTTCTCCCAGCACTTGAAGGATTCACAGTATAGTTGGGAGTTTTAAAGTCTGATGCCCAATGTAACTCCTGCCCAAGTGGACAGCTGTCCAGCTGGAGCTGGGCTGTGACATCAGTCCACTCTCTCTCATTCACAG
Seq C2 exon
GAGCCTCTGTTTGCTGCAAGGGTGATCTATGACCTCCTCTTCTTCTTCATGGTCATCATCATTGTCCTGAACCTCATTTTTGGGGTCATCATCGACACCTTTGCTGACCTGAGGAGTGAGAAGCAGAAGAAGGAAGAGATCTTAAAAACCACGTGCTTCATTTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000007104:ENSRNOT00000040255:59
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.170 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0052026=Ion_trans=FE(17.9=100)
A:
NA
C2:
PF0052026=Ion_trans=PD(11.3=51.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGCTCCCTGTGGAAGAAACG
R:
CACAAATGAAGCACGTGGTTT
Band lengths:
304-635
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]