RnoINT0076689 @ rn6
Intron Retention
Gene
ENSRNOG00000001804 | Itpr2
Description
inositol 1,4,5-trisphosphate receptor, type 2 [Source:RGD Symbol;Acc:69649]
Coordinates
chr4:180671373-180672991:-
Coord C1 exon
chr4:180672806-180672991
Coord A exon
chr4:180671625-180672805
Coord C2 exon
chr4:180671373-180671624
Length
1181 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
AACATGTCTCATGCATTTAGGTA
3' ss Score
7.87
Exon sequences
Seq C1 exon
GCTGGTGTCCATGCAAGTGGAAAACCCCATGGAGAGTTCCATCCTTCCCGATGACATCGACGACGAGGAGGTTTGGCTTTACTGGATTGACAGCAACAAGGAGCCTCACGGCAAGGCCATCAGGCACCTGGCCCAGGAGGCCAGGGAAGGCACCAAGGCTGACCTAGAAGTCCTGACCTATTACAG
Seq A exon
GTATTGGGGACACTCATGCTCCCATCGTGTGATCACAGGGAGCTGGTTCTCTCCAACCTCTGAGAATTGCAGACACAGTAGGAGGGCGTTTAAAAATCGCGTCAGAGGGTGGGAGCTGAACTGGTTAAGGCCGCCTGAAGATTTCAAAATGGAAGTGAACACCTGTGCTTTCCACTGACATTTTCTGACAGGTTTGGGGCGTTTGTGCAGGAAGACAAACTCCTGAAGGGATGTAGGGGTGGACGAGAAGCAATAGGACCTTGGCTGTGGTCTGAGGGAGAAGAGGGACTGGGTGAGACAGATTTGGTGGCAGGAAGTGCAGTGGGTTAAGATGGGCTCTTGTGAGCATGTGCTCTTCTGAACTTGAGAGGGGCAGGTGTCTGTAGCTCTTCAAGGTCACCTGTGTTTAGGAGCAGAAGCACTAGGGGTGGTCCTCAGGGGTCAACATGTTATGATCAGTAACCTAATGGGGGTGGAGGGGCAGGCTGGCAAGATGGTTCAGTAGGTAGGCACACTTGTCAGGTGAGCCTGACAACCTGAATTTGATCTTTGGAGCTCATAGTAGAGGGAGAGAACCAACCCCCAAAGTTGTCCTCTGACCTCCACACAAGTGACGTGGCACATGGATGCCCTCCCTCCCCTTCAAAGACGACGACGACGACGACAACAACAACAACAACAACAACAGCAACGGCTCTTTGAATTTAAGGGATAAAACCCAGGGCAGAAATTGGTGGGGACCAGGGAAAGATGCAGAACCAGGGTCTCCATGTTTTTGTATCTCTCAGAACCAAGGCAGCGGGGTATCTTTAATCCTAGAGGCTGGAGAACCCATAGCACCGTCTGGGACGATCCTGTTTTCTTTTCAAACCAAGCGAGGACAAAGTCAATGTGGATTCTGGAGCCCTGTTCCGGCCCCAACCAGAGGCTGGGGAATGTGGGGAGAGGTGACTTCATGTGACTCACTGTCCATTACAGGCTTGGTGGATTTGATCTTAGGACAGAAAACCTGGCCACAAGAGGTCACAGTGACAGGGACAGAGTTGTCATTTATTTACAGAGTTTGACTCGGTGTTATAAGTACTTGTAAACAGTTGACATACCCAGAGGCTGGCTGTGCTTTGTCTGTTAGGGCCTTAATGGCAGTGAGAGGGATACTGTAACATGTCTCATGCATTTAG
Seq C2 exon
GTACCAGCTAAACCTCTTTGCAAGGATGTGCTTGGACCGCCAGTACCTGGCCATCAACCAGATTTCAACACAGCTGTCTGTAGACCTGATCCTGCGGTGCGTGTCTGACGAGAGCCTGCCCTTTGACCTCCGAGCCTCTTTCTGCCGACTCATGCTCCACATGCACGTGGACCGGGACCCCCAGGAGTCTGTGGTGCCTGTCCGCTACGCCCGGCTCTGGACTGAGATCCCCACCAAGATCACGATCCATGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001804:ENSRNOT00000040645:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0136516=RYDR_ITPR=PD(3.9=12.7)
A:
NA
C2:
NO
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:
TTGACAGCAACAAGGAGCCTC
R:
TCGTGATCTTGGTGGGGATCT
Band lengths:
345-1526
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]