RnoINT0071403 @ rn6
Intron Retention
Gene
ENSRNOG00000052968 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:RGD Symbol;Acc:727807]
Coordinates
chr3:62484977-62485869:+
Coord C1 exon
chr3:62484977-62485057
Coord A exon
chr3:62485058-62485725
Coord C2 exon
chr3:62485726-62485869
Length
668 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TTTCTCTGTTTGTTTTGCAGGTG
3' ss Score
13.83
Exon sequences
Seq C1 exon
GAGGCTATGGTGGTGGAGGTGGTGGCAGCAGAGGCAGTTATGGAGGTGGTGATGGTGGATATAATGGATTTGGAGGTGATG
Seq A exon
GTAAGTCTTAAATGGTGGTTTTTGATCTTTAATTTCTGCATTGCTGGAAATCAGACACGTGACCTCAAATGCTAGGTGGTAGGACTTAGAAGTGTGGTAGGTGACAAGTTTTAAACAACCACATTAAAAATGTTACAGCTTGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCAAGGCCCTGGGTTCAGTCCCCAGCTCCAAAAAAAAAAAGAAAAAAATATTACAGCTTCCAATCCTAAAACTTTGAATAGACCCATGAAATAGTTTCTTCCAATTAGTGCCACAGAGTAGGAACCTCTTCCCAAGGATGGAAGTAAAGCACCAATTAGTTGTCTTTGCTTAGTAAGATTTATCACCAGCAGTAGAGTTAACATTGGCTTTGTGTGAGGCTATATATTTTTTTCTTTTTTTCTTTGACCGAACCCAGGGCCTTGCGCTTGCTAGGCAAGCGCTCTATCACTGAGCTAAATCCCCAACCCCCCGAGGCTATATTTTCTGAAGCAAAATTGAAAACAGACTTTTTTAAAAAGAAACAATGCCAATCATAAGATGTTATCAGTCAAGATTGCTTGTGCCGAGATTCTAGAGTGTTAGCTTTGTTGTCATTTACAGTATAAAGCCAGAATTATTTGGTCCCTCTGAACAACTTTCTCTGTTTGTTTTGCAG
Seq C2 exon
GTGGCAACTATGGTGGTGGTCCTGGTTACAGTAGTAGAGGAGGTTATGGAGGTGGTGGACCAGGATATGGAAACCAAGGTGGTGGATATGGTGGTGGAGGAGGAGGATATGATGGTTACAATGAAGGAGGAAATTTTGGTGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052968:ENSRNOT00000078872:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.679 A=NA C2=0.469
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGGCTATGGTGGTGGAGGT
R:
CTCCACCAAAATTTCCTCCTTCA
Band lengths:
225-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]