RnoINT0071404 @ rn6
Intron Retention
Gene
ENSRNOG00000052968 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:RGD Symbol;Acc:727807]
Coordinates
chr3:62485726-62487087:+
Coord C1 exon
chr3:62485726-62485869
Coord A exon
chr3:62485870-62486964
Coord C2 exon
chr3:62486965-62487087
Length
1095 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
TAAAATCTTTGTCATTTCAGGTA
3' ss Score
8.6
Exon sequences
Seq C1 exon
GTGGCAACTATGGTGGTGGTCCTGGTTACAGTAGTAGAGGAGGTTATGGAGGTGGTGGACCAGGATATGGAAACCAAGGTGGTGGATATGGTGGTGGAGGAGGAGGATATGATGGTTACAATGAAGGAGGAAATTTTGGTGGAG
Seq A exon
GTAAGTTATAGATACCTGGATTAAATGCAAACCAGCATTTAAATTAAAACTCTATGGTACTTGGAACTGCTTAAAGGATAAACGGGGGAGGGGGGAGTTGTAGTTGTTAATAGCTATATTGTAACCCTGACAGACCATAGCCATTATTTTTAAGTTGTGTGACTATAACCACTGCGTGCACACACTTCACATTTAGAAAACCATTTTGAGGGGGAGTGTGTGAGGGAGGGTTGAATTCTAGGTTAGTCTGGATATTAGGAAAGCAAAGGTTTTTAATGTACAATTTAATGTTTTATAAAGGCTATTTTTGAGTACACAGTAACTTGTCTTCAGACACACCAGAAGAAGGGCATTAGTCCCATTATAAATGATTGTGAGCTTACCATTCGGTTGCTGGGAATTGATCCTTATTGCCATTCCCAGAATATTTTCATCATTCCAACTGGGACCTTTTATTTAATAAGACCCTATCTCACAGGTCAGCAAGCCTCAGACTGTATTGGCTGGCCTCAGGCTTTGATCTTTCCTGTATCCACCTCCCAAGTGCTGGGACTATACATAGATGCACCACATACTAGGCATTTAATTTTTAACAATTATTCAGCGTCTGTAGATACTGAAAATTGGGAAGGTTTGCTATTTGGTATAGTGAAATGTACACTTACTAGTTTAGTAAATTACGAGGGAAGTTTTTAATTTGGCTTATTGCTGAGTTTTTTCTTGGGATGTGTAAATTGTTTGAATAATTAGACTTAACTAAATGAATAGGATTCCAAATTAGCTCTCAGAATACTTAGGGTGTTTCTTTATTATGTATTAATAAATATTGGCTATGTACTAACTATACATAAACCATGGACCACACACAATTACATGTAATGTTACATGAGAAACTTCTTAGAAGTGTGCTCTTCTAGACAGCTTCCACTTATTGGTCCCTCTTTTCAGTTAGGCTTCTGATTATTGGAGTTTAATACCTGAAATTGCAGTTAATACTTGCTTGAAAATGATTATACTTGTTGCCAATGATAGACCAGATAGTTACAGGGCTATTATCTTGTTTGATAACTACAAATAAAATCTTTGTCATTTCAG
Seq C2 exon
GTAACTATGGTGGTGGTGGGAACTATAATGACTTTGGAAATTATAGTGGACAGCAACAATCTAATTATGGACCCATGAAGGGGGGCAGTTTTGGTGGAAGAAGCTCAGGCAGTCCCTATGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052968:ENSRNOT00000078872:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.469 A=NA C2=0.738
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:
GCAACTATGGTGGTGGTCCTG
R:
CCATAGGGACTGCCTGAGCTT
Band lengths:
262-1357
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]