RnoINT0071397 @ rn6
Intron Retention
Gene
ENSRNOG00000052968 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:RGD Symbol;Acc:727807]
Coordinates
chr3:62481323-62483688:+
Coord C1 exon
chr3:62481323-62481394
Coord A exon
chr3:62481395-62483565
Coord C2 exon
chr3:62483566-62483688
Length
2171 bp
Sequences
Splice sites
5' ss Seq
GAGGTATTA
5' ss Score
6.46
3' ss Seq
CTATCAATCTTTTTCCTCAGGGC
3' ss Score
10.95
Exon sequences
Seq C1 exon
ATGGAGGTAAAACCGCCGCCCGGTCGCCCCCAGCCTGACTCCGGCCGTCGCCGCCGCCGCCGGGGGGAGGAG
Seq A exon
GTATTAGGGGGAGAGCGGGGGGTTGCTGGGTAGTTGCCGGCTTGGGGGGGCTTTGGCTCGATGGGAGCGGGGAGGCCGGGGGAAACCGGGACGATCGTCCCGCGCTTTGCTCTGAGGGCGGTGGGAGGGGGAGGGGAGCGGGCCGAGTGGCCTCATCCAGGCCCTCCTTCGCCCTGGTCCTCTCGGCCGGCCGCACCAGCAGCCCTCGAAGACGCGGCGCGGCCGGGGAGTAGGTCTGCGGCCCGGCGAGGAGCCCTCGGGCTGTGGGGCCTGACTGGCGAGGCCGCGGGCGGCATGGCGGGCCTCCGCGGGAGCGGTTGGGAGGAGGAGGTGGGGGAGGGGAGGAGCACATCCGGGCGAGCGAGCAGGCGGGCGGCGGCCACATTGACATTGATCTGCCGCCGCGTTACGAAATGGCGCATTGGCCCGCAATGGCCGCCGCCTGGCTACGCCGCCAAGAAGGAGTGCGCGGGATTGGAGGGAACGGCGGGAGGCGGCCGGGCAGAAAATGCCGCAGATGGCCTCCAGGCTCCGGGCGCGGTGCTTTCCGCTGGGGTGCTGCCGGCGCGGATCTATCTAGGCCTTGGCGGGCCTTCTGGGTGATGACAATCCGCGCAATATTCTGGCCGGATTTTCTCAGCGCTCATTTGGGGATACATTACTGAAAAGCTTGCTGCTTTAAGGTGCTTCCTAACCCGCTGCTTGTGCTCAAGGATTTGGAATGGAGTATTTACAGCGTCCTACGGTTGAAGTCTTAACCATTTCGGGGTTTTGAGTGTAGTTGTTTATTTGGAACTTATTTATCTAATTTCTCATATTTCGGATTGGCCCGGGTTATGGTTTACTGGATTTTGGTTTTAGAGAACTGCGATCACACTCGAACATAACCACGATTACGTGAATTTTGTGTGTATAGAGATGTTGTTTTTTGTGTATTGTCAAATTCATTTATCCGAGGCTTGAATAAATGGGACTAAGTGAATTATTTGGGTAGTTGATCATTTAACGGGTTTCTGGTATGTGGCTGTTTTTATTATATTGAATGTCCTAACATTTCTGTTTCTAGAGAATGGAAGATGTTTTAAATGTGTAAATGTGAGCCCCCGTAAGGACTTGTGTTGAATTGTCTTAATGCGTTCATTAAAAGCGTTCACGCGAAAGTAAAACCTTCAAAAGAAAGTCACAGTGTAGATTATTTCCTAAGTCAGTTACGGTTTTGTTCCTAATTCCTCTGGTCAGGCAGCATGTACTATGCCTTGTAAATCCAAGTTTACGTAGTTGTGAATATAGGAATCGCATTCGAAGTCACTTAAAACCATTCGACGGAAATGGGTATAACCAAGGTAAATTGATTACAGATAGCTAAGTAGTGGAACTACGTGTGAATGTTGCGTGCCCACCTGTTATCCTAGTATTTGAAAGGCTAAGTAAGGTAGGACTGCCTCAAGTTCCAGGCTAGCTTAGCCTGCCCTTATCTTGAGCCTGCCTCAAAACTCACCCACCCACACCCTTAGTCCCTACAAGGTATTATTATGGGATTGTTTTTACGTCTTGGCTGTGTTCTGTTTTGTTCTTTGTGGGATATGCCTATTTTGCGTAGGAATGTCTTAATAACTGACTGGCTGGAAATGTGAATTTCTTTTAATTTGCCATTGTAAGCTTAAGTTGCATTTTATGGATCATGTTTTAAAATTATGGGTTTGTTGGTGTTGCAGACTGAGGACAGTGGAAATGGCATGGGTTGAATGAATAATGCTGAGTCTTTGGGGTTAATTTTTCTAGTGAATGACTTGTTACAAACATCTGAACTATTCTAGACTTTTAGTTGTAGCTTTAAAAAATTAGTTTTGAAGAAGTCTGGGACCGTTTGGGGTTCAGTTTAGTTATACTTTAAAGTGACCCCGATACCATTTTTAGAGGGTTTTGTTTGTTTTTAAGACAACCTACTCACCTCATACTAGACAACCTCATACTGGCCTTAAAAAATTGGATATGTAGTCCAGGCCAGTCTCTGTCTCCCAAACGCTGAAGTTAACTGGTGTGTATTATCATGCCCAGCGTGGAGCAGATTTTTTTTAATTGGATGGAATGTTGTTACGGGTTTTGAGACACCTATAACTTAAAGTTCATTTTCTCCAAGAAAAAAAATAACTATCAATCTTTTTCCTCAG
Seq C2 exon
GGCCACGATCCAAAGGAACCAGAGCAGCTGAGGAAGCTGTTTATTGGTGGTCTGAGCTTTGAAACCACAGATGATAGCTTAAGAGAACATTTTGAGAAATGGGGCACACTTACAGATTGTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052968:ENSRNOT00000078872:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.341
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF142591=RRM_6=PU(40.0=68.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]