RnoINT0071387 @ rn6
Intron Retention
Gene
ENSRNOG00000036839 | Hnrnpa1
Description
heterogeneous nuclear ribonucleoprotein A1 [Source:RGD Symbol;Acc:69234]
Coordinates
chr7:144868935-144871346:+
Coord C1 exon
chr7:144868935-144869000
Coord A exon
chr7:144869001-144871268
Coord C2 exon
chr7:144871269-144871346
Length
2268 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
AATGTTGTTTGCTTTTTTAGGAA
3' ss Score
10.99
Exon sequences
Seq C1 exon
GTGGCTATGGAGGTTCCAGCAGCAGCAGTAGCTATGGCAGTGGCAGGAGGTTCTAATTACAGCCAG
Seq A exon
GTAAGTGCCTCCTTTGTGTGTGTTCACAAAATTTTATAATTGAACCCAGTAACCCAAATGTAGCTGAGCAGTGCAACATAGTTAACATTATAACTGCAGTAAAATGGTGGATATTAAGTTAATATGCAGTTCAGCAAAATTTGTGGGAAACAACTTGCTCTATTGGATTGTAGCCTTGAGTCTTAATGTGTTTTAGATTAACAACTTTATTCCATATTGTTCAACAGGAAACAAAGCTTAGCAGGAGAGGAGAGCCAGAGAAGTGACAGGGAAGCTACAGGTTACAACAGATTTGTGAACTCAGCCAAGCACAGTGGTGGCAGGGCCTAGCTGCTACAAAGAAGACATGTTTTAGACAATACTCATGTGTGTGGGCAAAAACTCCAGGACTGTATCTGTGACTAATTGTATAACAGGTTATTTTAGTTTCTGTTCTGTGGAAAGTGTAAAGCATTCCAACGAAGGGTTTTACTGTAGACCTTTTTCACCCATGCTGTTGATTGCTAAATGTAAAAGTCTGATCATGACGCTGAATAAATGTGTCTTTTTTTTTTTTTTTTAATGTGCTGTGTAAAGTTAGTCTACTCTGAAGCCATCTTGGTAAACTTCCCCAACAGTGTGAAGTTAGAATTCCTTCAGGGTGGTGCCAAATTCCATTTGGAATTTATTTATGGTTGCTTGGGTGGAGAAGCCATTGTCTTCAAAAACCTTGGTGTTGCTAAACTGCCAGTTACTGTTGTAACTTAATGAGTTTCACCATTTAAAGGGTCATCCAAGCAAGATCACAATTTGGTTATAAAATGGTTGTTGGCACACCCTATGCAATATCAAAATTGAATAACGGTCTCAGATAAAATAACAGATGGGAATGAAGCTTGTGTATCATCCATTATCATGTGTACTCAATAAACGATTTAATTCTCTTGAATGGAATGACAACTGTATGGATTTGGGACTGGCAGAGATTTGGACTTTCCCTACCCAATACCCCTGGTAAATGTTGATTGTTTGTTACCACAGTGTAAGTTCAAAGCTCTGCCAGCATAGAAGCCAACTGCTGGTTAATGCCACCTATAAGCCCAGAGATTAGCAGTGTTGGGGCATCTTTATAAGAACCCTTAATTGCCCTAATCACAGGCTGTAGTGAAGTGAAAACTGCAGTTTTAACTGGGTTGTGGGTGGGTGTCCTCAAGGTGATTCTATTCGTTGAAATTTTAATTACAAATATAATTAACAATGTATAATTTGTATTAACGGCAGTTTTCCTTCACACTACTGCTCTCAGTGTTAATTGTATAGAAAATGAGTTCAAAAAAAGTTACTCCGATAACTTGGTTACTTGTGCATAGGTGTCTTATCATTTCCCATTTGGGGCCCCTTTTAAGTGCCATTGTACGGGGTAGCATAGATGACATTGGTGTATTCCTACTCATGGTATTATATATATTGCCTTGGAAGTTTTTGGGGAGGGGGTGAAGTGGGGGAGTGGGAGGTGGGGTGGGGAAGCATGGATGGTAGTTCCTATGATACTGGCTGAGTTGGCAAAGCAGTGGAACCTTAACTATTGAGGAGTTTGCGAGATACCTCAGGATCGGGACAATGCCTTTAAAGATCCAGGAGATGTTCAGCTACTAGGAACTGCTAGCAAGTATAGCGCGAATGGCTTCCAGCTCAGAATCTCTACAGCTGAGAGTAGACACTTGTGGTATGTGGAGTACAGATAAGCCAGGGGCAGGCCACGGCACCTCCATGAAAGCTAGGAGGGAGTGAAGTTTGAGTGACCATCGCAAGGAAGGAGGCAGACGAGAGTAAGGCACACCTGACTCTTAGGACTAGCAGGCAGAGCCAGAAGGAAAGGTTTATTGCTATGCTGCTAGGTAAGAACAGATTTTACTTACATCCGTATAGTTATAAATTATAGTCCAATTTTCTGTTGGATTTCTCTTAATTATATTGAGCCAAAACTAGTCCAGTTAAGCTGCACTTGGTTTTTCTGGAGATGAATTGTTTTTATTTAATTAATGCCCTATTAGTCCTACTTGAAGGGAATGAATACATTTCTATTGTGACAATATGTTTTGGCCCTTTAATTTTATTTAACCTTCCTTTGACCCATTTTCTTAAAGCAATGGCTCAAAGTAATATTAGATACATTTCCCCAAAATGGTGGGAGGGTGGGTGGATTGTTAATGGGAGGGGGTGGGACTAGTTTAATGATGGGAATTGGCCCCACAAAAGGCTAGTTCTAAATGTTGTTTGCTTTTTTAG
Seq C2 exon
GAAGGAATCTGCTATGAGGCTTAACTGCTGTCATAAAATTTGTTTAAAAAACATGCTACAGAAGTTATTGGCTAAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000036839:ENSRNOT00000055285:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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]