RnoINT0071379 @ rn6
Intron Retention
Gene
ENSRNOG00000036839 | Hnrnpa1
Description
heterogeneous nuclear ribonucleoprotein A1 [Source:RGD Symbol;Acc:69234]
Coordinates
chr7:144871269-144871585:+
Coord C1 exon
chr7:144871269-144871346
Coord A exon
chr7:144871347-144871447
Coord C2 exon
chr7:144871448-144871585
Length
101 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGT
5' ss Score
10.47
3' ss Seq
GTCTTTCTTCTCCTTTACAGGAA
3' ss Score
12.54
Exon sequences
Seq C1 exon
GAAGGAATCTGCTATGAGGCTTAACTGCTGTCATAAAATTTGTTTAAAAAACATGCTACAGAAGTTATTGGCTAAAAG
Seq A exon
GTGAGTTTTTGACTGATAATTTGTTAGAACTGTACATACAAACCAGGAGTCCACCACTGTCTTATGTAAAGCTGCATAACTGTCTTTCTTCTCCTTTACAG
Seq C2 exon
GAACATCCTTAAGAGAAGAGCCTTTATTCTGGGCCACTCTACTACTTCTCACTGCCATGCAGTTGGGTTTTAGCTGTACTGCTAAAAATCATTCAATTTTGTGAATGGCTTACTTTTTTTACAATAAACTTTTTAATT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000036839:ENSRNOT00000055285:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGGAATCTGCTATGAGGCT
R:
AAAAGTAAGCCATTCACAAAATTGAA
Band lengths:
195-296
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]