RnoINT0071400 @ rn6
Intron Retention
Gene
ENSRNOG00000052968 | Hnrnpa3
Description
heterogeneous nuclear ribonucleoprotein A3 [Source:RGD Symbol;Acc:727807]
Coordinates
chr3:62483993-62484701:+
Coord C1 exon
chr3:62483993-62484203
Coord A exon
chr3:62484204-62484611
Coord C2 exon
chr3:62484612-62484701
Length
408 bp
Sequences
Splice sites
5' ss Seq
TTGGTAAGT
5' ss Score
10.47
3' ss Seq
GTGTTTTACCTCAACTTTAGTTC
3' ss Score
7.29
Exon sequences
Seq C1 exon
GATTCTGTAAAGCCTGGTGCCCATTTAACAGTGAAGAAGATTTTTGTTGGTGGTATTAAAGAGGATACAGAAGAATATAATCTGAGAGACTACTTTGAAAAGTATGGCAAGATTGAAACCATAGAAGTTATGGAAGATAGGCAGAGTGGGAAAAAGAGAGGATTTGCTTTTGTAACTTTTGATGATCATGACACAGTTGATAAAATTGTTG
Seq A exon
GTAAGTAACAATTTATTAACTTGTTAGTAATTTTTGAAAGGAAATAAATTTAGTTTTCATAAAACATTGAGGTCAGTAGCTCTCAATCTTCCTAGTGATGTGACTCCTAATATATATCTTTCCTCATGTTGTGACTCCTGACCATAAAATTATTTTCATTGCTACTTCATAACTAATTTTGCTACTGTTATAAATCCATGTATATTTGATATGTAGGGTATCTGATGTGACTCAATCTATAGGTTGAGGACTGCTCATCTATCTAGATCAGGATACATTTACTTCTAGAATATCCCTTCATTGTCTTCTCAGTCTACATCTTAACAGTATTTAATTGCATGGTGATAAAGGGTTCAATTTTACATGGTTTTCCAAACAAAAAATTTTTGTGTTTTACCTCAACTTTAG
Seq C2 exon
TTCAGAAATACCACACTATTAATGGGCATAATTGTGAAGTGAAAAAGGCCCTTTCTAAACAAGAGATGCAGTCTGCTGGATCACAGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000052968:ENSRNOT00000078872:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.099 A=NA C2=0.613
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PU(81.4=80.3),PF072928=NID=PU(34.9=21.1)
A:
NA
C2:
PF0007617=RRM_1=PD(17.1=38.7),PF072928=NID=PD(62.8=87.1)
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:
CTGTAAAGCCTGGTGCCCATT
R:
CTCTGTGATCCAGCAGACTGC
Band lengths:
295-703
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]