RnoINT0012631 @ rn6
Intron Retention
Gene
ENSRNOG00000019745 | Actn3
Description
actinin alpha 3 [Source:RGD Symbol;Acc:621792]
Coordinates
chr1:220123480-220124117:-
Coord C1 exon
chr1:220123977-220124117
Coord A exon
chr1:220123663-220123976
Coord C2 exon
chr1:220123480-220123662
Length
314 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
ATTCTTCCTGTTTTCCCTAGAGC
3' ss Score
10.45
Exon sequences
Seq C1 exon
AGAATGGAGAAGCTCCTGGAAACCATTGACCAGCTGCAGCTGGAGTTTGCTCGGCGGGCAGCGCCCTTCAACAACTGGCTGGATGGGGCTATTGAGGACCTGCAGGATGTGTGGCTAGTGCACTCTGTAGAAGAGACGCAG
Seq A exon
GTCAGTGAAGGCATTAAAGGGGGGAAAGGCACTGGATGTGATGAGAGGAAAACTGGTCTCACTCACATCCCATCGGCCAAACCTTTGGGTTCCTGGATAATACAAGTAGGAAGTAGGAAAAAAAAAACAACAAAAAACAAACAAAAAAAAACCCAAACCAAACAGCCCAGTTATAGAGTGCTGGGTGCGAGGCAGGAGGCATAGGCTTTTGGACCAGTCCTGAACCAACTACTAGGTGTCCTAGCTCTCTGTTCTGCCCCCTCTGTTGCCTGGGATAAATGGGTGTTCTGACTGATTCTTCCTGTTTTCCCTAG
Seq C2 exon
AGCCTGCTAACAGCACATGAACAGTTCAAGGCAACGTTGCCTGAGGCGGATCGAGAGCGAGGTGCCATCCTGGGCATTCAAGGAGAGATTCAGAAGATCTGTCAGACGTATGGACTGCGGCCAAAGTCTGGCAACCCCTACATCACCCTCAGCTCGCAGGACATCAACAATAAGTGGGACACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019745:ENSRNOT00000026812:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (disopred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PD(0.1=0.0),PF0043516=Spectrin=PU(32.1=76.6)
A:
NA
C2:
PF0043516=Spectrin=FE(53.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGAAGCTCCTGGAAACCAT
R:
CGTGTCCCACTTATTGTTGATGT
Band lengths:
319-633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]