RnoINT0012591 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103383389-103385001:-
Coord C1 exon
chr6:103384861-103385001
Coord A exon
chr6:103383572-103384860
Coord C2 exon
chr6:103383389-103383571
Length
1289 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGC
5' ss Score
8.07
3' ss Seq
TCATGCCATTGTCTATCCAGGGA
3' ss Score
7.83
Exon sequences
Seq C1 exon
CGAACAGAGAAGCTGCTGGAGACCATCGACCAGCTATACTTGGAGTACGCCAAGAGGGCTGCACCCTTCAACAACTGGATGGAGGGAGCCATGGAGGACCTTCAAGACACCTTCATCGTACATACCATTGAGGAGATCCAG
Seq A exon
GTGGGCAACCCCAAGAGGCTGGTCCTTTTTAGTATAAATTGAGGAACAAAAGCCTAAGGGTTCCATAGATTAATAGTATTGGCATATGAGATCACATGACTTTTTTAAGATTTATTTTTATGTTGTATATACTGGTGTTTTGCATGAATGCATGTAGGTACACCACTTGCATATATTGCCCAGATTCCCCTGGAACTAGAGTTACAGGTGGTTGGCTATGGTCATATGTATACCAGGAACTGAACCCTGGTCCTCTCTAAAAGCAGCAAGTGCTCTTAACTGCTGAGTCATCTCTCCAACCTCCTACCCCTACAGGGTCTTTGTACTCACTGTGTACTCCTGGTTAGTCTGGGACTCACTAGATCATGCTGGCCTCAAACTCACAGAGATCCTCCTGTCTCCACTGCCCAAGTGCTGGGACTAAAGGAGTATGTCGCCATACCCAGTCTAGCACTTAGATTATTTTGACAAAGTAATATGTGCACATAGTATAATATCCTAAAGATAAAGGGATACTAAGGCAAGGTTGTCTTCCCATAGTCCTCTCTGGCCCCCACTCCCCTTTTCAGGGGTAAGTAATGTATAAACAGAGTCTGCGTGTATACAGACAAATGCATTTCTCTATGTGTTCTTTGTACCTTTTGTATACACAAAAATGTAGACTTTATTATATATCATATCCCAAATCTTGACTTTTAACATTAATCTTAGAGCTCCCATTGGCTCCCATCTTCCTCAGTCTCTTGTGTAATTATAGAACATTAGATCCAAATGTTTGCAGGGGCTAAGGATATAGCTCAGTTGGTAGTATGCTTGTCTAGCACACATGAAGCCCTGAGTTCTATTCCAACCACTGCATAAAATGAGTATGTGAGTGCATGTCTTTAATCCTAGCCTTCTCAAGGTAGAGGAAGAAAAGGGGATTTTGCAGGAAGTGGAAGGAACTAGTATTGGAAGAGGTTACCTGGGGAACAGGACTTGCCCCACCCCCATATGACTGCTATGGTATCGAACATCCCCCAACAGTGACTGTTGAGTCACCAGCCCTCAGGATACAGCTGTTGTCCTGCGGGCTCTGCCCTTGCTTTTCTCTAGCTATCCTGTCTTGCTGGTTCTCTGCCTTAAGAACTTGGTTTGATGTCTCCAGGTCTTTGCTAGGTGTGGAACTTGGCTTTCAGGGCTCTTCAACTCTTTCTTTCCTACCTCTTGGACTCGCTTTGTTTACTGCGTCTGAGGAGAGCCCTGACTCCCCCTGAGTATCAGTACTCATCATGCCATTGTCTATCCAG
Seq C2 exon
GGACTGACCACAGCCCATGAGCAGTTCAAGGCTACCCTCCCGGATGCAGACAAGGAGCGCCTGGCCATCCTGGGCATCCACAATGAAGTGTCCAAGATTGTCCAGACCTATCATGTCAACATGGCAGGCACCAACCCCTATACAACCATCACACCTCAGGAGATCAATGGCAAATGGGACCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:14
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
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGAGAAGCTGCTGGAGACCAT
R:
TGGTCCCATTTGCCATTGATCT
Band lengths:
318-1607
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]