RnoINT0012593 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103381953-103383176:-
Coord C1 exon
chr6:103383042-103383176
Coord A exon
chr6:103382133-103383041
Coord C2 exon
chr6:103381953-103382132
Length
909 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGT
5' ss Score
10.03
3' ss Seq
CATCTTTTTCTGATGAGCAGGAG
3' ss Score
3.6
Exon sequences
Seq C1 exon
GTACGGCAGCTGGTGCCCCGGAGGGACCAGGCTCTAACAGAGGAGCACTCGAGGCAGCAGCACAACGAGAGGTTACGCAAGCAGTTTGGGGCACAAGCCAATGTCATCGGACCCTGGATCCAGACCAAGATGGAG
Seq A exon
GTGAGTTTTGTCATGGGAAGCAGGCTGGGAATGTTCTTTCTCTTCCTACTTAGCACCATTCCAGCCAGCCCAGTCACCTGCTTATTAGGAAGGACCATGACATCTCGAGGTCCAAACCCATGATTATTCAGTTGCAGGGGGTGACGATGGTTTGGTCCCTGTCTCTGTTGGAGCAAAGTAGGATGCTATAAAGGAGCTACCTATGAAAACCCCATAGGAAGAGTAACATAGTCAGCTCAGGCCCTCTGGGCTGTCTTGTCTTTATGACTGCTCTCCAGGCAGTGGGTCTAATTCTTTTCAGAAAGAGAATGGAGCCTCTCAACAGGTATAGAATATTTTGTAGGATGGGAGGATCAATCAAGGAAGGAGCATGGCCAGGGTGTGATCACTGAACATCTTGTGCGTGGAGTCCGTGTCAAGTTTACACACATATGTGCACTCAAGCACACATGCACACACACACACACACTCATGTGCATGCATCCCCAAGACTCTACTTGTAAATGCTTGGTATGTTTTAACAGGACTGAACTGAATGAACTTGCTTTCACCAAGAACCATTTACATGAGTGAGTGGCTGGCAGAAGTGTACATTAGGCCTGGCTCCTGGAGATGAATGGGGTTCAGTAGGGACTGGACAACCTTTCTAGGAGACAAAGCAACAGGGTTGTAGAGGAGGCACATCAGGTGAATTGAGAAATATGAGGGCTCAGCATGAGATAGATGGAAGATGGCTGGGTATAATTAGAGGATGCAGCCTCCCTACCAAGGATCACCGTGCTAAATATCTGTTCCTGCTAAGTGTTGCCAGTGCTAACCTCTTTAGGGCTAGGAGAAGTGACCATAGGGACAGGTCTCTGCCCCGTGAGTGCAGAGTAAGGTGTTATGACATCTTTTTCTGATGAGCAG
Seq C2 exon
GAGATTGGGAGGATCTCCATTGAGATGCACGGTACCCTGGAGGACCAACTCAGCCACCTGCGGCAGTATGAAAAGAGCATCGTCAATTATAAGCCAAAGATTGACCAGCTGGAGGGCGACCACCAGCTCATCCAGGAAGCACTTATCTTCGACAATAAGCACACCAACTATACAATGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:16
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(11.6=28.9),PF0043516=Spectrin=PU(20.2=46.7)
A:
NA
C2:
PF0043516=Spectrin=FE(56.7=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:
GAGGGACCAGGCTCTAACAGA
R:
CTCCATTGTATAGTTGGTGTGCT
Band lengths:
295-1204
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]