RnoINT0012589 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103385911-103387176:-
Coord C1 exon
chr6:103387026-103387176
Coord A exon
chr6:103386020-103387025
Coord C2 exon
chr6:103385911-103386019
Length
1006 bp
Sequences
Splice sites
5' ss Seq
TAAGTACGC
5' ss Score
3.13
3' ss Seq
TGTCTCCTCTCATTCCACAGTGA
3' ss Score
10.88
Exon sequences
Seq C1 exon
GCAAAGAAGCCATGCTGCGGCAGAAGGATTATGAGACGGCCACCTTGTCCGAGATCAAGGCCCTACTCAAGAAGCACGAGGCCTTTGAGAGTGACCTGGCTGCCCACCAGGACCGCGTGGAGCAGATCGCGGCCATTGCCCAGGAGCTTAA
Seq A exon
GTACGCCTGCTCTGACCTCTCTCCCTTTGGTGCCCCAGCATGTGTCTGAGATCTGCTTTCTCAGCTGTTGTAGATGAGGGTGGGAAATAAGGGACTGTACAGACAGATGGTACTCGGCGTGGGGGTGAGGAGAGTTGTGCCCACGTGGGAAAGGAGGCAATACAGAAGGCAAGGCCCCTTCCTGGTGGGAGAGAGCTCCAACCATTCCACTCTTGTGCAGACATTTGGTTATATCACCTATCACCAGGGCAAGACCAGAGGATGCTCACACCCTATTTTATTTGATTTTGCCTTTTGTTTTTTAGGGTTTGCATAGGGTTTGCTACCACATTTTTATGTATTTTTTGTCTTGTTTTTAAATTGTGTGAGAGAGAGTGTGTGTGCATGCGGGCATATGCTTGCCATGGTGCAATGGTGGTCAGAGGACAACTTGAAGGAATTGGTTCCTCCTGTTTTTACTGTGGGCTCCAGGGCTTGAACTCAGGTCTTCAGGCTTGCACAGGGTGCCCTTTCTTGCCAGCTCAGATTTTGTTTTGTTTTTCTCTTGAAACCGGGTTCAAACTCTGTAGCCTAGGCTGGCCTAGATCTCAATGTGTAGCCCAGGGTAGCCTCAACTATGTGGCAATCCTCCTGTCTCAGTCTCTTAGGAGAGTATGGAGATTGCAGGCATGAGTCACCATGGCCCAGCTCCCAAGCCTTGGTCTGTGGCTCTGAGCTTTTCCCTTGGGCCTCAGCAGCTTTCTGTCATCGGTCATTAGAGTCACAATCAACTTTGGTTGGGGCAGGGACTGTTGGAGGGGAGTGGCCACCTTCCCTGCTTTCCGTTTCTTAAATTCCGAAGAGGCAGGAATGGGAGGGTGCTGGATGGTGTGTGGAGGAGGGCACTTTCATTTCCATCAGCACCATTAGTGTTCCCAACATTCCCAAGAATAGGAACAGCAGTACCCCCTTAAACCTCCAGTCTGTGTCACTGTCACTTGACTCCTTGTCTCCTCTCATTCCACAG
Seq C2 exon
TGAGCTGGACTATTATGACTCACCAAGTGTCAACGCTCGATGCCAAAAGATCTGTGACCAGTGGGACAATCTAGGGGCCCTGACTCAGAAGCGGAGGGAAGCTTTAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:12
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=FE(47.2=100)
A:
NA
C2:
PF0043516=Spectrin=FE(34.0=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:
GCAAAGAAGCCATGCTGCG
R:
AAAGCTTCCCTCCGCTTCTGA
Band lengths:
256-1262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]