RnoINT0012595 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103379314-103381005:-
Coord C1 exon
chr6:103380859-103381005
Coord A exon
chr6:103379380-103380858
Coord C2 exon
chr6:103379314-103379379
Length
1479 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGA
5' ss Score
7.62
3' ss Seq
CTTGGCACCACTGCCCACAGAAG
3' ss Score
4.5
Exon sequences
Seq C1 exon
CACATCCGTGTGGGCTGGGAGCAGCTGCTCACCACCATTGCCAGGACCATCAATGAAGTGGAGAACCAGATCTTGACCCGGGATGCCAAAGGCATCAGCCAGGAACAGATGAACGAATTCCGAGCCTCCTTCAACCACTTTGACCGG
Seq A exon
GTGAGAGCCCCAATCCTTGCTCACCTAGAGTGACCTCCAACCCCCGACCCAGAGCCCTGGAGGGCATCGCCCAGGGCATGAGCCTGCTCCTTGGGTAGGTGAGGAGGAGAGAGAGGAAGAAACTGATAACAGCCTGCCCTGACTCAGTATACCCCACAGAGCCAGGCTTCCTGAGCTGACCTTGGAAATCCCACTTTGCCCCGTAAACCTTCACAGCATTCCTAGAGAGAATGCTAATGTTGTAGGTGAAAAGAGGAAGCTCCTCTTCATTCTCCACTCTGTGTCTCCTGTGAGAGAAATCAACCCCTGGAAACGAGGCTGCTGGAGCCACAAGTAAAGCCCTGTGCCTGTGGCTATGGGGACTGTCCCTTACCTCTGCCTTGGGACAAAGGGACAAAAAGAGACTCTGCCCCTACCCAGGCTGCCTTTGGGACCCGCTATTGGGGACATTAGAGTCCACTCTCCTGGATTCTCATATCAGCTTCAGGACAGGCTGCACATTCCCGGTGCTCTGAGCTTGGGGATAGCCACAAGGGAGGTTGGGCATGAGGTCAGGTGCTCTCCACCACCCTGCCTGCTTCACTGCCCTCCAGGGACCTGGCGAGGTGTGGGGGGAGGGTTCTGGGAGACATCAGGTAACCTGGGGCACTTCTGGGAGCTTCTCACCCTTGTGGCTCATCATGTTCCCCCCTCCAGCCCTGCTTTCCCAAGCAGGACTGTGTGTGCCAGGGACAGGGCGCCCCTCTGGAACCTTGTCTGTGTGTCTAACTGTGTGCACTTTTATTTCCCCTCTCCCCCCCCCTTCCCCTCCACCCTCTCCATCCGCATGCCTTTGTCCCTGTGTCTCCCCACACACACCACCTTCCACCCCGGGGCATGGCCCACCCTCCCCACCCCCCTCACGGCCTCCTCTTCCCTGGCACCGCATGGCTCGCTGCCTGGCGCACCACGGCCCCAGGATCACTCCGGCACGTTGGGTCCCGAAGAGTTCAAAGCCTGCCTCATCAGCTTGGGTTATGATATTGGCAACGACCCCCAGGTACTCGCCTCCTGCATGGAGCACGCTCAAGGGTGGCCTCTGGGGCGAGAAATAACTCATTTCTCCTTTTTTTCTTCTCTCTTCTGTCTGAATTCTCCCTGTCTCCCTTCCTGTGGGCCATGGGGCTCATCCTCTCCTGCTCTCCCTGCCTGCCCCCTGTCGGGTTCCTCTGACTTCTGACCTCTGACTTCGGCTATCTTTCCTGGGAACCTGCTTGGGTATCCGCCTCCTCTCCCTCGTCACATCTCACCTGTGGACTGGTCTTCTGCATTTCTTTGCTCTGACCTCCTTCAACATGTTCCTCCTACATTCTTCGGCTCCTCCTAATCTTCACACCATAAACCGGGCCCTTCCTCTTTCTGCTGTCCTCCTGGCCTCTGCCTGGGCCCTCCTCCTCCCACCTGTCTGTCCCTCCTGTGTCTTGGCACCACTGCCCACAG
Seq C2 exon
AAGAAGACGGGCATGATGGACACGGATGATTTCCGCGCCTGCCTTATCTCCATGGGTTACAACATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:18
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(20.2=42.9),PF0003627=EF-hand_1=PU(34.5=20.4)
A:
NA
C2:
PF138331=EF-hand_8=PU(37.7=90.9)
Main Inclusion Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACATCCGTGTGGGCTGGG
R:
GTAACCCATGGAGATAAGGCAGG
Band lengths:
206-1685
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]