RnoINT0012594 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103380859-103382132:-
Coord C1 exon
chr6:103381953-103382132
Coord A exon
chr6:103381006-103381952
Coord C2 exon
chr6:103380859-103381005
Length
947 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
GGCTCATTGCTTGCCCCTAGCAC
3' ss Score
6.53
Exon sequences
Seq C1 exon
GAGATTGGGAGGATCTCCATTGAGATGCACGGTACCCTGGAGGACCAACTCAGCCACCTGCGGCAGTATGAAAAGAGCATCGTCAATTATAAGCCAAAGATTGACCAGCTGGAGGGCGACCACCAGCTCATCCAGGAAGCACTTATCTTCGACAATAAGCACACCAACTATACAATGGAG
Seq A exon
GTAAATAGGCCTGGCCTGCGTCTCTGGAAGGAAGCCTGGGGCTCTTCCTATCCTCCTTGGGGTAGCATCTCCCACTGAATCAGGCTATAGGAGGAGCGAGCTCTCTACCCCTGAAACTCTGCACCTTCAGTTTGCAAGTACCTTCTGGATGCCTGAGAACTTGTTGCAAGGGTACACATCTGGTCCCTAGCTGGAACTTAATGAACCTTAATTTTTAACAAGCACTCGCCAGTGATTCTGATGCTAGTGGGCTCAAGACCTCACTGGCTTAGGTACCTGCTTCCTAAATGATGTTAGCTCTTCATCCCTTAACCACAGGGTATGTTCTGAGGTTTGCCTTGTTAAGTGGTCTCCTTGTTGTTCAAATATCAGAGTGTGTTTTCACTGGCTGCAGTATAACTAACTATGCAGTCAGGGAGACCACCATGGTGTATTTGGCTTGTCGTTGACCAGAAGGCCATTATGTAGTGCCACCGGGGCATTCTGTTTTGGTTTCTTTTGTTGTTGATTTTTTTTTTTAGCTTTTCCCACCACAAGAGCTAGCTTCCTCCACTAGCAGAGTTCAATAGCAAATCTGGGTCTTGTTGCTCTTTGGGCAAAGGCCTGTTCCTTCCAGCCTCCTGCAGGCCTTCCATCCTGGCAGGGTGTGCTGTGTCCCTCCTGATGCTGATACAATAACTCCAGATAGAAGATCAAGTTAACTGTTTTGGTCTTTTATTTTATGGCTATGAGTATTTTGCCTGAGTGAATGTCTGTGCACTGCGTCTGTTCCTGGTGTTCGAGAAGGCCTGGAATTAGAATGATAGATGGTTGAGAGCCTGGGTCCTCTGGAAGAGCAACAAATGCTCTTAACCACCATTTTTGAGTTGGGAGGAGGAATCGTTAGTGGGACAGCCTGGAGCCCAGGCCTGCCGTTCCTTTCTGATGGGCTCATTGCTTGCCCCTAG
Seq C2 exon
CACATCCGTGTGGGCTGGGAGCAGCTGCTCACCACCATTGCCAGGACCATCAATGAAGTGGAGAACCAGATCTTGACCCGGGATGCCAAAGGCATCAGCCAGGAACAGATGAACGAATTCCGAGCCTCCTTCAACCACTTTGACCGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:17
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(56.7=100)
A:
NA
C2:
PF0043516=Spectrin=PD(20.2=42.9),PF0003627=EF-hand_1=PU(34.5=20.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCATTGAGATGCACGGTAC
R:
TCAAAGTGGTTGAAGGAGGCT
Band lengths:
310-1257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]