RnoINT0012638 @ rn6
Intron Retention
Gene
ENSRNOG00000019745 | Actn3
Description
actinin alpha 3 [Source:RGD Symbol;Acc:621792]
Coordinates
chr1:220120533-220121057:-
Coord C1 exon
chr1:220120899-220121057
Coord A exon
chr1:220120818-220120898
Coord C2 exon
chr1:220120533-220120817
Length
81 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACT
5' ss Score
6.64
3' ss Seq
TAATGTCTCCTCTCTTCTAGAAC
3' ss Score
9.34
Exon sequences
Seq C1 exon
GGAGAGGTGGAGTTTGCTCGGATCATGACCATGGTGGACCCCAATGCAGCTGGGGTCGTGACCTTCCAAGCCTTCATTGACTTCATGACCCGAGAGACTGCAGAGACAGACACAGCTGAACAAGTTGTAGCCTCCTTCAAAATCCTAGCAGGAGACAAG
Seq A exon
GTGACTCTCACTCAGTGGAGGGGCTGGAAGGCTAGGACATGATCCAAGAGCTATGGGCCCTTAATGTCTCCTCTCTTCTAG
Seq C2 exon
AACTACATTACCCCAGAAGAGCTGCGGAGGGAGCTCCCAGCCGAGCAGGCTGAGTACTGCATCCGTCGGATGGCACCCTACAAAGGATCGGGGGCTCCGTCCGGGGCCCTGGACTACGTGGCTTTCTCTAGTGCCCTCTACGGAGAGAGTGACCTCTGACATTCTTAGTGGAGAAGAGGAGAGGGCACTTCCTGTGGTGGATTCCACTGTCCCTCAGAGCAAGGGCTTCAAATCATCCAGCACCAACCACATTTCTGAATAAAGATCGGGTTGTGGGCCTCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000019745:ENSRNOT00000026812:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.038
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PD(35.4=52.8),PF087265=EFhand_Ca_insen=PU(26.9=34.0)
A:
NA
C2:
PF087265=EFhand_Ca_insen=PD(70.1=88.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGTGACCTTCCAAGCCTTC
R:
ATCCGACGGATGCAGTACTCA
Band lengths:
176-257
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]