RnoINT0012587 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103389817-103392180:-
Coord C1 exon
chr6:103391950-103392180
Coord A exon
chr6:103389965-103391949
Coord C2 exon
chr6:103389817-103389964
Length
1985 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGT
5' ss Score
11.11
3' ss Seq
TGTGCTCCCCATCTCTGCAGGAT
3' ss Score
11.83
Exon sequences
Seq C1 exon
CTGTTAGAGTGGATCCGCCGCACCATCCCATGGCTGGAGAATCGGGTGCCCGAGAACACCATGCAGGCCATGCAGCAGAAGCTGGAGGACTTCCGAGACTACCGACGCCTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACACTGCAGACCAAGCTGCGGCTAAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCG
Seq A exon
GTGAGTGCCAGCGGCAAGTCTGGGGCCTGCCCGGCCGCCTCTATCCCCCAGCTGCTTGGAGGTGGGCTTTCTTCTACCTACAAACCATGTTTCTTACACTTTATCACTCAGGCGTGCGCCCAGGCACAAAGGGACAGCCACTTTCTCCCCCTGACTGTCCGGTTTGTCCATCTCAAGCCCCGAGCATTCCAAACACCCCTACACCTTAAAAAATAAACTTTTAAACAGAATATCTGGTCGTACTGAACCAAACAGTAATGTTAATTTTTAATTTCATATAACCTTGAGTACTTTCAAAATAAATAACAACAGCAAAAACAAACCCACTTTTGTTATCTTAAATAAAAATTAATTTTCGTAGTATGGTTCTAATATGCTAATAAGTAAAATATTAAGAAGTAGAAGTTGTTTATGATCTTATTACCTACTATAAATTTTGTTTTAATTTGAAAAGATATTTATTTATTTGCTTACATTATTATTATTAATTATCATTATTATTATAGTAGTGATCCTAGGCACTGAACCCATGTCCTCATGAATGTTAGGCAAGTGCTCTGATTCAAGTGCTAGCCCCTTCTCTATTTTTTTCTGGGAGATAGGTAGGGTCTTGTCAACTCCTTAGACTGGCCAAAGACTTTCCAGTGTAGCCCATGAAGACCTTGACTTAGGATTCTCCTGCCTTAGTATTCCAAGTAGCTAGGATTTCAGGCCTGTGCTATTAAGTCCAGTTTTAATCGTTATGTATAAATATAGTTTTAAGTAATTCTTCATGCATGCTTTATATAAGATTCTTTCAAACAAAAACACCTATAAGGAGTTGAGTGTGACACATGTTTATAATCCCAGCTCTTGGGAGTCTGAGGCAGGAGGATTATAGCAAGCTCGAGACCAGCCCAGGTTGTATAAGCTAGACCCTATCTGGAAAACAAAAACAAAACCCTAATATCCAAATCAATCTTCTGTATCACGAGTGCCCCTCCATTATGTCCTCTTTTGTGTTTTACCATCCCTTCCTTCCCCTTTATCCTTCCCCAGGGCTTTTTGAGCCTGGAGAATACAGGACAAACTCATCAAGGTAGAACCTTTTATCCCTTCGGACAATGAGTAACAATAACAACAAAAACCGAGCAAACCAAACCCAGACACACTGAGCAAGGCCGGAGAGGCCAGGCCAAGTGGGAGGAGGTGGGAGCAAGATGGTCTTGCACAGAGGAAGTAGGCCTGTGTGTGTGTCATACAGGCAGTTTGGAATACCAGTCCCTTAAAGCTCAGGGCTTAATCAGATGCTTTAGGGTTGTTAAAGTCACTGTGAGCTAAAGGTAGTGCCTCTGATGTGGGGCAAATGCCTGCCGCCTGCCCAGGAAGATGGTGCTCACACTGGCTCTGCCCTAGCTGTTCCGGCTGGGTACCTTATACAGAGGGTATATGCATTTCTTTCTGCTCATGATCGTGCCTGACTCTCTCATCCAAGCTGCTCTCCAGAGCCTAAAGTCCAGAATCTGGGGTCCTTAGCTTAATAGGACGATGCATATCTTGGATCTTGTCTGTCAGATTGCTTCATTCTTTTTTTTTTTTTTTTTCCTTCAGAGCTGAGGACCGAACCCAGGGCCTTGCACTTGCTAGACAAGCACTCTACCACTGAGCTAAATCCCCAGCCCCAGATTGCTTCATTCTTAATTGGTCTGGTCCTCTGGCTTGTTCTTGGGCCTCGGAGACTAGCCAGGATCCTGTTGGAAGCTGGTCTGTGCAAGGGGGTTCCATGGCTGGATGGCCTAGGTGGACTCAAATTCCTTTCCTATCCAAGAGTCGGGGAAATACTAATTAGGTGATAGAGCTCTGTTGAAGGAGTCTGGCCAAGAAATACTAATTAGGTGTGGAGTAGTTGACTGTGGTGTGCATGGGTGCTAAGATCTGGAAGCATCTCTTCCTGGAAGGCTGCAGCCCCTCCGGGTTCTCTGAGCCTGTGCTCCCCATCTCTGCAG
Seq C2 exon
GATATCAACAATGCCTGGGGCTGCCTGGAACAGGCAGAGAAGGGCTACGAGGAGTGGTTGCTGAATGAGATCCGGAGGCTAGAGAGGTTGGACCACCTGGCAGAGAAGTTCCGGCAGAAGGCCTCCATCCATGAAGCCTGGACAGACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:10
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(68.5=100)
A:
NA
C2:
PF0043516=Spectrin=PD(18.9=42.0),PF0043516=Spectrin=PU(17.0=36.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CATCCCATGGCTGGAGAATCG
R:
GCTTCATGGATGGAGGCCTTC
Band lengths:
345-2330
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]