RnoINT0012605 @ rn6
Intron Retention
Gene
ENSRNOG00000056756 | Actn1
Description
actinin, alpha 1 [Source:RGD Symbol;Acc:70907]
Coordinates
chr6:103391950-103393554:-
Coord C1 exon
chr6:103393462-103393554
Coord A exon
chr6:103392181-103393461
Coord C2 exon
chr6:103391950-103392180
Length
1281 bp
Sequences
Splice sites
5' ss Seq
GATGTGGGT
5' ss Score
2.02
3' ss Seq
CCTCTGTCTCGACACCTCAGCTG
3' ss Score
4.24
Exon sequences
Seq C1 exon
GCGGAAACAGCAGCCAATCGAATCTGTAAAGTGTTGGCCGTCAATCAAGAGAATGAACAGCTTATGGAAGACTATGAGAAGCTGGCCAGTGAT
Seq A exon
GTGGGTACCCCCATGTTTGTTCTTCTAGCCTGGCCCCAGCAAGGCCCTGTATTATACCCTGAGAGAGTGAAGCCCCCAGGATCTGTACCTGTATTGTCATTCTGCCCACACAGTCCCAGGCTGGTGTAGTGCATGATCCAATCAACCACCATTAGCATAGGGCCGCTTGGTTCTGGGCCTCTGGGAGCGCAGAAGTGAAGTCGGGGAGATGGTCTCCAGGCTATAGTGGGCCTGGGAAATGCCTTCACCTCTCTGCCTCTTGCTTTCCTTCACTTACTGAATGGGAGTTGAGCCCTTTAGACCTCAGAGGCATTTGCAGCCTGATAAACTGCCCCTTGGGAAGGCTTGCCTGAACTAGATAGTACAGGGCTGTGCCAGGTACTTAGAAGACATGTGCCAGGGAGGGCTGAGTACTGTCTCAGGCTTGGTACTTAGCAGTACTTAGTACTTAGTAGTCAGGCCAGCAGGGGACAGGATGGGAAGAGGTTAATCAGCTGACCTGCTGTCCTTTGGTTAAGGTGCTGCTTGCTTCCTCCTTACAGACCTCAGCCCTTTGAACTTTTCCCCTGGCCGTTCAGTGGCTTTGCCCTCCAGCCGAGTGAGGAGAGCCAGTTGCCCCGGCTTTAATCCCTGCTTCACTGCTCCGGCCAGTCACTGCAGCAAGCTGCGTGACCTGGCAGAGCCTTGGAGACCTCCTCTACAGTGAGGGGGTGATCGTAGCACTTGACCATGTAGTATTTCTATGATTATTCCTGTGAGTCACTTTGTGGGTCATGCCTGGCAACGTGCAGGTGTCCCACCTGCTTCCTGTCATCCACCCTAGTAATCCTGCGTCTTCTTCCTCACCCTCACCATGGCTCCAGGATAGAAATCTAGGCTGTCCCAGAACCTAACCTCTTCCTCTGGGGCCAGAGGTTCCCGTTCTGTTCCACTCCTGCTTGGTGAAGATGAGGAAACCGAGGCCTGGCCAGACTTAAGCTCAGGTCTCCCTGCTTTTAAAGCAGCCCGTGGTTCTTTGGTTCTTCCTGTATCGGGGCAGAGAAGATGAGGGATGTGGGCTCTGAGCTGACCATATCCTGGTCAACTTGGAGGAAGTACCCAGAAGCCTTCCTACATGGCATGGTGAGGTCTTCGTAGGTAGTTGGTTGAAGGGAGTGTGCCATCAGGAGAGACTTTTTGCCAGCCCTCTTCCTGGGAGGGGAAGGCCTATGGAAAAAAGGCAAACTGGCCCTTGCACATCCTTACCCTGGTGCCCTTCTTTCCTCTGTCTCGACACCTCAG
Seq C2 exon
CTGTTAGAGTGGATCCGCCGCACCATCCCATGGCTGGAGAATCGGGTGCCCGAGAACACCATGCAGGCCATGCAGCAGAAGCTGGAGGACTTCCGAGACTACCGACGCCTGCACAAGCCGCCCAAGGTGCAGGAGAAGTGCCAGCTGGAGATCAACTTCAACACACTGCAGACCAAGCTGCGGCTAAGCAACCGGCCTGCCTTCATGCCCTCCGAGGGCAGGATGGTCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056756:ENSRNOT00000079824:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.039
Domain overlap (PFAM):
C1:
PF0043516=Spectrin=PU(9.9=35.5)
A:
NA
C2:
PF0043516=Spectrin=FE(68.5=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:
CGGAAACAGCAGCCAATCGAA
R:
GACCATCCTGCCCTCGGAG
Band lengths:
320-1601
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]