RnoINT0135445 @ rn6
Intron Retention
Gene
ENSRNOG00000016932 | Simc1
Description
SUMO-interacting motifs containing 1 [Source:RGD Symbol;Acc:2319689]
Coordinates
chr17:10607410-10609380:-
Coord C1 exon
chr17:10609228-10609380
Coord A exon
chr17:10607539-10609227
Coord C2 exon
chr17:10607410-10607538
Length
1689 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGG
5' ss Score
5.19
3' ss Seq
TCTCTGTTTTCTGCACCCAGGAT
3' ss Score
9.2
Exon sequences
Seq C1 exon
AGATGTTATCAAGTGGCTGGTCAAAGCAGTGACTGAAAATGCATTAACTCCACCCCAGGACGAGACGCAGACCTCTCCAGGACCAGGAGTCTTGAAAACGAGCAGTGACCATCTGTCACCCCAGCCTAACCTGGCCAGGAACACCAATCAACT
Seq A exon
GTAAGGAGCAGGAAAGGGTTGTCTCCAGGGCTTTGGGGGTTTGGTGTCTAACAAATAGGACTGGTCCTAAGAACGGCTTGCTCCAAATTACCAACTCTTGTAACATAGACTTTTTCTCGGGGGGCGGTAGGGGACTTATCTAGGCTAGGAATATAATTATGTAGAATTCTTGGTGGCATTCACTAGGACCTAGATGCCATCTGCAGAAAAGAAGGGCAGGTGCTTACAGGTTCTCGCTGCTAAACTTAGTCCTTTGTGGATACTAACCAAATTCCTGAGCCTGCTTTGCCGCACACTGCTTCCTCTGATGACACCCACCCCACATAGCCATTCTGACCTCCACTGATGAGCCGTCCTGCTCCTGGAGACTTGGAACTCTCTCTCATCCATCTCCTACCTCATAGCTGCCAAGACCTCTAGCTCACCTGCCTGTTGTTTTCCTTTAAATACTAATGAAACTGCCCTATTTAAAACAACAAAGGACTTGGTCAGTCTGGACAGAGCCAGTATAGCAGCTTAGAGCCATCCGTCTCCTTGCAGAATGAGAAGCTGGCCTGTTCTCTTCTACTGACTGGTCACCGTCTGCACTTTCTCTGACAACCATGCTCTTCCACCATATTATATGAGTTTAAGTGAGTTCTGTCAGGCCGAGTTCACCGTCTGAGGTGCTGCTTAGCCTCCTATGCTGTGTCTGCCTCTCCCATATTTGTGTCCAATGGGAGAGGTGAGGGTCCACCCCTGGAAAGTCTGAGGCTAGTCTTAGTGAGAACTGCTGTGTCAGAAAGAAAGCACTAATAGAAAATTTACATGATGAAGCTGGAGAGATGGTTCAGCAGTTAGAGCACCGACTGCTCTTCCAGAGGGACCTGTTTCAGTTCCCAGCACTCGCACAGCCACTCACAACCATCTGTAACTCCCGTTGCAGGAGATCTAGGGCCTTCTGTTGCTCTGTGACAGCAACAGGCATGCACATGGTTCATAGAAGTAATTAATACATAAAAATAATTAAGTAATTAGAATTATTAAAAATTAAATAACAGGGGTTGGGGATTTAGCTCAGTGGTAGAGTGCTTACCTAGCAAGCGCAAGGCCCTGGGTTCGGTCCCCGGCTCCGAAAAAAAGAAAAAAAAATTAAATAACAAATGTGTGTCTTCTATAACAAAGAAAATGAAATAATATTAGTCATAGAGAGGTTCGGCGTAGATGTCTTTACAGGATTTTCTAGGCCCTTAGGAGTGTATTGCTCTGCTTTACTTTAAAGCATCTTGCTTATGTAGCTCACCCTCAAATTCTACAAGTTTCATGTATGAGCTGGCAGAAGGCTTCAGAAAGATGGACTGCTGAGTGTAAGCCAGCAAAGGGCTGGCTTGCTCTCTGTGGCCTGTGTGTTGGGAGGACCTTCTAATAGGCTCTGTTCTACTGCTGGTGGTGGTGGTGTTTTTTTGTTTTGTTTTGTTTTGTTTTGTTTTGGTTTTTTTGTTTTGAGGCAAAATCTCAACAGTAACTCTAACTGACCTGAAACTCACTACGTAGATCAGGCTGGCCTGCCTGCCTCTGCCTTCTGAATTGAAGGTGTGCGCCTCCACACGCAGTGCTCTCTGTTGGTGTGCTCTGCTGAGGCCCTTCTCCAGCTTTAGCAAGCCTCTCTCCATGTCTTCCCACTCACTTGTCTCTGTTTTCTGCACCCAG
Seq C2 exon
GATTGTGTGTCAGCTTCAGAGGATGCTGTCCATCGCCGTAGAGGTAGACAGGACTCCAACCTGCAGCTCCAATAAAATAGCGGAGATGATGTTTGGGTTTGTGCTGGACATCCCCGAGAGGAGCCAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016932:ENSRNOT00000022980:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.519 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTATCAAGTGGCTGGTCAAAGC
R:
CTCTGGCTCCTCTCGGGGAT
Band lengths:
278-1967
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]