RnoINT0135442 @ rn6
Intron Retention
Gene
ENSRNOG00000016932 | Simc1
Description
SUMO-interacting motifs containing 1 [Source:RGD Symbol;Acc:2319689]
Coordinates
chr17:10617594-10618503:-
Coord C1 exon
chr17:10618256-10618503
Coord A exon
chr17:10617664-10618255
Coord C2 exon
chr17:10617594-10617663
Length
592 bp
Sequences
Splice sites
5' ss Seq
AACAGCTGG
5' ss Score
-19.77
3' ss Seq
TGATGTCACTTGACTTTCAGGCT
3' ss Score
6.84
Exon sequences
Seq C1 exon
AGCAAGGGTCAGAAATTAGAACCCATCCCTCATCGAAGACTAAGAATGGTGACAAACACTATTGAGGAAAACTTCCCCTTGGGAACTGTGCAGTTTTTAATGGACTTTGTTTCACCCCAACATTACCCACCCAGAGAAATTGTGGCTCACATCATCCAGAAAATCCTGCTGAGCGGCTCTGAGACTGTGGATGTCCTCAAGGAGGCCTACATGCTTCTCATGAAAATCCAACAGTATGAATCGTTAAC
Seq A exon
AGCTGGTTGGCCAAGTCTTCTAGGGAACCTAGACTCAGGACATAGCTTCCCTTGTCTAAGCTTTTATTCAGCTGACCTGGGAGCTTCCTTAATAACATTAATTGCAAGTGGCTGGAAACCTAATCAAAACTGGCTTCAATTGCCAGTAAAAGAATTTACTGACTTATTTTCCCTAGAAACCTGGGAATGTTATTTAATACTGTTTTCCTAAATGGCTGCTGGGGCCCAGTTTTCTATAGTCTTTACCTTCAGATTTTTATAGTATTTTGGGTTAGAAAATCAACTTTGCTAATTCCACCGACTGAGTTGTATTATAATTGGGTTAGCATGACATATGAGTCTATTTTTTAGGCAATTGTAGCGAACTGAAGAATACAGTGTTGTGATTAGCTCAACAATGCACATGTTTCATGCAGTCCTGATAGATCAAGCTCACTGACTATAAGCTGCCCTCCACTGGCATGCTGTGGTCCTGGAAAGTAGGCCAGATGGCTTATGATAAGAAGGGGCTTTTTCTCCCGTCACCTTCCAGATGCTACTCTTTCTGTCACTGAAGTCTCCAGAGTTGTAATTGATGTCACTTGACTTTCAG
Seq C2 exon
GCTGCATCCAGCCAATGCCAAGACAGTGGAGTGGGACTGGAAACTGCTCACCTATGTCATGGAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000016932:ENSRNOT00000022980:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.139 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
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGCAAGGGTCAGAAATTAGAACCC
R:
CTCTTCCTCCATGACATAGGTGA
Band lengths:
318-910
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]