RnoINT0123429 @ rn6
Intron Retention
Gene
ENSRNOG00000002736 | Rabgap1l
Description
RAB GTPase activating protein 1-like [Source:RGD Symbol;Acc:1304620]
Coordinates
chr13:78011047-78011628:-
Coord C1 exon
chr13:78011536-78011628
Coord A exon
chr13:78011343-78011535
Coord C2 exon
chr13:78011047-78011342
Length
193 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGG
5' ss Score
9.26
3' ss Seq
TAATATTTCTTTTCTTTCAGTTT
3' ss Score
9.37
Exon sequences
Seq C1 exon
GTACCAACCAAAAAGTTGAAGAAATATGAAAAAGAATATCAGGCAATGCGGGAGAACCAGCTACAGCAGGAGGACCCAATGGATAGATACAAG
Seq A exon
GTATGGGGTACATTTGGTACTTAGTGGGGCAAAAAGGACTTTACTCATCCTAATTGAGCAGTTGTGGTGAGTTCAGCTTCCTCTGCTCGACTCTGAACTCTTCAGACATCGACAAGCTGACTGTGTGTGTCTTCGTTTTTGACTGACTCAGTCAAAAGTCAAGTATTCAACTGTAATATTTCTTTTCTTTCAG
Seq C2 exon
TTTGTATATTTATAGGTCACTCCAGCTGTTGAATTTATACTGGGAATCTTCATGAGAAGCTGAAAGAAAGGGAAAAAGAAAGTGGCTTTCTGCTTTCAAAAATGAGGAAAATAAACCAGAAAAATGGCAAAAGTGCTGTTTTAGCAGTGCACAATCACTTCCACAGAGACTTTTTTAGATGTGACTGTTCCAAGACCCTCTCAAGGACATCGCAAACTTGTCCCTGACTATATACAGCACATGTTAAAACACAAATTTAGAAGAAATAAAAACCAAAGGTGTGTCAAGCACAGTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000002736:ENSRNOT00000003671:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TACAGCAGGAGGACCCAATGG
R:
GGGACAAGTTTGCGATGTCCT
Band lengths:
256-449
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]