RnoINT0124201 @ rn6
Intron Retention
Gene
ENSRNOG00000014316 | Rapgef1
Description
Rap guanine nucleotide exchange factor 1 [Source:RGD Symbol;Acc:619793]
Coordinates
chr3:8255198-8255888:+
Coord C1 exon
chr3:8255198-8255318
Coord A exon
chr3:8255319-8255704
Coord C2 exon
chr3:8255705-8255888
Length
386 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
TCCTTTCCATTCTTCCCAAGGAC
3' ss Score
8.89
Exon sequences
Seq C1 exon
TCCACCAGCATTACCACCCAAGAAAAGGCAATCTGCTCCATCCCCTACCCGGGTGGCTGTGGTAGCCCCCATGAGTCGTGCTGTCAGTGGCTCCAGTTTGCCTGTTGGAATCAATAGGCAG
Seq A exon
GTAATGAAGTCCTGTTTTCTGTTGGGGAGGAGGACTAAAGTTGGAATTTGAGGATTGTGTCCTAGTGCCAAAAGTCATCTGGTAGTCTTCAGATCACTATTACTCACATCTAAAGACTTGTAGGAGGGCAAACCATAGCCATCCCTCTCCCCGCCCCACATGACAGGGGCAGTAGTTGAACCTCAGACAACTCCCAAAAGCACCCCTATTGAAACACCCCCATGCTCCTCCCAGTCCCTTTCCAGTCTTATCCTGATCCTACACTGGCATCAGAGATAGCCCCTGAGCTTAGGCAGGGTTTTCTCTGAGCTAGTGAGCATGCCAGAGTCCCTGGTTTCTGCTCTCTTTCCCAAGGGTGACTGAAGTTCCTTTCCATTCTTCCCAAG
Seq C2 exon
GACTTTGATGTTGAATGTTACACCCAGAGGCGCCTGTCAGGAGGCAGCCGCTCCTGTGGTGGTGAATCTCCTCGCCTGTCCCCCTGCAGCAGTACAGGCAAGCTCAGCCGGTCAGACGAGCAGCTGTCCTCCCTAGACAGGGATAGCGGGCAGTGCTCACGGAACACAAGCTGTGAAACACTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014316:ENSRNOT00000060977:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.951 A=NA C2=0.839
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCACCAGCATTACCACCCAAG
R:
ACAGCTTGTGTTCCGTGAGC
Band lengths:
294-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]