RnoINT0124261 @ rn6
Intron Retention
Gene
ENSRNOG00000001516 | Rapgef4
Description
Rap guanine nucleotide exchange factor 4 [Source:RGD Symbol;Acc:621886]
Coordinates
chr3:58892601-58893412:+
Coord C1 exon
chr3:58892601-58892689
Coord A exon
chr3:58892690-58893381
Coord C2 exon
chr3:58893382-58893412
Length
692 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGG
5' ss Score
6.35
3' ss Seq
GCATTCTCTACTTCCTATAGCTC
3' ss Score
7.24
Exon sequences
Seq C1 exon
GAGTTCTATGTGTCTGTATCAGATGATGCACGGATGATGGTCGCCTTCAAGGAGCAGCTGGCTGAGCTGGAGAAGACTGTCAAACAGAT
Seq A exon
GTAAGGAGGGGCTTTGCTTTAGGGGGTACTTTCATCCGGCGGGTGCCTGCCTTATGATTAGAACATCTTCCGAAGAAGTCTTGGCCTGTAAAACTGGCTAGCACTGGCCTGTCATTAGCCGCATGTTCTGATCTGTGACATGGGCCCCAGGCACAGGTAGCAATGAGACCAGATGAGCAGAAGGATGTGGGTGCCATTTGTGTCAGCAGGCTATAGGGAGGGAAGCTACCCTTTGACAAACCCAGGTCTAGATACACGAGTCCATTAGACAGCCCAGCGATAGAATAGTCTGTGGAGTTGGAGTACATTTGAAGACAGTTACCTATATGGGAAATTCATTCCCTGATATTGTTCAAAAGCTGTTCATTGCAAATATTCCTATCTTTGAAATGAATTTGGGGGTTTCCCATTAATGGACTCTTAAATTAAGTACTGGAGAGTTACGTATATAATGACTTTGAAAGTCAGGAACCGTAGCATTGAACCTCAGGTCTGCTCCGGGTCTGCCTGTGTCAAGAGCTAGTGGCTTTGCTGCCCCTGGGTTTTAGCCTCTTACTGTTAAAACCAGGGAGTCTCCCATTGCTGTCCAGAGAGATGGTACAATCTCAGTGCCTAACGTAAGAGTAAAACAATGCAAGCTGAAGGGACAGTAGCGATGGCATTCAACAGTGTGCATTCTCTACTTCCTATAG
Seq C2 exon
CTCAGAAGACGCAAAAGCTCCACAGAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001516:ENSRNOT00000010630:23
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=0.182
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=PD(0.9=3.3)
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:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]