RnoINT0124187 @ rn6
Intron Retention
Gene
ENSRNOG00000014316 | Rapgef1
Description
Rap guanine nucleotide exchange factor 1 [Source:RGD Symbol;Acc:619793]
Coordinates
chr3:8299415-8300412:+
Coord C1 exon
chr3:8299415-8299507
Coord A exon
chr3:8299508-8300226
Coord C2 exon
chr3:8300227-8300412
Length
719 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGT
5' ss Score
10.1
3' ss Seq
CTGAGTGCCCTTGCCCTTAGCCT
3' ss Score
5.64
Exon sequences
Seq C1 exon
GTACGAGAAGTTCTCTCCCTTTGCTGACACATTCAAGAAGCGAGTGAGCAAGAACACATTCTTCGTGCTGGTGCGGGTGGTGGACGAGCTCTG
Seq A exon
GTGAGTGCCTTGCCCCGGGTTCCCAGGAGTGGTTGCAGATGTTCAAGCCTGTGTGCGGGCCGCCAGCAAGCCAGAGGGATGCAGGCTTCCTCACCTGGACTGGACAGCCATTGCATTCCACTCACTATTGAGGGGGGAGGTATGTGCCCTAATACAGACTTCTGCCCACTGGTTCCATTGCTTCCTCCCAGCTCTGAGAGGAACAGACCCTACAGACCAAGGTAGGGGTGGATGTTAGGTCTGGAGTTCCTTGCAGGATGAGTCCCTGCCCCATCTGGGACTCTTCTCCCTATGCTATCTTATGACTAGTTCACAGCAAGACACACTCATAGCAGCACAGTGGAGCCAAGTGGGGGCTGGATGTGTGGAAGAGGCTGCTCTCCACCACTCCTGCTATTCCATACTTAGTCAAGCCTGTTCTGGGTGTGCCACCTCTGAACGCTTGCCCTCCAGTGTCATCTCGCCCTTATATGGTGGCTGTATAATGTTCAGGTAAGGAATGGAGGAGCTCAGTGGAGATGACAGTCTTCAACAGATGCCTGTCTGGCATCGCATCCCTGTGTGTTAGGCCAGGAACTTCCCCAAGGCAGAGAGCAGCAAGTGTGTTGAGTGAGTTGGCAGAGGCCTGCTGCAGAAAGCTATCCCAGCGCTGCGGAGGCTGTGAGTGGCTTCCTCAGCTGGGCCCTGGCCTGCCTTTCACTGAGTGCCCTTGCCCTTAG
Seq C2 exon
CCTGGTGGAGCTGACAGAGGAGATCCTGAAGCTGCTGATGGAGCTAGTCTTCCGCCTAGTGTGCAGTGGAGAGCTCAGCTTGGCCAGGGTACTCCGAAAGAACATTCTGGACAAGGTGGACCAGAAGAAGCTGCTCAGGTGTGCCCATTCCGACCAGCCTTTGGCAGCCAGGGGTGTTGCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014316:ENSRNOT00000060977:19
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=0.000
Domain overlap (PFAM):
C1:
PF0061815=RasGEF_N=FE(31.6=100)
A:
NA
C2:
PF0061815=RasGEF_N=PD(18.4=28.6)
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:
GTTCTCTCCCTTTGCTGACACA
R:
CTGGCTGCAACACCCCTG
Band lengths:
270-989
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]