RnoINT0124186 @ rn6
Intron Retention
Gene
ENSRNOG00000014316 | Rapgef1
Description
Rap guanine nucleotide exchange factor 1 [Source:RGD Symbol;Acc:619793]
Coordinates
chr3:8297331-8299507:+
Coord C1 exon
chr3:8297331-8297415
Coord A exon
chr3:8297416-8299414
Coord C2 exon
chr3:8299415-8299507
Length
1999 bp
Sequences
Splice sites
5' ss Seq
CCGATATCC
5' ss Score
-4.31
3' ss Seq
GACCTTAACCCACACTTCACGTA
3' ss Score
-3.23
Exon sequences
Seq C1 exon
ACCTGGTCCTGTACTGTGAAGCCTTCCTGACCACCTACAGAACCTTCATCAGCCCCGAGGAGCTCATCAAGAAGCTGCAGTGCCG
Seq A exon
ATATCCTTCCCCGCCTGCGGCCTCGGCCTGGGTGACTTACTGTCTCCCCAGCAGTCACTGAGGAGACTGAGGCTGAGCGTGTTGAAGTGAAGCCTGTTGTGTAGTGCCATCAGCCCTGGGGCTCTCAGCCCTTCCCGGGTTAGCTGCACCCAGCCTGTTCATGGAGGCACTGCTCCCTCAAGACTGTGGGGCTCCAGTTCCCACCCCAACCAGCCGTATCCCAGCACTGACAGAATGGCTGAGGAAAATGTGGAATGGCATAGAGAGCCTGGAATGGGGTCTGCCGCACTGTTGAGGATGGGTAGGACCACTGGGTAACTTTGGAAAGGAAAGACTGAGAAGGCTGAGAGAAGGAAAGAGGTGGGTGGCCCTCCTGGGGGCTTCCTACAGGGTCTCACACTGAGCCCTGAGTATCTAGCTGGTGGGGACCTGTGGACTTAAGAGTGGAACAGTCTTAAGAGAAGAAAACTCAGCCAGGTACTGTGGCACACGGTTAATCCAGTGCTCAGGAGGCAGAGGCGGGCTGATCCCTTAGTTCAAAGCCAGCCTGGTCTACAGAGTGAGTTCCAGGACAGTCAGGGCTACACAGAAAAGCCCTGTCTTACTAAACCAAAAGGAGTAGGAGGAAGAATAAGGATGAGGAGGGTAGGAGGGAGGAGAGAAAGAGAAGAAAAAACTAAGTGCCTTCATGGCAGACTTGGCCCCTCCTGCCTGCCGTGGTCATCTAGCCCTGGTCCTCCACCACAGGACCACAGGTCCTCCATCACAGTTATACTTTGCCCACCCCAGAATTTACCCTTGGGGATTGCTACCCCTGTGTTAGTGGACAAGACCCTATCTATGGTCTTGAAAGAACCCACTTATGTTGCCTGTTCCTCTTTCTCTGTCCTTGGCCTACCTGGGATCCAGCTACGAGGCCACCTCCCAGCCACATGGCCTGTGACTGCCATCTGCTGGACAGCTGCTGTCACTGGGCAGCTCTCCACATTCCCGTGGGGCTCCTGTACACCTTCTCTGCTCAGTCTGACCCTGACTAACTGTGGCCTGTCCCTTTTTGTGGACTCTGAGCACCAGCTAGAGCCTGGCCTCACTGAAATGTCAGTTACATCTGCCAGGAACATGTCAAACCTGATATGCATTTACATGTGGGGTCCACATTTACGTGGGGACCATTTTTATCCTATTGTATAATGGCACCCTTAAAATGGAGAATGGGCAACTGACCTGCATGTTCCCACCTCCAACCTCTGCAGCCAGGTCAGTTTCTCAGCCCTTCCCCATTAACCTCGGCTAGCAAGTCCATGGAGGCATTTCCTCTCAAATCCTGGGGCAGCGCTTTCCTGGGGCCCAGGCAGACTGTCCATTCGATGTGGCTCCCCTTGAACGCCAAAACTCAGATCAGGCATCATTGGGGGATGAGCAAGGATGTGGCAAGTGGGTGGGGACAGGATAGCAGCAGGAAGCAGTCATCTCCAGAGTAGACCCCAGCTTCAGCAATCAGCTGAGGGCTACCATGGGCCTAGGGGAACACCTGGGGGTCTACTGGCCCCAGAAGGATGAACCAGCCTGACTTTCCAAGGCACAAGTTCCCAGGAATATCCATACCATTGTGGCCGTGTGGTTGGAGAAAAGCTCTTCAGACGGAAGCCCGTAGAATGGAGAGGGAGGCCTTTTGGGCCTGTTCACTCTCTGGGCCCACAGGGTCCTGCTCCCTCCCAACACCATGACCCTCAGTATGATGGCACTCGGGTCCAACACACAGACAACATGGATGTGCCGGAGTCAGTCCTGCAGACCAGAAGGCAGCATTCAGGAACAGCCTCTGAAGCCAGTAGCCCAGGCTAGACTGTGGCTTTTGCACAATCCCACTGCACACAGGACAGCCCTTGGCTTCTATAAGCTAAGCCTTCACTAACAGGGTTTCCAGCACATGTGTGGGGGTGGGGTAAAATTAGCATTGCATGCGGATCCTGCCTGTGGACCTTAACCCACACTTCAC
Seq C2 exon
GTACGAGAAGTTCTCTCCCTTTGCTGACACATTCAAGAAGCGAGTGAGCAAGAACACATTCTTCGTGCTGGTGCGGGTGGTGGACGAGCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014316:ENSRNOT00000060977:18
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(28.6=100)
A:
NA
C2:
PF0061815=RasGEF_N=FE(31.6=100)
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]