RnoINT0124252 @ rn6
Intron Retention
Gene
ENSRNOG00000001516 | Rapgef4
Description
Rap guanine nucleotide exchange factor 4 [Source:RGD Symbol;Acc:621886]
Coordinates
chr3:58864012-58864635:+
Coord C1 exon
chr3:58864012-58864096
Coord A exon
chr3:58864097-58864574
Coord C2 exon
chr3:58864575-58864635
Length
478 bp
Sequences
Splice sites
5' ss Seq
ACAGTAAGT
5' ss Score
9.49
3' ss Seq
CTTTCTTTCTTTTTTTCTAGGTG
3' ss Score
14.18
Exon sequences
Seq C1 exon
ACCTGGCCAGAGGACTGCAGATGACCTAGAGATTATCTACGACGAACTCCTTCATATTAAAGCCTTATCCCATCTTTCTACCACA
Seq A exon
GTAAGTATGTCTTCACCAAGCTGTGATGCACAGGCATACACTCAAGCAGACACAGCAACACACAAAAATAAATAAATTTACAGAACGAAAAATAGTATCTGAGCCTAAGAAATGACTCGATCTGGTTACAGCTATAAGTCTGACAACCTGAGCCCTGTCCCAGTAACCCGTGTGGTAGAAGGAGAGAACCGACTCTTGAAAGTCGCCCCACAAAATAAATAAATGTCCCTAAGGGGTCTGCCTGGTGGGAACTGTTATAAGCTTGTCTAGACAGTAATTTTGGTATAGACTTTAAGATCCAAGTAGCAAGCCTAGTGAAAGTACTTCTGGATGACAGGAATTTGTATAAGCAAAGTGAGAGATGACTTCAAGGTGAGCCTGAGACCCCCTCTAACAGACACCCACGCAAAACACAAGTCCCTTCTCCTGTACCTTTCCTTCCCACATTTCTTTCTTTCCTTTCTTTCTTTTTTTCTAG
Seq C2 exon
GTGAAACGGGAGTTAGCAGGTGTTCTCATTTTTGAGTCTCACGCCAAAGGAGGAACTGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001516:ENSRNOT00000010630:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.069 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0002724=cNMP_binding=PU(10.3=42.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
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]