RnoINT0011433 @ rn6
Intron Retention
Gene
ENSRNOG00000056837 | Abr
Description
ABR, RhoGEF and GTPase activating protein [Source:RGD Symbol;Acc:1306279]
Coordinates
chr10:64611820-64612545:-
Coord C1 exon
chr10:64612493-64612545
Coord A exon
chr10:64611961-64612492
Coord C2 exon
chr10:64611820-64611960
Length
532 bp
Sequences
Splice sites
5' ss Seq
CACGTGAGT
5' ss Score
9.3
3' ss Seq
TTGCCCCCACTGTTTCCCAGGAT
3' ss Score
7.48
Exon sequences
Seq C1 exon
CTCTGCTGTATAAGCCTATTGACCGAGTCACTCGGAGTACCCTGGTCCTGCAC
Seq A exon
GTGAGTGTTGTGTCCCATTGTGGGTTAAGAGTTTCATGTGAGGGCATTGAAGTCATTGAAACTCCATTGGGGGAACAAGGCAGAGGGTCCCTGGGCCCTGACTGCCAGCCCAACTGCCCTGTCCTAAATATAGCTTGGCTACTAAGCTTAATACTTAGCCAAGTACTCCTCAGGAGGCAGACACCTGCTGCTGCTTTGTTCCCTGCCTCTTATCTCCAGGGTCCTGGAACAGCTGTATAGTGAGTAGAGGAGGGTTCCCCAGCTGTTTGGTGAGGTATAGCTTCACTGGGCCATAGCCCCTGGGGAAGAGTCATGAGAATGCAGCAGAAATCAGAGGAACACTGAATGCCTCCGCCAGCATTCCTCAGACCCTGGTTCCATTCTGATTTCACAGGAATGGCTGGGTAGAGTGTGGGTCCTGGAGGTACCCCCTTAGAATTCTTTGGGGGATTGATTGCATGTTCCCCGCTGTCTTCTCATTGAACCTGAACCGTTTCCTCTTAGCTCACTCCTTGCCCCCACTGTTTCCCAG
Seq C2 exon
GATCTGTTGAAGCACACACCTGTGGACCACCCCGACTACCCACTGCTTCAGGATGCCCTTCGAATCTCCCAGAATTTTCTATCTAGCATTAATGAGGATATTGATCCTCGCCGGACTGCAGTCACAACCCCCAAGGGGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000056837:ENSRNOT00000080703:6
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=0.213
Domain overlap (PFAM):
C1:
PF0062115=RhoGEF=FE(9.0=100)
A:
NA
C2:
PF0062115=RhoGEF=PD(16.4=66.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATAAGCCTATTGACCGAGTCAC
R:
CTTGGGGGTTGTGACTGCAG
Band lengths:
182-714
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]