RnoINT0087552 @ rn6
Intron Retention
Gene
ENSRNOG00000012094 | Ltbp2
Description
latent transforming growth factor beta binding protein 2 [Source:RGD Symbol;Acc:68380]
Coordinates
chr6:108502875-108503366:-
Coord C1 exon
chr6:108503238-108503366
Coord A exon
chr6:108503013-108503237
Coord C2 exon
chr6:108502875-108503012
Length
225 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
CCTTTTTTCTCACACCACAGATC
3' ss Score
9.59
Exon sequences
Seq C1 exon
ATGCCGACGAGTGCATACTGTTTGGGCCTGCTCTCTGCCAGAATGGCCGATGCCTCAACACAGTGCCTGGCTACATTTGCCTGTGCAACCCTGGCTACCACTATGATGCCGTCAGCAGGAAGTGCCAGG
Seq A exon
GTGAGGACTCACATGGGCCCTGCTCCCCCAGTCCCACTCTTCCCCTTTCCTAGGAAGGATGCCCACAGCAGCAAGCAGGTCTGAGGCGAGGAGAGTTCTAGGCTGTCCCTGGAGAGAGCCCTTCCGGGATGGGCATCTTCATGGGCCTCCTTAGGCAAACCCTTCCATGAGCATTGTTGTCAAAGGCTACTCTGGTTCTGCCCCACCTTTTTTCTCACACCACAG
Seq C2 exon
ATCACAACGAATGCCAGGACTTGGCCTGTGAGAACGGCGAGTGTGTGAACACAGAAGGCTCCTTCCACTGCTTCTGCAGTCCCCCCCTCATCCTAGACCTCAGCGGACAGCGCTGTGTGAACAGTACCAGCAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012094:ENSRNOT00000031331:30
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:
PF0764510=EGF_CA=WD(100=95.5),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=83.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCCGACGAGTGCATACTGTTT
R:
GCTGCTGGTACTGTTCACACA
Band lengths:
261-486
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]