RnoINT0087609 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84121688-84122143:-
Coord C1 exon
chr1:84122015-84122143
Coord A exon
chr1:84121835-84122014
Coord C2 exon
chr1:84121688-84121834
Length
180 bp
Sequences
Splice sites
5' ss Seq
TTGGTATGA
5' ss Score
5.24
3' ss Seq
CCACCTCCATGCTTTCCTAGATA
3' ss Score
8.11
Exon sequences
Seq C1 exon
ATGTGGATGAATGCCAACTCTTCCAGGACCAGGTGTGCAAGAGCGGAGTGTGTGTGAACACTGCCCCAGGCTACTCTTGCTATTGCAACAACGGCTTCTACTATCATGCGCACAGGCTGGAATGCGTTG
Seq A exon
GTATGAGCCCTGCCTTTCCCACTCCCAACTCTGGCCAGGCCAGCCCCCCAAATAGGAATGCGGCCAACCCAGCAGGAAGTCCTTCTGAAGTCTAGACTTTATCCATCACTCTGTGAGCTGGAGAAATGTGAAAGGCAGTTCATCCTGGTAAACGCCTCCCCCACCTCCATGCTTTCCTAG
Seq C2 exon
ATAATGACGAATGTGCCGACGAGGAGCCCGCTTGTGAAGGTGGCCGCTGCGTGAACACGGTGGGCTCTTACCACTGTACCTGCGAGCCCCCACTGGTGCTGGACGGCTCCAGGCGACGCTGCGTCTCCAATGAGAGCCAGAGCCTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:28
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=82.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AACTCTTCCAGGACCAGGTGT
R:
GCTCTGGCTCTCATTGGAGAC
Band lengths:
257-437
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]