RnoINT0087592 @ rn6
Intron Retention
Gene
ENSRNOG00000020871 | Ltbp4
Description
latent transforming growth factor beta binding protein 4 [Source:RGD Symbol;Acc:1307033]
Coordinates
chr1:84139017-84139741:-
Coord C1 exon
chr1:84139598-84139741
Coord A exon
chr1:84139149-84139597
Coord C2 exon
chr1:84139017-84139148
Length
449 bp
Sequences
Splice sites
5' ss Seq
CAGGTGCCA
5' ss Score
3.75
3' ss Seq
AACCTGACCGGCTCCTCCAGGTA
3' ss Score
6.44
Exon sequences
Seq C1 exon
GTTTTCTGCCCACTCGTCGACCTGAGCCCCGTCCTGACCCTGGGCCACAGCCTGAACTCCGGCCTCGACCTGAACCCCAGCCTCGGCCTGAATTTCCCCTGCCCAGCATCCCTGCTTGGACCGGTCCAGAGATTCCTGAATCAG
Seq A exon
GTGCCAAAGGAATCTGAGGGTGGTAGCCGATATACTGTGAATTTCTATAGGGAAAGGCTTCAAAGTGAAGGTGTTGGGGAGGATGAGAAAGATAAGGAAGATGGGGAGAGATAAGAATTTGGAGGTTTGGGTAGTGGTTCCTTCCCTCGGGTACTAGAGTCATAGTTGGGCTCCAGTTCTCTGTTAAATGAGCAGTTACACCCTGAGGCACCAGTTCCTATAAAATTAGCATCCTGGGAGGCTTCCAGAAAATGCCTTCAGTGGTACGGGGTACGTGAGTGTCTTTGAGGGTGGATTCAGGCAGAGTTGATGAGACTTTCAGAGTAAATGACAACATGATCTCCAAGATTAGACTTGGGGAGGGGACACTCGTGAAAGTATCTTAGAGAGACTAAGGGGTAGACGGGATGAAAAGTTCAGCCTTGTAGGAACCTGACCGGCTCCTCCAG
Seq C2 exon
GTACCTCTTCCAGCATGTGTCAGCGAAATCCCCAGGTTTGTGGTCCTGGACGCTGCGTTTCTCGGCCAGGCGGCTACACCTGTGCCTGCGACCCAGGTTTCCGGCTCGGCCCCCAGGGCACTCGCTGTATTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020871:ENSRNOT00000028322:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.178
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF146701=FXa_inhibition=WD(100=82.2),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTTTCTGCCCACTCGTCGAC
R:
CAATACAGCGAGTGCCCTGG
Band lengths:
276-725
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]