HsaINT0097581 @ hg38
Intron Retention
Gene
ENSG00000168056 | LTBP3
Description
latent transforming growth factor beta binding protein 3 [Source:HGNC Symbol;Acc:HGNC:6716]
Coordinates
chr11:65553701-65554380:-
Coord C1 exon
chr11:65554051-65554380
Coord A exon
chr11:65553904-65554050
Coord C2 exon
chr11:65553701-65553903
Length
147 bp
Sequences
Splice sites
5' ss Seq
AAGGTACCA
5' ss Score
7.87
3' ss Seq
GCCACCGCGCCCGCCCCCAGTGC
3' ss Score
6.47
Exon sequences
Seq C1 exon
TGGTGTGCCCTCTCCCCTGCATGAATGGCGGCCAGTGCTCCTCGCGAAACCAGTGCCTGTGTCCCCCGGACTTCACTGGGCGCTTCTGCCAGGTGCCCGCAGGAGGAGCCGGTGGGGGTACCGGCGGCTCAGGCCCCGGCCTGAGCAGGACAGGGGCCCTGTCCACAGGGGCGCTGCCGCCCCTGGCTCCGGAGGGCGACTCTGTGGCCAGCAAGCACGCCATCTACGCCGTCCAGGTGATCGCTGACCCTCCTGGGCCCGGGGAGGGGCCTCCTGCCCAGCACGCAGCCTTCCTGGTGCCCCTAGGCCCGGGACAGATCTCAGCAGAAG
Seq A exon
GTACCAGGCAACTGGCAAACCCGGGAAGGTCGCCAGTGGGTGGGCACTAGGGTGGCCAGGGCAGGGCAGGTTCAGCCCTGGAGGAGCTCAGCGCGGTGACCCGCGGCGCGGTGCGGGCAGCCCTGAGGCCACCGCGCCCGCCCCCAG
Seq C2 exon
TGCAGGCCCCGCCCCCCGTGGTGAATGTGCGCGTCCATCACCCGCCCGAGGCCTCAGTCCAGGTGCACCGCATTGAGAGCTCGAACGCCGAGAGCGCAGCCCCCTCCCAGCACCTGCTGCCGCACCCCAAGCCCTCGCACCCCCGGCCGCCCACCCAGAAGCCCCTGGGCCGCTGCTTTCAGGACACTCTGCCCAAGCAGCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168056:ENST00000301873:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.599 A=NA C2=0.862
Domain overlap (PFAM):
C1:
PF0000822=EGF=WD(100=24.3)
A:
NA
C2:
PF0068312=TB=PU(2.3=11.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACGCAGCCTTCCTGGTG
R:
GGCAGAGTGTCCTGAAAGCAG
Band lengths:
242-389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development