HsaINT0097580 @ hg38
Intron Retention
Gene
ENSG00000168056 | LTBP3
Description
latent transforming growth factor beta binding protein 3 [Source:HGNC Symbol;Acc:HGNC:6716]
Coordinates
chr11:65541126-65541728:-
Coord C1 exon
chr11:65541600-65541728
Coord A exon
chr11:65541294-65541599
Coord C2 exon
chr11:65541126-65541293
Length
306 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
AGCTGCCGTCTGCCCCTCAGAGG
3' ss Score
6.6
Exon sequences
Seq C1 exon
ACATAGATGAGTGCAGCCAGGACCCGAGCCTGTGCCTTCCCCATGGGGCCTGCAAGAACCTTCAGGGCTCCTATGTGTGTGTCTGCGATGAGGGCTTCACTCCCACCCAGGACCAGCACGGTTGTGAGG
Seq A exon
GTGAGTGTCCTCCCAGCTCCTCCCTCGGACTGGACAACTCCCCTGAGCTGCAGCTGGGATTCAGAGATGTGTCCTGGCCCCACCCTCCTAAATTTGGGGAACCGGAAGAAATCTCTTTTGGCTGGGGGAGTCTGGTGGGGCCAGACGATGAAGGGTCCAGAACACCACGTTGAGAACAGAGCCAACTCTCAGGAGGAGGCTAAGGGGAGCCAGGGAATGTGGGGGGAAAGACCTGTGGTGGGTGGGCAGGGTGGACAGGGCCAAGGGGGGTCTGTGCACAACCCTGAGCTGCCGTCTGCCCCTCAG
Seq C2 exon
AGGTGGAGCAGCCCCACCACAAGAAGGAGTGCTACCTGAACTTCGATGACACAGTGTTCTGCGACAGCGTATTGGCCACCAACGTGACCCAGCAGGAGTGCTGCTGCTCTCTGGGGGCCGGCTGGGGCGACCACTGCGAAATCTACCCCTGCCCAGTCTACAGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168056:ENST00000301873:19
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)
A:
NA
C2:
PF0068312=TB=PU(86.0=64.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TAGATGAGTGCAGCCAGGACC
R:
CTGAGCTGTAGACTGGGCAGG
Band lengths:
294-600
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development