HsaINT0097574 @ hg19
Intron Retention
Gene
ENSG00000168056 | LTBP3
Description
latent transforming growth factor beta binding protein 3 [Source:HGNC Symbol;Acc:6716]
Coordinates
chr11:65314910-65315292:-
Coord C1 exon
chr11:65315161-65315292
Coord A exon
chr11:65315039-65315160
Coord C2 exon
chr11:65314910-65315038
Length
122 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGC
5' ss Score
7.23
3' ss Seq
GGCCCCTTCCTCCCGCACAGACC
3' ss Score
8.1
Exon sequences
Seq C1 exon
ATGTGAACGAGTGCGAGGCAGAGCCCTGTGGCCCGGGGAGGGGCATCTGCATGAACACCGGCGGCTCCTACAATTGCCACTGCAACCGCGGCTACCGCCTGCACGTGGGCGCCGGGGGGCGCTCGTGCGTGG
Seq A exon
GTGAGCGCCGCCAGGGCGGAGGCGGCCCTGGGTGGGACGGGCTCTCCTCCAGACCGCCGTGTAATCCCTCCCCTTGCCCGCCGCCTCCTACACCCCCTTCGTGGCCCCTTCCTCCCGCACAG
Seq C2 exon
ACCTGAACGAATGCGCCAAGCCCCACCTGTGCGGCGACGGCGGCTTCTGCATCAACTTTCCCGGTCACTACAAGTGCAACTGCTACCCCGGCTACCGGCTCAAAGCCTCCCGGCCTCCTGTGTGCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000168056-LTBP3:NM_001130144:13
Average complexity
IR-S
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=95.6),PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.3),PF062476=Plasmod_Pvs28=PU(40.6=90.7),PF0764510=EGF_CA=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAACGAGTGCGAGGCAGAG
R:
CTTCGCACACAGGAGGCC
Band lengths:
257-379
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
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)