HsaINT0097615 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41122795-41123130:+
Coord C1 exon
chr19:41122795-41122926
Coord A exon
chr19:41122927-41123005
Coord C2 exon
chr19:41123006-41123130
Length
79 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGGT
5' ss Score
5.37
3' ss Seq
TGACTGTCTGGTGGTTGCAGATG
3' ss Score
7.85
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCCAAGAATATGGTCCCGAGATTTGTGGAGCCCAGCGTTGTGAGAACACCCCTGGCTCCTACCGCTGCACACCAGCCTGTGACCCTGGCTATCAGCCCACGCCAGGGGGCGGATGCCAGG
Seq A exon
GTGGGTGTCCATCAGGCATCGGGTGAGATGTGGAGATGGTAGAAGGTCCAGAAATGGCCTGACTGTCTGGTGGTTGCAG
Seq C2 exon
ATGTGGACGAATGCCGGAACCGGTCCTTCTGCGGTGCCCACGCCGTGTGCCAGAACCTGCCCGGCTCCTTCCAGTGCCTCTGTGACCAGGTTACGAGGGGGCACGGGATGGGCGTCACTGCGTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:23
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=PU(72.5=96.7)
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:
GAGAACACCCCTGGCTCCTAC
R:
CCCCTCGTAACCTGGTCACAG
Band lengths:
179-258
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)