HsaINT0097630 @ hg19
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:6717]
Coordinates
chr19:41112310-41113435:+
Coord C1 exon
chr19:41112310-41112432
Coord A exon
chr19:41112433-41113270
Coord C2 exon
chr19:41113271-41113435
Length
838 bp
Sequences
Splice sites
5' ss Seq
TCTGTGAGC
5' ss Score
3.27
3' ss Seq
TTCCTCCCTGCTCCTCGCAGCCC
3' ss Score
9.44
Exon sequences
Seq C1 exon
ATGTGGATGAGTGCGCGACTGGCGGGCGCTGCCAGCACGGCGAGTGTGCAAACACGCGCGGCGGGTACACGTGTGTGTGCCCCGACGGCTTTCTGCTCGACTCGTCCCGCAGCAGCTGCATCT
Seq A exon
GTGAGCAACCAGCAGGGAGCTGAGGCTGGGTCCCGCCCTCCCTGCCCTCAGAAGTCCCAGAGCATCCTGGGGCCTTTAATTCCCTCGGACCCCCCCAGACTCCCGGGTTCCTCTGTCAGCCTTAGAGCCCCCTCAGAACTTCTCAGATTCTTATACAGCTTCAGCATCCCTGGACCACCTTTAGACCTTTCAAGCCTTTTGGATCCAGATCCCTCCAGACTCCCAGACTTTTTTTTTTGGAGATGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAATCTCTGCCTCCTGGTTTCAAGTGATTCTCCTGCCTCGGCCTCCCGAGTAGCTAGAACTACAGGCGGGCACCACCATGCCCGGCTAAATTTTTTTGTATTTTTGGTAGAGACAGGGTTTCGCCACGTTGGCCAGGCTGGCCTCAAACCCCTGGCTTCAAGTGATCTGCCCACCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTAAGCCACTGCGCCCAGCTCTCCCAGACTTTCTGGAATCCTTCTCAGACCCCCAAATCCTCTCGTCCCCCTCAACGACTCGACTATCTTCAGATCTTGAGATCCTTCTCAGAGTCTCTCATTCACCACTGACACCCCATTGAGGCTCCAAGCCCTTCTCAGACCTCCAGAGCCCACTGCTCTCCTTCAGACCCTCTCAGACCTCTCCCAAATGCCCCTCGCACCCACCAACCCCCCACCCCCAACCCCAGAACCATTCCCCTCTCTCCCAAATCCCTCAGTGCTACAGCATTCCCAGCCCCGCCCTGAAGGATTTCCTCCCTGCTCCTCGCAG
Seq C2 exon
CCCAACACGTGATCTCAGAGGCCAAAGGGCCCTGCTTCCGCGTGCTCCGCGACGGCGGCTGTTCGCTGCCCATTCTGCGGAACATCACTAAACAGATCTGCTGCTGCAGCCGCGTAGGCAAGGCCTGGGGCCGGGGCTGCCAGCTCTGCCCACCCTTCGGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006-LTBP4:NM_003573:9
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=95.2)
A:
NA
C2:
PF0068312=TB=PU(86.0=66.1)
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:
ATGTGGATGAGTGCGCGAC
R:
GAAGGGTGGGCAGAGCTGG
Band lengths:
281-1119
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)