HsaINT0097629 @ hg38
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr19:40606233-40606526:+
Coord C1 exon
chr19:40606233-40606307
Coord A exon
chr19:40606308-40606403
Coord C2 exon
chr19:40606404-40606526
Length
96 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCAA
5' ss Score
2.22
3' ss Seq
GACCTCCCCAACCCTGGCAGATG
3' ss Score
7.08
Exon sequences
Seq C1 exon
GGAACTCCGAAAGAGTGAGCGCCCCAGATGGACCTTGTCCAACCGGCTTTGAAAGAGTTAATGGGTCCTGCGAAG
Seq A exon
GTGCAACGGGGCAGGGGTGGGAGGGGCTTGGTTCTGGGGGCGGGATTTGCAGGGATCAAGTTCCTGACTCCACGGTGACCTCCCCAACCCTGGCAG
Seq C2 exon
ATGTGGATGAGTGCGCGACTGGCGGGCGCTGCCAGCACGGCGAGTGTGCAAACACGCGCGGCGGGTACACGTGTGTGTGCCCCGACGGCTTTCTGCTCGACTCGTCCCGCAGCAGCTGCATCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006:ENST00000308370:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0764510=EGF_CA=PU(0.1=0.0)
A:
NA
C2:
PF0764510=EGF_CA=WD(100=95.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAAGAGTGAGCGCCCCAGAT
R:
GGACGAGTCGAGCAGAAAGC
Band lengths:
174-270
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