HsaINT1022237 @ hg38
Intron Retention
Gene
ENSG00000090006 | LTBP4
Description
latent transforming growth factor beta binding protein 4 [Source:HGNC Symbol;Acc:HGNC:6717]
Coordinates
chr19:40599197-40599556:+
Coord C1 exon
chr19:40599197-40599255
Coord A exon
chr19:40599256-40599420
Coord C2 exon
chr19:40599421-40599556
Length
165 bp
Sequences
Splice sites
5' ss Seq
GAGGTGGGT
5' ss Score
7.07
3' ss Seq
GTCCCTGGCTGTCTCCGAAGCCT
3' ss Score
5.74
Exon sequences
Seq C1 exon
CGTTGCTGTTTGTCGCTGCTGCCCGGGCCAGACGTCTAGGAGGAGCCGCTGCATCCGAG
Seq A exon
GTGGGTTCTGGAAGATGGAGTATGAGTAGGGGGCAAAAGGGAATAGGAGGAGAGGGGCAGGGAGCTCCCCATCCCTCCCCTCATCCCAGTGGGAGAGCTGGATGCATTTGGTAGAGAAGTACTTGGTCCCCTCCTTCCCCACTTAGTCCCTGGCTGTCTCCGAAG
Seq C2 exon
CCTTCTGCAGGGTCCGAAGCTGCCAGCCCAAAAAGTGTGCAGGCCCCCAGCGGTGCCTGAACCCAGTGCCTGCAGTGCCCAGTCCCAGCCCCAGCGTGAGGAAGAGACAGGTGTCCCTCAACTGGCAGCCACTGAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090006:ENST00000308370:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.178 A=NA C2=0.629
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTTGCTGTTTGTCGCTGCTG
R:
GTCAGTGGCTGCCAGTTGAG
Band lengths:
194-359
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains