HsaINT0004348 @ hg19
Intron Retention
Gene
ENSG00000143382 | ADAMTSL4
Description
ADAMTS-like 4 [Source:HGNC Symbol;Acc:19706]
Coordinates
chr1:150531438-150531942:+
Coord C1 exon
chr1:150531438-150531641
Coord A exon
chr1:150531642-150531762
Coord C2 exon
chr1:150531763-150531942
Length
121 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
CTGCCCTCCCCCTACACTAGTGC
3' ss Score
6.18
Exon sequences
Seq C1 exon
TGCTCAGCCGAGTGTGGGACGGGAATCCAGCGGCGCTCTGTGGTCTGCCTTGGGAGTGGGGCAGCCCTCGGGCCAGGCCAGGGGGAAGCAGGAGCAGGAACTGGGCAGAGCTGTCCAACAGGAAGCCGGCCCCCTGACATGCGCGCCTGCAGCCTGGGGCCCTGTGAGAGAACTTGGCGCTGGTACACAGGGCCCTGGGGTGAG
Seq A exon
GTAAGCTGAGCGCCTGCTGAGAGCAGGAAGGGGGTGCCAGTCCCAGTGGGATTCCTTGTGGGCACTTGGGGTGCTCTCTGTCCTCCCCTCCCCTCATCACCCTGCCCTCCCCCTACACTAG
Seq C2 exon
TGCTCCTCCGAATGTGGCTCTGGCACACAGCGTAGAGACATCATCTGTGTATCCAAACTGGGGACGGAGTTCAACGTGACTTCTCCGAGCAACTGTTCTCACCTCCCCAGGCCCCCTGCCCTGCAGCCCTGTCAAGGGCAGGCCTGCCAGGACCGATGGTTTTCCACGCCCTGGAGCCCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143382-ADAMTSL4:NM_019032:16
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.207 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=PU(10.7=8.8)
A:
NA
C2:
PF0009014=TSP_1=PD(85.7=80.0),PF0009014=TSP_1=PU(11.8=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTGTGGTCTGCCTTGGGAG
R:
AAGTCACGTTGAACTCCGTCC
Band lengths:
251-372
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)