HsaINT0004359 @ hg38
Intron Retention
Gene
ENSG00000143382 | ADAMTSL4
Description
ADAMTS like 4 [Source:HGNC Symbol;Acc:HGNC:19706]
Coordinates
chr1:150552898-150554122:+
Coord C1 exon
chr1:150552898-150553253
Coord A exon
chr1:150553254-150553425
Coord C2 exon
chr1:150553426-150554122
Length
172 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
CATCTGAAACACCTTCTCAGGTC
3' ss Score
4.9
Exon sequences
Seq C1 exon
GTGTTGTCCGGACACTCTCTTCAGACACCTACAGAGGAGGGCCAGGGCCCCGAAGGTGTCTGGGGACCTTGGGTCCAGTGGGCCTCTTGCTCCCAGCCCTGCGGGGTGGGGGTGCAGCGCAGGAGCCGGACATGTCAGCTCCCTACAGTGCAGCTCCACCCGAGTCTGCCCCTCCCTCCCCGGCCCCCAAGACATCCAGAAGCCCTCCTCCCCCGGGGCCAGGGTCCCAGACCCCAGACTTCTCCAGAAACCCTCCCCTTGTACAGGACACAGTCTCGGGGAAGGGGTGGCCCACTTCGAGGTCCCGCTTCCCACCTAGGGAGAGAGGAGACCCAGGAGATTCGAGCGGCCAGGAG
Seq A exon
GTGAGAGGCCTGGGTGGAAGAGGTGGGCCTTGGGCAAGGTGGGGGCTTAGCATGAAGGAAAGGGGAGCACGGGTGGCTTCAGAGGGCTTGTCTTTGGTGCCAGGAAGTAAACTGGGGAAACAGGGTCAGAGGTGGTCAGAGCTGTGCCCCCACATCTGAAACACCTTCTCAG
Seq C2 exon
GTCCCGGCTTCGAGACCCCATCAAGCCAGGAATGTTCGGTTATGGGAGAGTGCCCTTTGCATTGCCACTGCACCGGAACCGCAGGCACCCTCGGAGCCCACCCAGATCTGAGCTGTCCCTGATCTCTTCTAGAGGGGAAGAGGCTATTCCGTCCCCTACTCCAAGAGCAGAGCCATTCTCCGCAAACGGCAGCCCCCAAACTGAGCTCCCTCCCACAGAACTGTCTGTCCACACCCCATCCCCCCAAGCAGAACCTCTAAGCCCTGAAACTGCTCAGACAGAGGTGGCCCCCAGAACCAGGCCTGCCCCCCTACGGCATCACCCCAGAGCCCAGGCCTCTGGCACAGAGCCCCCCTCACCCACGCACTCCTTAGGAGAAGGTGGCTTCTTCCGTGCATCCCCTCAGCCACGAAGGCCAAGTTCCCAGGGTTGGGCCAGTCCCCAGGTAGCAGGGAGACGCCCTGATCCTTTTCCTTCGGTCCCTCGGGGCCGAGGCCAGCAGGGCCAAGGGCCTTGGGGAACGGGGGGGACTCCTCACGGGCCCCGCCTGGAGCCTGACCCTCAGCACCCGGGCGCCTGGCTGCCCCTGCTGAGCAACGGCCCCCATGCCAGCTCCCTCTGGAGCCTCTTTGCTCCCAGTAGCCCTATTCCAAGATGTTCTGGGGAGAGTGAACAGCTAAGAGCCTGCAGCCAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000143382:ENST00000369038:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.765 A=NA C2=0.899
Domain overlap (PFAM):
C1:
PF0009014=TSP_1=WD(100=31.1)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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:
TGTACAGGACACAGTCTCGGG
R:
ACGGAATAGCCTCTTCCCCTC
Band lengths:
249-421
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