HsaINT0004309 @ hg19
Intron Retention
Gene
ENSG00000197859 | ADAMTSL2
Description
ADAMTS-like 2 [Source:HGNC Symbol;Acc:14631]
Coordinates
chr9:136419479-136421052:+
Coord C1 exon
chr9:136419479-136419815
Coord A exon
chr9:136419816-136420679
Coord C2 exon
chr9:136420680-136421052
Length
864 bp
Sequences
Splice sites
5' ss Seq
GAGGTAACC
5' ss Score
8.55
3' ss Seq
GCCACCTGTCTCCTCTCCAGACC
3' ss Score
9.27
Exon sequences
Seq C1 exon
GTGTGGAACCAGAACGGCAAAAGCCCCTCCATCACCTTCGAGTACACGCTGCTGCAGCCGCCACACGAGAGCCGCCCCCAGCCCATCTACTATGGCTTCTCCGAGAGCGCTGAGAGCCAGGGCCTGGACGGGGCCGGGCTGATGGGCTTCGTCCCGCACAACGGCTCCCTCTACGGCCAGGCCTCCTCAGAGCGGCTGGGCCTGGACAACCGGCTGTTCGGCCACCCGGGCCTGGACATGGAGCTGGGCCCCAGCCAGGGCCAGGAGACCAACGAGGTGTGCGAGCAGGCCGGCGGCGGGGCCTGCGAGGGGCCCCCCAGGGGCAAGGGCTTCCGAG
Seq A exon
GTAACCAGGAGGAGGGAGGCATGAGGGTGGGGCCCGGGAGGCAGCCCAGGGAAGGGGGCCTTGGGGAAGGGGTCTCAGACCCTTTGCAGACCTGCAGAGGAGGTTCCTAAGAGCTGCCAGCTACCTGCAGATGTCCTCTGGGCAGGCACAGGGTTGAGGACTTGGGATAGGTCCTTCTGTCCATGCATTCTTTGAGGTAGATGTGGTTATCCCCATTTGATGGATGGGGAGACTGAGGCTTAGAAAGAGGAAGTGGCTTGGCCAAGTCATGCAGTCCACCGTGGAGGAGCTGGGAGTCAAATGCAGGATGGTCTGATCTCTCGCTCACCCCATCGCTCACTCAACGAGCACCTGGTCTCACCTCAGCTCGGACAGCACAGGGAGCAAAAGCTTCGGGGGCCCCAGGCGCCCCTTGGCTGTGACCGTGTCACTCCAGCCTCTGCCTTTGTCCTCATAGGCCTCCTCCTCTGTGCCGGTGTCTCTGTCGGTCCCCTTCTGATAAGGATATTTCTCAGTCCACGATAATTTCATCTCAAGATTCTTAACTAATTATATCTACAATGACCCTATTTCCAAAGAAGATCACACTCTGAGGTTCCGGGGGGGGCCATGAATTTTGGGGGGATGCTATTCAATCCACTACAGAAGTCGATTGAATTCCCATCAGCAAGAGATGATCCAGGCAGGTCTCATGCCTCCGTTTTGCCCGAATTACGTCCTCTAGTTAGGCAGAAGCCCTCCTTCTGGGAGCTTCTTGGTTCAGCTTGGTGTTTCTGGCCCCCTCGTCCAGGTCCCCTCCCCAGGGCAGCCCTTGCCCCCAGGGCTCGGATGTGCCCACGGTTGAGCCACCTGTCTCCTCTCCAG
Seq C2 exon
ACCGCAACGTCACGGGGACTCCTCTCACCGGGGACAAGGATGACGAAGAGGTTGACACCCACTTCGCCTCCCAGGAGTTCTTCTCGGCTAACGCCATCTCTGACCAGCTGCTGGGCGCAGGCTCTGACTTGAAGGACTTCACCCTCAATGAGACTGTGAACAGCATCTTTGCACAGGGCGCCCCAAGGAGCTCCCTGGCCGAGAGCTTCTTCGTGGATTATGAGGAGAACGAGGGGGCTGGCCCTTACCTGCTCAACGGGTCCTACCTGGAGCTGAGCAGCGACAGGGTTGCCAACAGCTCCTCCGAGGCCCCATTCCCCAACGTTAGCACCAGCCTGCTCACCTCGGCCGGGAACAGGACTCACAAGGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197859-ADAMTSL2:NM_001145320:10
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.575 A=NA C2=0.352
Domain overlap (PFAM):
C1:
PF059869=ADAM_spacer1=PD(14.4=15.0)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTATGGCTTCTCCGAGAGCG
R:
GCGTTAGCCGAGAAGAACTCC
Band lengths:
343-1207
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)