HsaINT0003009 @ hg19
Intron Retention
Gene
ENSG00000005187 | ACSM3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:HGNC Symbol;Acc:10522]
Coordinates
chr16:20787161-20788902:+
Coord C1 exon
chr16:20787161-20787371
Coord A exon
chr16:20787372-20788694
Coord C2 exon
chr16:20788695-20788902
Length
1323 bp
Sequences
Splice sites
5' ss Seq
CAGGTTAGT
5' ss Score
8.02
3' ss Seq
TTTCTTTTCTGCCCCTTTAGGGA
3' ss Score
11.19
Exon sequences
Seq C1 exon
GCTGGAAAGAAACCTTCAAATCCAGCCTTCTGGTGGATCAACAGAAATGGAGAAGAGATGCGATGGAGTTTTGAGGAACTGGGATCTCTGTCCAGAAAATTTGCCAATATACTTTCAGAAGCCTGTTCCCTACAAAGAGGAGATCGGGTAATTCTGATTCTGCCCAGGGTCCCAGAGTGGTGGCTTGCAAATGTGGCCTGTCTGCGAACAG
Seq A exon
GTTAGTAATGTTTGCTTTCCGATCATATTTATTACTAAGCTGGAGGGGAGATTTTCCAGAACACCTAAGTAATCATGATACATTTATTTTGTTGTGGGCTTATTGTCAAAGAGTGCCTTTAAATTATATAAAAGTTAGGCCGTGGTAGGCTAATTCCTTATCCCTAGGTGGAACATCTTTAAAAGATAATCTTAGAGTTACAGCCTCACAAAAATTGTTGTGTTGCCCTGATTAGAAAGAAAAGATATTCTAAAGAACCTGTGTTCTGGTCCTGGTTGTTGGTTTCTTGAAGAACCCTGATGGAGAGGCCTGGTCCTTCCCAAAGTGAAAGGATGAGCCAGTGTCAAGAGTCCAGGAATGCCAGACATGTGTTCCCCAATCTTCTTGCCTACTGTGTCGCCTGGGAAGAGTAAAACCTATTGTGAAGTGAATGCTTTCCATCCCTGTCTTAAGGGTCTGGGACTTAAGGGTGGTGGGGCCCAGGAGGAAGATCTATATATTTTTGAGAGTCCATTTATCCTTTGAGAAAATAATACCCAAAGCTTACTGAGCACTGTTCTAAGTTCTTTACATATTTTAACTCATTTAATCCCCTAATTATCCTATAAAAGAAGTAGTATTATTACAATATCACTTTACAGATGCAGAACCTGAAGCTCACAGAGGTGAAGTGGCTTGTCCCAAGTCCCAGCTATAAGAGTGTCTGGCTCCAGGACACTCTTAATCATTATACTTCATCTTACAGTGTAATATATAACCAGCAGGAATAGAACCACAGAAAAGATGAATGCCTCCACACTTCCTTTTGGAAATAAATCATAAAGCAATCATGTACATTTTAAGAGGCACTCAGCTGATGTGGTGAAGTGTACAGTTCTGGAGTCAGGCTACAGGGTTCAATCCCTGCACTGTCACTTACTACTTAAGTGATACCTTGGGCAAGTTATTCATAGCTTTTATGTTTTGGGGTTTTTTTGGTGGGGACTGAATAAGTTAAAACATATAATCAAATACTCAATAAATATTGGTTAATATTACTTTTCAATCAAAACCTTCTTCAAGCTCAATGTTAGGGATGGTCTTCAAATAAAGAATAATTATCCAGTATTTAACATGCTTTCATGTTAAGCCAAAAGGGTCATAGACTCTGAAATCCCTTGAAAGGCAAAAGCAGATAAGTGAAAGCAAGATAAATAGATATCTTCCTGGTAAACTGACTAACTCACTCTGAGAAATACAGAATGTATAGATGGTATCTACACTACTCTAACATAATGAAGAATAACATTTCTTCTAAACACTGTTTCTTTTCTGCCCCTTTAG
Seq C2 exon
GGACAGTTTTAATTCCAGGAACCACTCAGCTGACCCAGAAAGACATTCTCTACAGACTACAATCTTCAAAAGCAAACTGCATTATCACCAATGATGTTTTAGCCCCAGCAGTAGACGCTGTTGCATCCAAATGTGAAAATCTGCACTCCAAGCTGATTGTATCAGAGAACTCCAGAGAGGGGTGGGGGAACCTCAAGGAGTTGATGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005187-ACSM3:NM_202000:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(16.9=100)
A:
NA
C2:
PF0050123=AMP-binding=PD(15.9=87.5)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGAGAAGAGATGCGATGGAGT
R:
CCACCCCTCTCTGGAGTTCTC
Band lengths:
349-1672
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)