HsaINT0003006 @ hg38
Intron Retention
Gene
ENSG00000005187 | ACSM3
Description
acyl-CoA synthetase medium-chain family member 3 [Source:HGNC Symbol;Acc:HGNC:10522]
Coordinates
chr16:20796370-20797581:+
Coord C1 exon
chr16:20796370-20796489
Coord A exon
chr16:20796490-20796885
Coord C2 exon
chr16:20796886-20797581
Length
396 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGC
5' ss Score
10.08
3' ss Seq
CTTCCCCTTGATGCCAACAGGTA
3' ss Score
8.32
Exon sequences
Seq C1 exon
GTAGTAAAGGCTTTTGTCGTTCTAAATCCTGATTACAAGTCACATGATCAAGAACAACTAATAAAGGAGATTCAGGAGCATGTTAAAAAAACTACAGCACCTTACAAATATCCCAGAAAG
Seq A exon
GTAGGCATCCTAATTATAACGAATATTTGCTCAGTGTTGTGGACAATTTCAAGTGTTTATTTTTACATTTTAATGAATATTTTCTTCACACATGCTGCACCACATGTCCCAAACTGAACTGATGACATATGGGTAAGAATCAGAATCTTTGAGATTAAAATGAAACCCTGAACCTATTTTGTTTGGTCCTTTGGCTTACTGGACTCACAGTAAATACTTAATATCAAGACAACTTTCCTAACAATACCCTTTTCCCTATTTTGGCTGTTACCCAAAACCCATTCCAAAGACTATTCTAATTCTTCCACCTAGAATTCATAATCAAACTGCTATATAATTGGCTTTATGTAAAGATAAAAATTTCCAGGCTAATTTTCTTCCCCTTGATGCCAACAG
Seq C2 exon
GTAGAATTTATTCAAGAGCTGCCAAAGACTATCAGTGGGAAGACAAAAAGAAATGAACTGAGGAAGAAAGAATGGAAGACAATTTAAAGTTGTTTCATTAATTACCATATCTATAAAACAAACATAGTATCTGTCAATCTCTAGAAACCACAAGATGATGGAGAGGTCATAAAAACTGTGGTAGTATGCTTAGAAACTGTTGATTTAAAATATCTTGTGGTTATGATATCAGAGGCTAAATTTTGAAATAAAATATTTGGCAAATTCCTCCACATTAGTGTCAATGTTCCTATCATTTCTTAATATAAAAATAATACCATCAATTGCTGATTAATTTTTAAATGTATAGTATAGAAGCAGTTTCTGAACCAGATCTCTGCTACATAGGTTTTCAAACTTTAGTTGACTAATTCTTCTGATATGTTGATATACAAATCAGAACCAATGTTCAAGCCTGAAATAAAACTAAAGAACTTATAAAAGTTTTTAGAAAAATATAAAATATCAGTTAGAAGATTATGATAATCTCAAAGTACAAGAATCTACCTGAAAATAGACTAGGGATTTTTATTAGTCACATTTTTTGCAAATAATTTAAAAATAGTTTAGACTTGTTTCAAGGTCTAACTATAAAAGAAGGATCATATACTATTGTTGCTTATTATATGTAATCTAATAAATACTGTTTACAAAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000005187:ENST00000289416:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.066 A=NA C2=0.156
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=PD(1.2=2.4),PF131931=AMP-binding_C=FE(63.5=100)
A:
NA
C2:
PF131931=AMP-binding_C=PD(16.0=44.8)
Main Inclusion Isoform:
NA

Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCTTTTGTCGTTCTAAATCCTGA
R:
AGCCTCTGATATCATAACCACAAGA
Band lengths:
350-746
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