HsaINT0002969 @ hg19
Intron Retention
Gene
ENSG00000166743 | ACSM1
Description
acyl-CoA synthetase medium-chain family member 1 [Source:HGNC Symbol;Acc:18049]
Coordinates
chr16:20635418-20636844:-
Coord C1 exon
chr16:20636745-20636844
Coord A exon
chr16:20635538-20636744
Coord C2 exon
chr16:20635418-20635537
Length
1207 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGG
5' ss Score
8.41
3' ss Seq
CCCATGACTTCATTCTGCAGGTG
3' ss Score
9.72
Exon sequences
Seq C1 exon
GTATCGCATCGGGCCTGCAGAGGTTGAAAGCGCTTTGGTGGAGCACCCAGCGGTGGCGGAGTCAGCCGTGGTGGGCAGCCCAGACCCGATTCGAGGGGAG
Seq A exon
GTGAGGAGAACACAGAGATCATCATGTCTGTGCGTGGGCACTAGGAAAGCAGGTGCAGGGGAAACATCCAGGCTTTACCTGTGCAGCCTTGGTGGAAGGGCATAGTGTGCATGTGCGTTTACACGGTATGGCACCAGGGGACAGTGTGGACTCTCTGTGGCTCTGAATAAAAGGATGCTAGATACTATGTAATGAGCACTTATATATGCCAAATCACTTAACTCTCACACAATGTAGTAATCTAAGAACACTTATGCTTTTTATAGATGAGGAAAGAGAAGCAGGAGGAGGTTAAGTAACCTCTCCACATCACCCAGCTAGAGTAAGGGGTGGAGGCAGAATGGCATCTCAGCAATGTGGCTCCCGAACATACATGCATTTGTATATTGAAAAGTGTTATTAGGCCGGGCACGGTGGCTCATGCCTGTAATTCCAATGTTTTGGGAGGCTGAGGTGGACCGATCACCTGAGGTCAGGAGTTCAAGACCAGGCTGGCCAACATGGTGAAACCCCACCTCTACTAAAAATACAAAAAAAATTAGCCAGGTGTGGTGGGGGCAGGTGGGTGGAATGGGGGGTGGGCGCCTGTAGTCCCAGCTACTTGAGAGGCTGAGGCAGGAGAATCGCTTGAACCTGGGAGGCTGAGGTTGCAGTGAGCCAAGATCACACCACTGCACGCCAGTCTGGGCGACAAGAATGAAACTCCATCTGAAAAAAAAAAGTCTTTATTAATCACCTTCTATATGTGAGACCTTGTGCAATAAAACTTGGATAACATTGCTAATCTAAAAATAATAAATTGCCAGTAATTATGGAATGCCCATTGGGTTTCTGGCACTGAATTACATATATAATAACAGTAAAAATGATGATGAAAATATTGATGACGGGAGTAATAATAAAAGTAAACTAGCTGGATGTTTTATATGTATTATCTCATGGAAGCTTTAAAGAAACCAAATGAAGAATGGAAGCTTTATTGTCCCCATTTCACAGAAAAGAAAACTGAGGTTAAGGAGAGGTCAAATAACTTTTCAAGGCATGGAGTGGGAATTGGAAACACAGGGATTTACACCTGGTCCTCTCCTTTTCCAAAACACTGTAGGGTTCAGTGTCACCTTGTTTTACCACTCATTCAATAAACATTGACTTTTTAAGCTATGGAGTAGGTTGGCACTCACTGTGAGCCCATGACTTCATTCTGCAG
Seq C2 exon
GTGGTGAAGGCCTTTATTGTCCTGACCCCACAGTTCCTGTCCCATGACAAGGATCAGCTGACCAAGGAACTGCAGCAGCATGTCAAGTCAGTGACAGCCCCATACAAGTACCCAAGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166743-ACSM1:NM_052956:11
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.081 A=NA C2=0.099
Domain overlap (PFAM):
C1:
PF131931=AMP-binding_C=PU(32.1=76.5)
A:
NA
C2:
PF131931=AMP-binding_C=FE(48.1=100),PF082366=SRI=PU(48.2=67.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTATCGCATCGGGCCTGC
R:
TGGGTACTTGTATGGGGCTGT
Band lengths:
214-1421
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)