HsaINT0003031 @ hg19
Intron Retention
Gene
ENSG00000183549 | ACSM5
Description
acyl-CoA synthetase medium-chain family member 5 [Source:HGNC Symbol;Acc:26060]
Coordinates
chr16:20429381-20430757:+
Coord C1 exon
chr16:20429381-20429591
Coord A exon
chr16:20429592-20430549
Coord C2 exon
chr16:20430550-20430757
Length
958 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
CCCCTTCTGTTTTATGCCAGGGA
3' ss Score
8.77
Exon sequences
Seq C1 exon
GCTGGACACCGCCCCCCAAATCCTGCCTTCTGGTGGGTCAATGGCACAGGAGCAGAGATCAAGTGGAGCTTTGAGGAGCTGGGGAAGCAGTCCAGGAAGGCAGCCAATGTGCTGGGGGGTGCATGCGGCCTGCAGCCTGGGGACAGAATGATGCTGGTACTCCCACGGCTCCCGGAGTGGTGGCTGGTCAGTGTGGCTTGCATGCGGACAG
Seq A exon
GTCAGTAAGCAGGGCTGGGAATTTTAGTTGGGGGCAGACACAACTTGCCAGAGCTTTGCAGTGTCCACAGGGTCTTGAAGATGGAGCAAAAATAAACTGTATGTGGAGTTGTGTTTACTTCCTATTTGCCTAACAATCACAGACTTGATTGTATAGTAGGGGCCAGACAATGATGTAATTGATAAAAGCAGGCCAGTGCAAGGCAGTAGGGAGTTGTGAGGACTGCGGCAAACTGGAGATCACATGCTTTATCAAATGGGGTCGCTGCTTCTCAACTCGAACCAAATGTTCCCACGACAGAATGAATACCAGTGTTATCAGAACTTCTGATTTGTAATTGAAAACTCTGGATTTTTATGAAAAATCCCCCTGTCTTTTAATGTTGGCATCTATCATTTTAAAAAGTCCTGACTGGGACAAATCAAGCATATTTTCTGCTGGTTGTGGTTTGGGAGCCTTGCTTTAGTTGCTAGAATTTTACCCGAACGATGCAGTTATAGATGAGGGACCCTTATAACCAATCTATGTTAGTTTCACTCTTAGACTTTATGATTCTCATTATCACAGCATCATCCAGCTCCCAAAGGAAGGAAGATAAAGATGAAATAAAAGAACCAGTGATATTATCCCTTGCAGGAGGTTAGGGGGACAGGTCCTCCTGTTGTCATGAATGTCCAGGGCAGTGAAACATTATCTTCTTAGAATGGTTCCTTCAGCAGAGAAACAGAGGAGGAAAGAGGCCACAGTGAGCCTAGCAAGCCTCCACTGATGCTGAGTGAATAAGTGATCATGCACTTATTCAGACGGCTAGGGTTTTTAGGCTGTTATTATTATTATTGTTACGTCTTCCAGCTCATGCATTCCAACCCTCCCCAGCCCCTTCCTGCCTTCATCTCTTACCTCTATACCCAAGGCCTTCCCCGCTATCCACTCAACATCCCCTTCTGTTTTATGCCAG
Seq C2 exon
GGACTGTGATGATTCCGGGTGTGACTCAGCTGACAGAGAAGGACCTCAAGTACCGGCTGCAGGCGTCCAGGGCCAAGTCCATTATCACCAGTGACTCCCTAGCTCCAAGGGTGGATGCCATCAGTGCCGAATGCCCCTCCCTCCAGACCAAGCTGCTGGTGTCAGACAGCAGTCGGCCAGGCTGGTTGAACTTCAGGGAACTCCTCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000183549-ACSM5:NM_017888:3
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(47.1=93.0)
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:
CTGCCTTCTGGTGGGTCAATG
R:
CTGTCTGACACCAGCAGCTTG
Band lengths:
358-1316
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)