Special

HsaINT0002977 @ hg19

Intron Retention

Gene
Description
acyl-CoA synthetase medium-chain family member 1 [Source:HGNC Symbol;Acc:18049]
Coordinates
chr16:20648061-20648773:-
Coord C1 exon
chr16:20648693-20648773
Coord A exon
chr16:20648163-20648692
Coord C2 exon
chr16:20648061-20648162
Length
530 bp
Sequences
Splice sites
5' ss Seq
CAGGTCTGG
5' ss Score
5.06
3' ss Seq
TCACAGGCCTCTTGCTACAGGTC
3' ss Score
6.39
Exon sequences
Seq C1 exon
GGACTAATTTGTGCCACCTACTGGGGAATGAAGATCAAGCCGGGTTTCATGGGGAAGGCCACTCCACCCTACGACGTCCAG
Seq A exon
GTCTGGTCCTAAGGGCATTGGCAGGGAGCAGTTAGGGCTCAGCGGGGGTTGGACAATTTGACACCAGGTGACAACACCAGCCGCACTTCCCTGCTCCAGTCATCCTTCCTCCTCTCTTCTCATTTATCCCTTCAGTTTCATATGGAGGCCTCAGTTGAAAACTGCATTATTGTGAGCATGAACACCGCTGACCCTGGCAGCCAGGGCATCACACACAGTAGGTAGGAAAGAATACCTAGAGGCTGCACTGGGAGCCCTCTCTAGCAAGTGGTGCTTTTCATTTTTTTTGATCACTGTTTTCCAACTTGAAGACACATTGGTGACATCTACTAACTCATGAAACATAGACCCTTGGCTTGAGTTTCACATTTGCGTATTTTAAAGGCTTTTGACAGTTTTATTCCATTTTCTGATGTTTCCTCTGTTATTTCATCCACACTGGTGTCCCATGCATAAACCAGACAGTGCTTGGGTGGGGCAGAAGGGCTGCGGCCTCCTGCAGTGTATGATTCACAGGCCTCTTGCTACAG
Seq C2 exon
GTCATTGATGACAAGGGCAGCATCCTGCCACCTAACACAGAAGGAAACATTGGCATCAGAATCAAACCTGTCAGGCCTGTGAGCCTCTTCATGTGCTATGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166743-ACSM1:NM_052956:8
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact

ORF disruption upon sequence inclusion

No structure available
Features
Disorder rate (Iupred):
  C1=0.040 A=NA C2=0.004
Domain overlap (PFAM):

C1:
PF0050123=AMP-binding=FE(25.7=100),PF0050123=AMP-binding=PU(6.5=10.7)
A:
NA
C2:
PF0050123=AMP-binding=FE(36.2=100)


Main Inclusion Isoform:
NA


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
LOW PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGACTAATTTGTGCCACCTACTGG
R:
TCATAGCACATGAAGAGGCTCAC
Band lengths:
182-712
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