Special

HsaINT0003009 @ hg19

Intron Retention

Gene
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
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