Special

HsaINT0003006 @ hg38

Intron Retention

Gene
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal4)
Zebrafish
(danRer10)
LOW PSI
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