HsaINT0003016 @ hg38
Intron Retention
Gene
ENSG00000215009 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:HGNC:32016]
Coordinates
chr12:7326976-7328724:+
Coord C1 exon
chr12:7326976-7327095
Coord A exon
chr12:7327096-7328286
Coord C2 exon
chr12:7328287-7328724
Length
1191 bp
Sequences
Splice sites
5' ss Seq
AAGGCAAGT
5' ss Score
3.24
3' ss Seq
CGTTTTTTTCTGTCAATTAGGTG
3' ss Score
8.95
Exon sequences
Seq C1 exon
GTGGTGAAAGCTTTTGTTGTCTTAGCTGCACCCTTTAAGTCCTACAACCCAGAGAAATTAACTCTTGAACTTCAGGATCATGTGAAAAAATCAACTGCACCTTACAAATATCCAAGAAAG
Seq A exon
GCAAGTGCTTTGCCCAAAAGTTAAGTTTGGATGTTACCAAACTAGGGTCTAAGCTAGAATTAGATTTTACTGGATTTTGATTTTATAGTAGCTCATTATATAGGTAGAAGACACTTTTCAATTTGTTTAACCCTAAGAATTTTGCTTTAAAATGTTTTATATTAGAACGGTATAAGTGAATTATAAACCAGAACCTTTAATCAACTCTGCAATACTGAATCACTACTAAGAGTCTTTCTAGGACTAACTAGTCCCATTCTGTATGAGAAAAACACAGTGGCAAAGAATTGCCAAGTGCCTTGTTTTTAGGGACAGTGCTTGATTCACCTATCTCAGTACTCTTATCCCTAATACCCCTATAAATTCAAAGTACATGCCTTGAAGTATCAAGTGACCTCATTTAGTGTTCAGAAGAAGATGATATCCAAAGAAACTATGGAATCTTTCCTGAAACCTTCTTCAAAGAAGGATTTAAGAACAATACTACGTAAATACATGAAGATGGCCCTGTAGTTTCCTTCTAACCATGGAACTGGGTGATAATTACTGATCCTCTGCATGAGATTTCTGTTTAGCACTGTTTCAGTCAAAAAGTAGTTAAACCTAAAAACTACTCACATTTTCTCCATTAAATTCACTAAATCATTGACTAAAGTCACTAAATCAGTGACTGTTGACTTTCAGAAAGGCTATCTGAGGGCATTTTAAAATACAGTAGTCTTATTTTGAGAGAAGAGAACAAAAAGAGGATTTTTGTGGTCAAGTCAGGGCAGAAGGGAAAACTGTATATACTCCAAATTATCCCTAAAAATCTTCCTCAAAACCTCCAGCATCCAGCTCTGAAAAGACAAGAACTGTTCTTTTTGTATTTAGCTGTAATCTCCATTTCTCGGGAACAGTAGAAGCCTAGGACTAGTTTGAACTAGGGGAAAGCAATGGGGTAAAGGGATTATTACTTTCTTCTGGCAAAGCATTTCAGTGAATTTGCACTAAAAACCCGTAAGATGGAGCTACACTATCACCCTTCCTACATAAACAGACGTTTCTGGTGTCCATGAAATTCAATGAGCTTAGGCTAAGATAATCTCGACTTTAAAATTCAGTCTGAGTTCCATGCAAGCTCCTTCCTATCGCACGGACAATTGGAAGGATGGAATCAAGTGTCTCATCACGTTTTTTTCTGTCAATTAG
Seq C2 exon
GTGGAATTTGTTCAAGAACTCCCAAAGACAATCACTGGGAAAATCAAACGCAACGTTTTAAGAGACCAAGAATGGAGAGGAAGATAGTTTGATAACAAAGCTGAAGGGTTAAGCAGTAATATGGTTGCTTTCTTTTAGTATTTGTTCCGATAATTCAGCGACTACTCTCTTAAAATGTTTAAGATCTTTCCTGCTTGAAAACTCAACTGTTGATTTTTTGGTTTTTACTTAGCTAAAAAGTTTAAAAGTAAATAAAAGCCTCAAAAACGTATGGATGAAAATTGTTATAATGACCAAACTGACAAAGGTAATGATGATGATTTGTAGTGTTTAAAATAGCAGGAATAAAATGATTGCTTAGAACAAGAAAGTGCACATTGAATCTGTATTTCATTTACCTTGTGCCTGATTGATTCAAAATAAACATATATCCTAAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215009:ENST00000399422:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF131931=AMP-binding_C=FE(48.1=100)
A:
NA
C2:
PF131931=AMP-binding_C=PD(16.0=44.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAACCCAGAGAAATTAACTCTTGA
R:
TCATCCATACGTTTTTGAGGCT
Band lengths:
355-1546
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