HsaINT0003021 @ hg19
Intron Retention
Gene
ENSG00000215009 | ACSM4
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:32016]
Coordinates
chr12:7473321-7475137:+
Coord C1 exon
chr12:7473321-7473400
Coord A exon
chr12:7473401-7475013
Coord C2 exon
chr12:7475014-7475137
Length
1613 bp
Sequences
Splice sites
5' ss Seq
GAGGTACTT
5' ss Score
7.82
3' ss Seq
ATGCAACTCTGTCTCTCCAGATA
3' ss Score
8.29
Exon sequences
Seq C1 exon
ACACTTACTACTTATCCCATCACGACCCTGTGCAGTCCTCCCACTGTGTACCGGATGCTCGTGCAAAAAGACCTTAAGAG
Seq A exon
GTACTTGGGCAGAAATCTCCATTTGAACCACAAACAATAGCTACCATCCAGGATCACAGATCTCTCTTTTTCAGCATAGGATAGCTCAGGCTTTCTCAGTCTTACCACCACTGACATTTTGAACCGAATAATTCTATCGTCGGAGGACGGTCGTATGCATTACAGAATGTTGAGCAGCATCTCAAGACTCTATTAGACGCCAGTAGCACCTCCTCCTCCCCATTTGTGAAAATCAAAAATGTCCCTAGACACTGCCGAATGTCTTCTGGGGGGCAAAACTGTTCCCTAGTCTAAGAACCACTGGAATATCCTCTAGGACAACTGGACATTTTTCCAGGGACAACCAGACCTCTGTAGTCCCAGAACTCCCACTCAAAAAAAAATTGTCCTCTAGTTCTATTCTTTTAAAAACACTGTCATTTAGAACTCAAAAAAGAAAGAAAGAAAAGCACATTTATACTGCTTTGAAGAAAAGCTAACAAAATTTATGACTTGAAGGTCATATTCAATTTAGCCAAACCATATGAACATCCAGTAGAGTTGCAATGTATATTTGTTTAATTCAAACTCAATACATGAGGAGAGAAAGGAATAGAGGAGCAAATTAAGTAGCATAGGCTTGTCCATCCTCTTTTGCCACCAAAGTGTGGTTGCCCAAGAGGGAAAGTGCTATGCGAGACAGAATAAAGCAAACATGGATCTTCTCTTTTCCTAGTCAGTGTCAACTCCTTTGCTCCTATGTCACGGCCTTTGAAACATCAGCATCTTGTTCACATTTCAAGAGTAATTCAGGGACTATTCAATGATTATTTTGAATACACATGATTTGTATTCTACCCACACCCTCTGGCCCATTTGGGGCCTCAGTGTATGAGAAGCAGGCTGTTCCAGGCTTTCTCACCTGTGTCCAGTAAGGCTAGTGGTTAAAAGCTAAGCTCCAAAGTCAAACAGGCAGGGCCCTGCTACTTACTAATCACGTGGCCTTGGACACTCAAGATAACCTTGCTAAGCATCAACTCCATCTAGAAGAGAGGATTAAGAGCCCCCTCATAAGGTTGTGGTGAGAATTTAATGTAAGTGACATGCTTGGTGAGATCACCCTGACAAGTGGGAGGTGCCTGGTACAGAGTTTCATGAGTATCAACTCAGTCCTTTATTACATGGAAGGCTTTCGGCAAGTTCTTTAACCTCTCTGAACCTCAATGTCCTCATGTGTAAATAGGGGTTGAGAAGATTCTAAGAATGCTTCTAAAGCCCTTACAACATAGCGACTGATCAATCAATATTAGCTGTTATATCATGTGGCTCATCAAAAGCACTTAGTATCATTAATAGCATCTTCTCCTGCCTTTTTACATCTTTAATAGCTAAGTTCTCCTCCACCTGCTAAAATGAAAGCTGTCAGGAATTTTCGTTATAATCACTAATGTGCCCCCATATGCCTAGAACAATGTCTGGCAATATAGCAGGTGTTCAACAAGTATTTGTTGAATGAACTTTGCTAAGACTTGCCTCTCCTAGCTGCTATGCTTACTGCTTGAATGTCCTAATTGTCTTGCAGTGAAAGCACTCAGGTTCCTCTTGAAAAGACCCATGCAACTCTGTCTCTCCAG
Seq C2 exon
ATATAAATTCAAGAGTCTGCGGCACTGCTTGACCGGAGGGGAGCCACTCAACCCAGAAGTGCTGGAGCAGTGGAGGGTGCAAACTGGGCTGGAGCTATATGAGGGCTATGGACAGACGGAAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215009-ACSM4:NM_001080454:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0050123=AMP-binding=FE(6.3=100)
A:
NA
C2:
PF0050123=AMP-binding=FE(9.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTACTTATCCCATCACGACCCT
R:
CACTTCCGTCTGTCCATAGCC
Band lengths:
198-1811
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)