Special

HsaINT0003016 @ hg19

Intron Retention

Gene
Description
acyl-CoA synthetase medium-chain family member 4 [Source:HGNC Symbol;Acc:32016]
Coordinates
chr12:7479572-7480969:+
Coord C1 exon
chr12:7479572-7479691
Coord A exon
chr12:7479692-7480882
Coord C2 exon
chr12:7480883-7480969
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
GTGGAATTTGTTCAAGAACTCCCAAAGACAATCACTGGGAAAATCAAACGCAACGTTTTAAGAGACCAAGAATGGAGAGGAAGATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000215009-ACSM4:NM_001080454:12
Average complexity
IR-S
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


Main Skipping Isoform:


Other Inclusion Isoforms:
NA


Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
ALTERNATIVE
([1])
Zebrafish
(danRer10)
LOW PSI
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGAAAGCTTTTGTTGTCT
R:
TATCTTCCTCTCCATTCTTGGTCTCT
Band lengths:
206-1397
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