HsaINT0000089 @ hg38
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr12:8835507-8836339:+
Coord C1 exon
chr12:8835507-8835666
Coord A exon
chr12:8835667-8836254
Coord C2 exon
chr12:8836255-8836339
Length
588 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGT
5' ss Score
8.6
3' ss Seq
TCTCCTTTTACTCTCTTCAGTGC
3' ss Score
9.25
Exon sequences
Seq C1 exon
GATCCAAATAGCAACAGGATTGCACAGTGGCTGGAAGTGGTACCTGAGCAAGGCATTGTAGACCTGTCCTTCCAACTGGCACCAGAGGCAATGCTGGGCACCTACACTGTGGCAGTGGCTGAGGGCAAGACCTTTGGTACTTTCAGTGTGGAGGAATATG
Seq A exon
GTAGGTGGGGAAATGGACAGGCCAAAGTATTGGGCATAATCTCATCTTAAAATCAGCAAAGGTGGAGCCGGGCGCAGTGGCTCACGCCTGTAATCCCAGGACTTTGGGAGGCCGAGGCGGGCAGATCATGAGGTCAGGAGATCGAGACCACCCTGGCTAACACAGTGAAACCCTGTCTCCACTAACAATACAAAAAATTAGCCGGGCGTGGTGGCAGGTGCCTGTAGTCTCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCTGGGAGGTGCAGCTTGCAGTGAGCTGACATCACGCCACTGCACTCCAGCCTGGGTGACAGAGCAAGACTCCGTCTCAAAAAAAAAAAAAAAAAAAAAATCAGCAAAGGTGGAGTAAAATGTACTCTGGGAAAGGATTATTTACTCATTTTTGAATCGATGCTGAACCAGCTAATTACTTCAGGAACATGCTACCTAAATAATGCCTCCTTCATTAGATCCATTAATTTAATTCTCACTGTTTATACCCCTCTGCTCACTGCCTGTCTGACTGATTCCTCCTCCAGTGCTTTCTCCATTTCTCCTTTTACTCTCTTCAG
Seq C2 exon
TGCTGCCGAAGTTTAAGGTGGAAGTGGTGGAACCCAAGGAGTTATCAACGGTGCAGGAATCTTTCTTAGTAAAAATTTGTTGTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535:ENST00000299698:6
Average complexity
IR
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:
PF0183514=A2M_N=FE(44.9=100)
A:
NA
C2:
PF0183514=A2M_N=PD(19.5=79.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACAGGATTGCACAGTGGCT
R:
TTTACTAAGAAAGATTCCTGCACCGT
Band lengths:
222-810
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