HsaINT0000075 @ hg38
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr12:8857507-8858102:+
Coord C1 exon
chr12:8857507-8857588
Coord A exon
chr12:8857589-8857945
Coord C2 exon
chr12:8857946-8858102
Length
357 bp
Sequences
Splice sites
5' ss Seq
ATGGTAATA
5' ss Score
5.05
3' ss Seq
TTTCCTCTTTACCCATGTAGGCT
3' ss Score
9.28
Exon sequences
Seq C1 exon
GGTACCAGAAGGAGCTGATGTACAAACACAGCAATGGCTCATACAGTGCCTTTGGGGAGCGAGATGGAAATGGAAACACATG
Seq A exon
GTAATATCACCCAATTCCCAATGAGTTCTGTACTCCAGAGCATAATTCCTGAGCCCTCTGGAACTATTCCACTACCTCTCCCCTTAACCCCTTTCCTTCTTGCACTCAGTCTTCTACCTCTTTAATACTGTTTATTTCACCCTCATGGATGGTCAAGTCCCTCGATCTTCCTGAGCTTGTGCCTCCCCTGTTCTTGTCCTCATTGGTGCCCATTAATGCCTCTCTTTTCTAGGCCTGCTATGGCATATGTTCCCTCAGCTCCCCTTCTGGAAGTATACACCCAAATAAATGAAGAAATGATTGCACCCTCACCTGGAAATTCCTCTTCATGCCATATTTTCCTCTTTACCCATGTAG
Seq C2 exon
GCTGACAGCGTTTGTCACAAAATGCTTTGGCCAAGCTCAGAAATTCATCTTCATTGATCCCAAGAACATCCAGGATGCTCTCAAGTGGATGGCAGGAAACCAGCTCCCCAGTGGCTGCTATGCCAACGTGGGAAATCTCCTTCACACAGCTATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535:ENST00000299698:25
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:
PF076789=A2M_comp=FE(11.0=100)
A:
NA
C2:
PF076789=A2M_comp=FE(21.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTACCAGAAGGAGCTGATGT
R:
CTTCATAGCTGTGTGAAGGAGA
Band lengths:
239-596
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development