HsaINT0000077 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:9013477-9013893:+
Coord C1 exon
chr12:9013477-9013551
Coord A exon
chr12:9013552-9013730
Coord C2 exon
chr12:9013731-9013893
Length
179 bp
Sequences
Splice sites
5' ss Seq
GATGTAAGT
5' ss Score
9.11
3' ss Seq
TCTTCATCTTCACTTTTTAGGAC
3' ss Score
11.4
Exon sequences
Seq C1 exon
GGTGGTGTTGATGATGAGGTCTCCTTGACTGCGTATGTCACAGCTGCATTGCTGGAGATGGGAAAGGATGTAGAT
Seq A exon
GTAAGTTCTCCTGGCTCCTGCTCTTGATACCCTCCTTCTCATGCGTATTCCTAGAGACATTCACCCATCTTTGTCTCTAGTCACCCTTTTAAGGTCAAGAAGGATAAGATGATTTCCTGATTACTTGCCATTTTTAAAGGAATGCCTTATAAGTTATAGTCTTCATCTTCACTTTTTAG
Seq C2 exon
GACCCAATGGTGAGTCAGGGTCTACGGTGTCTCAAGAATTCGGCCACCTCCACGACCAACCTCTACACACAGGCCCTGTTGGCTTACATTTTCTCCCTGGCTGGGGAAATGGACATCAGAAACATTCTCCTTAAACAGTTAGATCAACAGGCTATCATCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535-A2ML1:NM_144670:27
Average complexity
IR-S
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(9.8=100)
A:
NA
C2:
PF076789=A2M_comp=FE(22.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGGTGTTGATGATGAGGTCT
R:
CTGAGATGATAGCCTGTTGATCT
Band lengths:
238-417
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
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)