HsaINT0000081 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:9020438-9020953:+
Coord C1 exon
chr12:9020438-9020653
Coord A exon
chr12:9020654-9020825
Coord C2 exon
chr12:9020826-9020953
Length
172 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
TACCTATTTCTTCCTACCAGACG
3' ss Score
8.41
Exon sequences
Seq C1 exon
GATACTGTAGTTGCTCTCCAAGCTCTTGCCAAATATGCCACTACCGCCTACATGCCATCTGAGGAGATCAACCTGGTTGTAAAATCCACTGAGAATTTCCAGCGCACATTCAACATACAGTCAGTTAACAGATTGGTATTTCAGCAGGATACCCTGCCCAATGTCCCTGGAATGTACACGTTGGAGGCCTCAGGCCAGGGCTGTGTCTATGTGCAG
Seq A exon
GTAAGTAGAGATCCATGAGAATGAGCGGACATTGGGAAGGAGAGTCGGAGAGCATCTTCCCCTTAGGCCTTCTCTCTCTCTTTCTTTCTCACTTGTAAGAAAAGTAGTTTGAACTGTACAATCTTTAAAGTTCTTTCCAAGTCTGATTTGGCTACCTATTTCTTCCTACCAG
Seq C2 exon
ACGGTGTTGAGATACAATATTCTCCCTCCCACAAATATGAAGACCTTTAGTCTTAGTGTGGAAATAGGAAAAGCTAGATGTGAGCAACCGACTTCACCTCGATCCTTGACTCTCACTATTCACACCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535-A2ML1:NM_144670:30
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=PD(5.3=18.1)
A:
NA
C2:
PF079778=FabA=FE(45.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCACTGAGAATTTCCAGCGC
R:
GTCAAGGATCGAGGTGAAGTCG
Band lengths:
242-414
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)