HsaINT0000075 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:9010103-9010698:+
Coord C1 exon
chr12:9010103-9010184
Coord A exon
chr12:9010185-9010541
Coord C2 exon
chr12:9010542-9010698
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-A2ML1:NM_144670:25
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(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
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
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)