HsaINT0000056 @ hg19
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:7]
Coordinates
chr12:9259087-9260240:-
Coord C1 exon
chr12:9260120-9260240
Coord A exon
chr12:9259202-9260119
Coord C2 exon
chr12:9259087-9259201
Length
918 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGT
5' ss Score
10.28
3' ss Seq
TTTATTTTCTCCCTTCTTAGCTA
3' ss Score
8.53
Exon sequences
Seq C1 exon
ATACACATATGGGAAGCCTGTCCCTGGACATGTGACTGTGAGCATTTGCAGAAAGTATAGTGACGCTTCCGACTGCCACGGTGAAGATTCACAGGCTTTCTGTGAGAAATTCAGTGGACAG
Seq A exon
GTAGGTTGAACACTATTTTTTCTAGAGAATAGCGATAAAGGCATTGTTGAAAAGCAGTGAGTTGCAGCATTTTTCTGACGCAGGAAGAGAACAATCTAGAAGAGAATTCCATGTTGGCTATTGTAATTTTTCAAAAAAAATCATGAACTTAGCACAATGGGAATTATTTATTTCTCGTAATTGCCCATTGTGAGTGTTTCAGAACGATAGACACTGAGCCATCTAAAGCCTCCATGGGCATTCACTTCTACAAAGGAAGGAAAAAACCATACACCTCTTAATTGCCTTAGCTGGCCAGGCCATCAGTTCTGCTCTCTCTGTGAACAAGAACCTATCACATGGCCCCACCAAGATGCCAGAGAGTTGACAAACACAGTCCCCATATAGAAGGCCGCTTCCCAGCCACAGCTGAATATTATGGAGGAGGAACCAGACTTTGATGAGGAGTTCTAATGGTCAAGAGCAGATGTACTGTGTATTTCAAAATAGCAAGTGGACAGGACTTGAACTATTTCCAACACATAGAAATGATACATACTTGAGTTGGTAGGCACCCTAAATCCCGCGATGTGATCATTACACATTCTCTGCATGTAACAAAATATCTCGTGTACCCCATAAATATGTATAAATATTATGCATCCTTTGTACAAAAAAAATTACTCCTCAAATTTTAAGACATTTCTATCGCAATATATCTAGGGAATTTCAGATACCAAGGAATACATCTGTCAATTATACATGAGATATTGTTGTGAAATTTAATATTTAGTTGCTAGAGAATATTTATTGTGTCCTCGTCATAGAAAATGCCTACATGATGTTGTCCCCCCACAAAAATCACACCGGTTATCTGACCACTGATCTATTTAGTATAATATGCATTATATTTTTGTATTTTATTTTCTCCCTTCTTAG
Seq C2 exon
CTAAACAGCCATGGCTGCTTCTATCAGCAAGTAAAAACCAAGGTCTTCCAGCTGAAGAGGAAGGAGTATGAAATGAAACTTCACACTGAGGCCCAGATCCAAGAAGAAGGAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899-A2M:NM_000014:8
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=0.051
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACACATATGGGAAGCCTGTCC
R:
TCCTTCTTCTTGGATCTGGGC
Band lengths:
230-1148
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
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)