HsaINT0000044 @ hg19
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:7]
Coordinates
chr12:9227156-9229532:-
Coord C1 exon
chr12:9229352-9229532
Coord A exon
chr12:9227380-9229351
Coord C2 exon
chr12:9227156-9227379
Length
1972 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ATCTTTTTCTCATCTTTAAGACA
3' ss Score
6.82
Exon sequences
Seq C1 exon
CACCCTGTTGTCCGCAATGCCCTGTTTTGCCTGGAGTCAGCCTGGAAGACAGCACAAGAAGGGGACCATGGCAGCCATGTATATACCAAAGCACTGCTGGCCTATGCTTTTGCCCTGGCAGGTAACCAGGACAAGAGGAAGGAAGTACTCAAGTCACTTAATGAGGAAGCTGTGAAGAAAG
Seq A exon
GTGAGAGCACACCTGAGATCCTTCTCCTGGCCCATCCTCTGTATCAAGAACTGCATGGCAAAAATCCCTCACTCCTACCTCCTGTGATCCCTGTCTCCTCTCTTCTTTTCTATATATCATATATATTTTGTCCATATTGCATCTTATAAAATCTAGGATTTCTTAATCAAATCAGAAATCAGAAGACAAGAGGCCGTGCAGATGCTTCTCAATTACGATGGGGTTATATCCTGACAAACTCATTGTAAAGTCTAAAAAATCTTAAGTGGGACCATTGTAAGTCAGGGACCATCTCTATAGTATGCTGGTAAGAAGAGCATTCTCTGGAGACTAGCTCCAAAATGTGCTACCTATGTGAGCTTGGGAAAGTCATTAACTTCCTTGTGTTTCAGTTCCTTCATCAGTAAAATGGGGATAATAATAGTATTTACCTCACAGAGCTGTTGTAATAAATGAATTGGTACACGTAAAACACTTAGTAGAGTACATGTCACATAGCAAATCCTATAAAAGTACTAGTTATTACAATTAACATATCAGTTCTCAATATATGCCCAACCCTTACCTGGTACATTATATAACCTTAAACATAAGAAAATAATCATGGAAGTAACTCCTTGAATGAATTCTGGTATTTTAAGCCCATTTCATAAGACCAATAATGTTGACCAATCTACTCATATTCACACAGTACTTCTACATATACCATGGTCTATATGAGCGGTTGAAGAAATAGAAAATAAAATGCAAATCACAAGATGTCCATTAAAACAGTCTACCTTTTTCCTTTGACAGCCATTAATTCTTCTTAAAATGTATTGAGAAATATTTTATAATAGATATACAAAAGGGCATAAGCTATAACTAGAAAACACTGTACAACTCTCTCATAGATTAAGAAATAGAAAATTACCGACATGGGAAAAATAAATCCCTTGTGTATCACTACCACCTCCAGAGGCAATCATTATCCTGAATTTGTCGTTACAATTCCATGGATTTCCTTATATTTTTGCTGCATATGTATCCCTAACTAATATTTAGAATCTTCACATGTGTTTCATCTTGAGAGAAACAAGATTTTTATTTCTCTCTTATTCAAGAAACAAGAGAAACATTTTTGAATATTTCAGCAGCTTAGTTTTTTGTTTGTCTGCTTTTTATTTTCTAAGTTCAACACTATGTTGATGAAGACCCCTATACAAGTATGTGCAGAGTCAGCTCATTAATTTTCACTGCTGCATAATATATTACAGTCTATAAATTAGTCATAATTTACACATCGAGTTTCTCCTCATGGATTTTTTTTATGTTTTGCTATTAAAAAAAATGCTGCAATGAATACTCATGTGCCTGTTTTCTTGTGCATCTGTGTTTCTCCAAATTATGCTTTGAGAAGCATAATGACTGATTAGTGGGCTAAGCACATCTTCCCCATTGCTGAATATTGCCAAAGAGCAGTTGGCTTCCCACAGCAGTGTATATTGGTTCCCATTGTTTCACATCCATGTCAGCCTTTGGTATTTCAAGGATTACTGTATTTTTTTTTTCAATTTAATGAGTAGAAACTCTACTATTTCATGTGATCTGTGATCCTCACAAGAAACTGATAAAGACACACTTTATAGGAAATGTAACAAACTCCAGCTATAGTCTAATATAACATCATAAATAGGAAATAGCCAGACTCAATGAGACAACTGCTGTGCCATTTCTTTCTCCCACCAACCCGACTATAGCAACGATTTGAAAACATAGATAGGCATAGGCTTCTGACTCCAGCATCAATATCTGCCTTAGCTGGGCTAAAACACACCAAATTCAGATTTACATGAAGGGAAAAGCATCTACATACAGTACAGGGGATTATAATGGGCATGCAATTCTCATTTCAGCACTGGCTTGGGTACTTTCACCTTGAATTAAATATAAATATGTAGGCACTTATAAATATCTTTTTCTCATCTTTAAG
Seq C2 exon
ACAACTCTGTCCATTGGGAGCGCCCTCAGAAACCCAAGGCACCAGTGGGGCATTTTTACGAACCCCAGGCTCCCTCTGCTGAGGTGGAGATGACATCCTATGTGCTCCTCGCTTATCTCACGGCCCAGCCAGCCCCAACCTCGGAGGACCTGACCTCTGCAACCAACATCGTGAAGTGGATCACGAAGCAGCAGAATGCCCAGGGCGGTTTCTCCTCCACCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899-A2M:NM_000014:28
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.082 A=NA C2=0.267
Domain overlap (PFAM):
C1:
PF076789=A2M_comp=FE(23.3=100)
A:
NA
C2:
PF076789=A2M_comp=FE(28.8=100)
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:
CCCTGTTTTGCCTGGAGTCAG
R:
CTGCTGCTTCGTGATCCACTT
Band lengths:
356-2328
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)