HsaINT0000028 @ hg19
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:7]
Coordinates
chr12:9251977-9253803:-
Coord C1 exon
chr12:9253740-9253803
Coord A exon
chr12:9252120-9253739
Coord C2 exon
chr12:9251977-9252119
Length
1620 bp
Sequences
Splice sites
5' ss Seq
ACAGTGAGT
5' ss Score
8.34
3' ss Seq
TCATTCTCTTTGTGCCCCAGTGA
3' ss Score
7.8
Exon sequences
Seq C1 exon
ATAATGGCAAAGGGAGGCATTGTCCGAACTGGGACTCATGGACTGCTTGTGAAGCAGGAAGACA
Seq A exon
GTGAGTATTTCCATCATCTCTGCATTGCTGCCCCATTCTGACCCATTCAGCCTTACACCACGGAAGTATCAGAATACTTTCCCTTTTTTTCCATAGGTTTTTGGGGGAACAGGTGGTGTTTGGTCACATGAATGAATAAATTCTTTGGTAGTGATTTCCGAGATTTTGGTGCACCCATCACCCGAGCAGTATACATTGTACCCAATTTGCAGTCTTTTATCCCTCACCCCCTTCCACCCTTCCCCCTGAATCCACAAAGTCCATTGTATCATTCTTATGCCTTTGCATCCTCATAACTTAGCTCCCACTTCCTAATAGCTTAGCTGCCACTTCCTAATAGCTTAGCTCCTACTTCTGAGTGAGAAGATATGATGTTTGGTTTTCCATTCCTGAGCTGGGAATATCAGGAATACTTTCAAGTAACGAGAGACCATTTCCATCTAATATTAATTAAAAGAAAGTTGAGGGAGGGAAAACAATAATGGTTTTTTTCTCACCCTTTATCAAATATGTGTTGTCTTTTTTTTCAGCCTATTTTCTTTGCGTTATTTAAAATATTGGTGTGGGCCAGCTATGATGGCTTACGCCTGTAATCCCAGTACTTTGGGAGAACGGGATGGGAGGATCTCTTGAGGTCAGGAGTTTGAGACCAGCCTGGTCAACATAGTGAGACCCCATCTCTATAAAAGTAAATAAATAAATAAATAAATAAATAAGAACAAAGGGGGAAAAATAAAATACATAAAATATTGTTGTGTATAATCTATGCTTATTCCAGATTTTTAAACCATAAATATTCTTGAACCTCTTCTCAAAATGAGAATTGTGTTAGAGAATGGGGTGGAGAAAATGTACGATTTCAAGGTATGTTGTATATACCAGGTCTTGTGCTGAGTCATTTATGTCATTTATATTATTATAAATATCTTTTTTCCCTTTCAAGATAGTTATGATTTATGAAGCATTAAATTGGGTACTTCTACCGACTGAAGCGGACTCTTGCCATGAGCAAATATGTCATAATATAAACCTTTGAAGGTTGCTCCTAGTCTAGTAGACTCTAAAAGATAACTTGCTAGAAAAGTATCAGTAATCTACTCTCTCATTAGTTCTTGTAGCAACACAGAAGCACCATAGCAGACTGAAGGAAACTTAATGCAACCTCTAAAGAATCTACATAGGCATCAAAAAATAACTTCTGAAGGAGCATGGTGTTCCTCTTATGGAGAAAGAACCAAATATTGGCTCATAGAAGGTTAAAGAGCATGTAGCATGAATACAATGTGTTGAACTCTTACTCTTACATCTCATAACTTCAGGTTCTATTTCCCTCTTCTAGTATGAGGCCTAGATCAAATGGTAGTGAATTGGATGTCTTCATACCCTTAACTAGCATCAGAACATTAGGTGGGTGAGCTGAAGCTTAAAGCTGGTGAAAAATCAACAGAGTATATGATTTATGAGAGGAGAGAGGGCTTTGATAGGGTTTTTTTCTAAAGCTAGAGTCCTTAGAGGTAATCATCCATTTGTTACATCTACTGTTTATTATGTCTGTTACATCTACTAATGGAAATAGTCATTAACCTATGATGGCTTCCTCTCATTCTCTTTGTGCCCCAG
Seq C2 exon
TGAAGGGCCATTTTTCCATCTCAATCCCTGTGAAGTCAGACATTGCTCCTGTCGCTCGGTTGCTCATCTATGCTGTTTTACCTACCGGGGACGTGATTGGGGATTCTGCAAAATATGATGTTGAAAATTGTCTGGCCAACAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899-A2M:NM_000014:13
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:
PF077039=A2M_N_2=FE(14.1=100)
A:
NA
C2:
PF077039=A2M_N_2=FE(31.5=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:
CAAAGGGAGGCATTGTCCGAA
R:
TGTTGGCCAGACAATTTTCAACA
Band lengths:
198-1818
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)