HsaINT0000027 @ hg38
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:HGNC:7]
Coordinates
chr12:9101144-9101674:-
Coord C1 exon
chr12:9101447-9101674
Coord A exon
chr12:9101208-9101446
Coord C2 exon
chr12:9101144-9101207
Length
239 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGA
5' ss Score
7.54
3' ss Seq
TTTTATTTCCTTTTTTGCAGATA
3' ss Score
11.72
Exon sequences
Seq C1 exon
GTCAATTACAAGGATCGTAGTCCCTGTTACGGCTACCAGTGGGTGTCAGAAGAACACGAAGAGGCACATCACACTGCTTATCTTGTGTTCTCCCCAAGCAAGAGCTTTGTCCACCTTGAGCCCATGTCTCATGAACTACCCTGTGGCCATACTCAGACAGTCCAGGCACATTATATTCTGAATGGAGGCACCCTGCTGGGGCTGAAGAAGCTCTCCTTCTATTATCTG
Seq A exon
GTGAGAAGGGAGGTTACTGCGTTGACTTCACTGTAGACAAAAGCTCTCTGTGGAGCAAGTAATCATGAAGCTCTTTAGATGTCATTACTTCAACTTCTTATCCATGTTCCTTTTGAAAGTTTGATTTCTCTTGAGGTGAATTATTGCCGGCAGGGACTCAATAAAACAAGTATATTGAAGTGAGACTGAAGCGTGTTCTCTCTGGCACATTTAATTTCTTTTTATTTCCTTTTTTGCAG
Seq C2 exon
ATAATGGCAAAGGGAGGCATTGTCCGAACTGGGACTCATGGACTGCTTGTGAAGCAGGAAGACA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899:ENST00000318602:12
Average complexity
IR
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=PU(26.2=51.3)
A:
NA
C2:
PF077039=A2M_N_2=FE(14.1=100)
Main Inclusion Isoform:
NA
Other Inclusion 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:
CAATTACAAGGATCGTAGTCCCTGT
R:
CACAAGCAGTCCATGAGTCCC
Band lengths:
277-516
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