HsaINT0000036 @ hg38
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:HGNC:7]
Coordinates
chr12:9089902-9090482:-
Coord C1 exon
chr12:9090356-9090482
Coord A exon
chr12:9090024-9090355
Coord C2 exon
chr12:9089902-9090023
Length
332 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGC
5' ss Score
7.96
3' ss Seq
CTACTGGCCTTTTTTTTCAGGAA
3' ss Score
10.27
Exon sequences
Seq C1 exon
GTCAGTGTGCAGCTGGAAGCCTCTCCCGCCTTCCTAGCTGTCCCAGTGGAGAAGGAACAAGCGCCTCACTGCATCTGTGCAAACGGGCGGCAAACTGTGTCCTGGGCAGTAACCCCAAAGTCATTAG
Seq A exon
GTGAGCAAAAAACTGCTAGAGATAATTCTCTACTCAAAGATTGTATATGGCAGTGGGAACCTTATATTGAGTGCTACTTCCTTCAGGAAAAGACCACTAGATGCTGCGATTTTTTTCCTTTGCCTTTTATTCTAAGATGCCTACAAGGATATCCTCAACATCTCCACCTTGAATTCTCAGTATCATTCACCTCTCATTTGCATGTTTCCGTTCCTGCTTCTGTGTTTTAATAAAACAAAAGTTTACAGAGCATTGAACATTTCTAAATCTTGAGTTTGGAGGCATGGAGGAAGGGGAAGATGCTATTCATTTCTACTGGCCTTTTTTTTCAG
Seq C2 exon
GAAATGTGAATTTCACTGTGAGCGCAGAGGCACTAGAGTCTCAAGAGCTGTGTGGGACTGAGGTGCCTTCAGTTCCTGAACACGGAAGGAAAGACACAGTCATCAAGCCTCTGTTGGTTGAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899:ENST00000318602:20
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=0.146
Domain overlap (PFAM):
C1:
PF0020717=A2M=PD(4.4=9.3)
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:
GTCAGTGTGCAGCTGGAAGC
R:
TCAACCAACAGAGGCTTGATGAC
Band lengths:
248-580
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