HsaINT0000034 @ hg38
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:HGNC:7]
Coordinates
chr12:9090356-9091429:-
Coord C1 exon
chr12:9091201-9091429
Coord A exon
chr12:9090483-9091200
Coord C2 exon
chr12:9090356-9090482
Length
718 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGG
5' ss Score
10.17
3' ss Seq
TTTCTTATGTGTGGTTTCAGGTC
3' ss Score
10.69
Exon sequences
Seq C1 exon
CTCAGCAGGTGTGGCTGAGGTAGGAGTAACAGTCCCTGACACCATCACCGAGTGGAAGGCAGGGGCCTTCTGCCTGTCTGAAGATGCTGGACTTGGTATCTCTTCCACTGCCTCTCTCCGAGCCTTCCAGCCCTTCTTTGTGGAGCTCACAATGCCTTACTCTGTGATTCGTGGAGAGGCCTTCACACTCAAGGCCACGGTCCTAAACTACCTTCCCAAATGCATCCGG
Seq A exon
GTAAGGATCTCTTTCCTAAATTAAATACAAGGTAGCCATCAAGTAAATTAAAAGTTGCATTCCTAGGAATACTGCAAACTCTTGTATGCAAAATATGCTTACTAGATATTCATGATTGTAAAAGTTACAGGTTTTGAGATCTCCAAATACCAAATTGCACCATAAAGCAAGTTTCTAGCCCTTATAACCCTTCAAAGTTAGTATTTGTGTGGTATGAAGAATTCTGACAGGGGTGACAAAAGTCAGTACTCTATTCTCATGACAGATTCTACAAGGTTTCAACCTCTACGATCTCATATATTTAACTTTTCGTAGCTCATTCATTATATTAAACCTAATTTTAAAAGTCGTTTGTGAGCATCTTACCTTTGCTGAAACCATAACTGTTTATAAGTCTTGTATCCTCTGCCGGGAGATCCGGGGGAATGGTCAAAGTTCCAGACCAAAGAGGTAGAGCAGCATGCCATCATTACCTTTCCCTTCCTCTGGTCCCATCATGTGAAAGAGCAGGTTGCTTCCAAAATAACTCAGATTTACCTGTGTAAATCTGATACATTAAGATCCACTTAAATATATTTCAGGTACTTGATCTTCATTTATATCATCTTTAATGTGAGGCAACCTGAAATCTAACCAATTCCTCAAGATGCTTTACTTCAAACCCATTCTCCCTCTGTTCTCCTTCCCTCTCTACTCCCTTTCTTATGTGTGGTTTCAG
Seq C2 exon
GTCAGTGTGCAGCTGGAAGCCTCTCCCGCCTTCCTAGCTGTCCCAGTGGAGAAGGAACAAGCGCCTCACTGCATCTGTGCAAACGGGCGGCAAACTGTGTCCTGGGCAGTAACCCCAAAGTCATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899:ENST00000318602:19
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:
PF0020717=A2M=FE(83.5=100)
A:
NA
C2:
PF0020717=A2M=PD(4.4=9.3)
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:
GGTGTGGCTGAGGTAGGAGTA
R:
AATGACTTTGGGGTTACTGCC
Band lengths:
347-1065
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