HsaINT0000046 @ hg19
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:7]
Coordinates
chr12:9264755-9265132:-
Coord C1 exon
chr12:9264973-9265132
Coord A exon
chr12:9264808-9264972
Coord C2 exon
chr12:9264755-9264807
Length
165 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGA
5' ss Score
9.46
3' ss Seq
GAAAAATATTTCTGTTTCAGTGA
3' ss Score
7.08
Exon sequences
Seq C1 exon
GTCCCAAAGTCTTCATCCAATGAGGAGGTAATGTTCCTCACTGTCCAAGTGAAAGGACCAACCCAAGAATTTAAGAAGCGGACCACAGTGATGGTTAAGAACGAGGACAGTCTGGTCTTTGTCCAGACAGACAAATCAATCTACAAACCAGGGCAGACAG
Seq A exon
GTATGAAGAAGCCTACAGACAGGACAACTTCAAAAAGGAAAGATCTTCTTCCCCTGGATGTTCCCCAGGCAAAGTTCCTATAATCTTGGTTCCTTAATAGCTTGTCTTACCAGCCTACAGGCCTACTTTGGGTTTGGGGGCTCATGAAAAATATTTCTGTTTCAG
Seq C2 exon
TGAAATTTCGTGTTGTCTCCATGGATGAAAACTTTCACCCCCTGAATGAGTTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899-A2M:NM_000014:3
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.009 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=PU(17.0=29.6)
A:
NA
C2:
PF0183514=A2M_N=FE(18.1=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:
TCCCAAAGTCTTCATCCAATGAGG
R:
TTCAGGGGGTGAAAGTTTTCA
Band lengths:
205-370
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)