HsaINT0000029 @ hg19
Intron Retention
Gene
ENSG00000175899 | A2M
Description
alpha-2-macroglobulin [Source:HGNC Symbol;Acc:7]
Coordinates
chr12:9251203-9252119:-
Coord C1 exon
chr12:9251977-9252119
Coord A exon
chr12:9251353-9251976
Coord C2 exon
chr12:9251203-9251352
Length
624 bp
Sequences
Splice sites
5' ss Seq
AAGGTGTGT
5' ss Score
6.64
3' ss Seq
CTTTTGTTCCAATTTCACAGGTG
3' ss Score
10.35
Exon sequences
Seq C1 exon
TGAAGGGCCATTTTTCCATCTCAATCCCTGTGAAGTCAGACATTGCTCCTGTCGCTCGGTTGCTCATCTATGCTGTTTTACCTACCGGGGACGTGATTGGGGATTCTGCAAAATATGATGTTGAAAATTGTCTGGCCAACAAG
Seq A exon
GTGTGTGTTTTAGATCATAAAATCTTCAACATGTAAAACTAGAAGTTACTATTGTTATCATTTGTTTTACACATGTGAACATTAGGGCCAAAAGGGTTAAACAAATTCCCCAGAGACATTCAGCAAGGTAGTGGCAGAGTCACACTAAGAAGCAGAATCACTTGATTCCTTATACAAAACTCTCAAACTTCTCCTAGCAGTGCCTCTTACCAATTACACAGTTCAGAGTATGTTATTCCCTTCTTCTATGATGAAACGTTGGGAAATATGTAAGCAAGTTTTTAAGACTACTAAGGAGCCAAAAGAAAAATGCAAGAGCACCTAGACCCATGCATGTCCCACCACAATTAATGAGCACCTTGCCGTGTATCAAAGATAAAAATGGCATTTCATGACTAGTAATTTATAAGAATAATTAGAAATAATTCTACTGGCTCAAGTGATTCTTGAGAATGAAAGAGAAGTGTAGGGAACAAAAAGCTTCAGGATTGACACAATGCCAACCCTCCACGAAGTCAAGCAGAGTGGTTATACATTGTACATGAGGAACACTCTGCAAATGCGAGTGAATGCATGGGTAAACCTGGAAATTTGCTTTTCTGACCTTTTGTTCCAATTTCACAG
Seq C2 exon
GTGGATTTGAGCTTCAGCCCATCACAAAGTCTCCCAGCCTCACACGCCCACCTGCGAGTCACAGCGGCTCCTCAGTCCGTCTGCGCCCTCCGTGCTGTGGACCAAAGCGTGCTGCTCATGAAGCCTGATGCTGAGCTCTCGGCGTCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000175899-A2M:NM_000014:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF077039=A2M_N_2=FE(31.5=100)
A:
NA
C2:
PF077039=A2M_N_2=PD(26.2=78.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGGGCCATTTTTCCATCTCA
R:
GCCGAGAGCTCAGCATCAG
Band lengths:
286-910
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)