HsaINT0000070 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:9004806-9006845:+
Coord C1 exon
chr12:9004806-9004932
Coord A exon
chr12:9004933-9006723
Coord C2 exon
chr12:9006724-9006845
Length
1791 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGA
5' ss Score
8.91
3' ss Seq
TCCCTTCTTCTTTCTCTCAGGTC
3' ss Score
12.26
Exon sequences
Seq C1 exon
GTTCAGACTGACCTGGCTAAATCGCATGAGTACCAGCTAGAATCATGGGCAGATTCTCAGACCTCCAGTTGTCTCTGTGCTGATGACGCAAAAACCCACCACTGGAACATCACAGCTGTCAAATTGG
Seq A exon
GTAAGAGAGGGAAGTGGTAGACGGGCGAGGAAAGCCAGCAGCAGAAGACCAGTGACTGAGCACTCAGTCTTTTCCTCTGCCACATCTGCTTTGCTTCCTCCTCCATTTTCCACTATTTTTCTCCCTCCTAAGGCTGTTATAAGTCAATACACAAACACTCTTTGATAGGTGACCAAACAAATTTGTTCAAACCGGAATATTTTGAGTGTGAAAGGGAGAGCTTTTAATATTTATAGCTGGACAAGGAATACATGGTCATGTAACTAATCAAGGACTTACTATAAGAGTCCCTGGGCCAGGCACTATTCTAACTGCTTTACATATATTAACTCATTAAATTGATTGACTAATTAATTTTTATTTTATTTATTTATTTTTGAGAGGAAGTCTCGCTCTGTTGCGCAGGCTGGAGTGCAGTGGTGCAATCTGTGCTTACTGCAACCTCCACCTCCTGGGTTCAAGTGATTCTCCTGCCAAGCCTCCCAAGTAGCTAGGATTACAGTCGCGTGCCACCCTACCCGGCTAATTTTTGTACTTTTAGTAGAGGTGGGGTTTTGCCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGACCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCGCTGCGCCTGGCCTTTTATTTTTTTTTAGAGAGACAAGATCTTACTCTGTCACCTAAGCTGGAGTACAGTGGTGTGGTCATTGCTCACTGCAGCCTCAACCTCCCAGGCTCAAGCGATCCTCTCACCTAGGCCTCCGGAGTAGCTGGGACTATAGGCTCATGCCACCACCATGCCTGGCTAATTCAGTTGGCAGAGAAGCGGTCTTGCTCTGTTGCCCAGGCTGTTCTCAAACTCCTGGGTTCAAGTGATTCTCCCGCCTCACCCTTCCAAAGTACTGGGATTACAAGAATGAGTCACTGCACCTTTAACTTGTTTAATCCTCACCCCCAACCCTATGGGATGTCAGTCACTCATAGATTAAATCCTTGCAACTCAAAGTTTGATTTTCATATGTATGAGTTATCTCATGTTGCTTGACAAATTATTGTAAAACTTAAGTGTCATAAAAGGACAAACATTATCAAACAGATTCTATGGGTCATTAATCTGGGTGCAGCTTAGCTGGGTACCTCTGGCTCAAGGTATCTCATGAGGTTGCAATCAAGCTGTCAGTCAGGACTCTGGTTTCATCTGAAGACTCGACTAGGAGAGGATTGATTTTTCAAGCTCATCCCAAAGTCTCTGATCCTTACAGGCTGCTAGACTGAAGGACACAGTTCTTGACCTCAGCTTTTGGCTAGGGGCCTCACTCAGTATCTCATCACATGAATCTCTCTGCTGGGCTGCCTCATCACACAACAGCTGTCTTCCCCAGAGCAAGCAGTTTGAGAAAAGGGGTGCACCCAAGATGGAAGCTGCAGTCTTTTTTGTAACCTAATCCCAGAAGAGTCATTACTTTCACCCTGTTCTCTTTAACAGAAGCGAGTCACTCAATCCAGCTCACACTCAATGGATGTAAATATCAGGATGCAGGGATCTCTGAGGGCCCTTAGAGGTTACCTACCACACTGGACTAGCCTCTCTGGCATCACCTGGGAGCTTGTTAGAAATGCAGAATATGGGCCCCACCCCAGGTCTATGGCAGCAGAGTTTGCACTGTTGCAAGATCCCCATTAAAGTTTCAGAAATGCTGATCCAAATGGGAATGGACCTCACTGGTACCTCTGGCAATAGGGCTAATGGCTTCCCTTCTTCTTTCTCTCAG
Seq C2 exon
GTCACATTAACTTTACTATTAGTACAAAGATTCTGGACAGCAATGAACCATGTGGGGGCCAGAAGGGGTTTGTTCCCCAAAAGGGCCGAAGTGACACGCTCATCAAGCCAGTTCTCGTCAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535-A2ML1:NM_144670:20
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.024
Domain overlap (PFAM):
C1:
PF0020717=A2M=PD(4.4=9.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGACTGACCTGGCTAAATCGC
R:
TTTGACGAGAACTGGCTTGATGA
Band lengths:
246-2037
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)