HsaINT0000063 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:8998673-9000294:+
Coord C1 exon
chr12:8998673-8998818
Coord A exon
chr12:8998819-9000144
Coord C2 exon
chr12:9000145-9000294
Length
1326 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAA
5' ss Score
8.59
3' ss Seq
TATACCTTTCCCTTCCCCAGGTT
3' ss Score
11.04
Exon sequences
Seq C1 exon
GACTGAAAGCCTCCTTCTCTCTCTCACTGACCTTCACTTCGAGACTGGCCCCTGATCCTTCCCTGGTGATCTATGCCATTTTTCCCAGTGGAGGTGTTGTAGCTGACAAAATTCAGTTCTCAGTCGAGATGTGCTTTGACAATCAG
Seq A exon
GTAAAATGATAGCGGAGAAGGGTGAAGATAAAAGTTGGGCATAGAGAAAGATCTTGTGTGTGCTGCGGTTGGAAACAAGACAAGTCAGGGAAAGAAGATAGTGTTGACGTTGGATGTTGTATTATATTTATATCTTTAGTGTTTGGGGTTTGTGTTGAAATCCATCTCTCTCCTACTTTTTATTTTAAGAAGTCATGCTGGCTGAGGTGCAGTGGCTCACTCCTGTAATCCCAGTGCTTTGGGAGGCCAAGGCAGAGGGATTTCTTTAGGTCAAGGGTTCAAGACCAGCCTGGACAACATAGCAAGATCCTGTCTGTACAAAAAAATTTTTAATTAGCTGGGTGTGCAGCACTTTGGGAGGCCGAGGTGGGTGGATCACCTGATGCTAGGAGTTCAAGACCAGCCTGGTGAAACCGTGTCTCTACTAAAAATACAAAAATTAGCCAAGCATGGTGGTGGATGCCTGCAATCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCATGAACCCAGGAGACGGAGGTTGCAGTGAGCAAAGAACACACCATTACACTCCAGCCTGAGTGACAGAGTGAGACTCTGTCTCAAAAAAAAAAAAAAAAATTAGTTGAGTGTGGTGATGCATACCTGTAGTCCCAGCTAGTCGGAAGGCTGAAGCAGGTGTATCGCTTGAGCCCAGGAGTTCAAGGCTGCAGAGCGAGACCCTGTCTATTTTTTTTATTTTTTATAGACAGAGCTTTCCTCTTGTTGCCCAGGCTGGAGTGCAATGGTGCGATCTCGGCTCACTGCAACCTCTGCCTCCTGGGTTCAAGTGATTCTCTTGCCTCAGACTCCCGAGTAGCTGGGATTACAAGTATGCACCACCATGCCTGGCTTTTTTTTTTTTTTTTTTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTTAGCCAGGCTGGTCTTGAACTCCTGACCTCAGGTCATCCACCTGCCTTGGCCTCCCAATGTGCTGGGATTACAGGCATGACCCTGTCTCTATTAAAAAAAAAAAAAAAAAAAGCCATACTGGGAAGCCACATGTTCTATATAGTTATTCCACATGTTCTCTCTACTTTTTGTCTTCTAAACTTTCTCTATCCTTCTACTGTGCTGCTCACGTTTCCCAACTCTATCACGGCATACACGTCCTGAAGAGCTAGACTTTACAAAGAAAGATAAGTACAAAAGTGAAAGAATGGGTTGGATGTCATAGCTGGGGCATATTTGCTGATGACCCAAATTATGTTGTTTCCCTTCCTTTCCAGGCTGACCTGATCCCCAAGTTATACCTTTCCCTTCCCCAG
Seq C2 exon
GTTTCCCTTGGCTTCTCCCCCTCCCAGCAGCTTCCAGGAGCAGAAGTGGAGCTGCAGCTGCAGGCAGCTCCCGGATCCCTGTGTGCGCTCCGGGCGGTGGATGAGAGTGTCTTACTGCTTAGGCCAGACAGAGAGCTGAGCAACCGCTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535-A2ML1:NM_144670:14
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=0.000
Domain overlap (PFAM):
C1:
PF077039=A2M_N_2=FE(32.2=100)
A:
NA
C2:
PF077039=A2M_N_2=PD(26.2=78.0)
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:
AAAGCCTCCTTCTCTCTCTCACT
R:
GGTTGCTCAGCTCTCTGTCTG
Band lengths:
286-1612
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)