HsaINT0000067 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:9002756-9004608:+
Coord C1 exon
chr12:9002756-9002870
Coord A exon
chr12:9002871-9004379
Coord C2 exon
chr12:9004380-9004608
Length
1509 bp
Sequences
Splice sites
5' ss Seq
TGGGTAAGT
5' ss Score
10.24
3' ss Seq
TGGTCCTTGTGTTTTCACAGTAA
3' ss Score
6.8
Exon sequences
Seq C1 exon
CAGGCGGTGGTCATCCAGAGGCTTTTGAGTCATCAACTCCTTTACATCAAGCAGAGGATTCTCAGGTCCGCCAGTACTTCCCAGAGACCTGGCTCTGGGATCTGTTTCCTATTGG
Seq A exon
GTAAGTGATGACTCAAAAGTACAGTAAAGGGCCAGGTGCATGGCTCACGCCTGTAATCCCAACACTTTGGGAGGCTTAGGAGGGAGGATCACTTGAGACCAGGAGTTCAAGACCAGCCTGGGCAACATAATGAGCTTCTGTCTCTACAAAAGAAATTAAAAAAATAGCCAGATGGTAGTTGTGTCCTACTTGGAAGGCTGAGGTGGAAGGATCACTTGAGTCTGGGAGGTGGAGGCTGCAGTGAAGCAAGATCACATTGCTTCACTCCTGCTTGGGTGACAGAGCAAAACCCTTCTCAAAATCAACAACGACAACGACAACAACAAACCCAGAAAAAAAACAGTAAGATTCTGCAATGTAGAGCCTGTAGAAAACTCAGAATCAGACGCATTCCTAATGGATCTAAATCTTAAGCAAAGAAAGCTTGATGGGGTGTGGGAATTTATTTATTTTCCGGAATTCTTTTTTTCTTTTTATTTTTAAGACAGAGTCTTGCTCTGTCACCCAGGCTGGAGTGCAGTGGCATGATTTTGGCTCACTGTAGGCCTCAACCTCCTAGGTTCAAGCAATTCTTGTGCCTCAGCCTCCCAAGTAGCTGGGACTATAGGCACATGCCACCACACCTGGCTAAGTTTTGTATTTTTAGTAGAGGCAGGGTTTTGCTATGTTGGCCAGGCTAGTCTTGAACTCCTGGCCTCAAGTGATCCACCCGCCTTGGCCTCCCAAAGTGTTGGGATTACAGGTGTGAGCCACTGCGCCCGGCCTACCTGAATTCTTCATGCATTCATATACAACCACTCAAAACAAATCCACACAATTCCACACTCACACATTGCAGGCCCTGTGTTCTCACTACAGAACCACACACATTTAAAGGTATATATTGACATCAATTTTTGCTCACTGCTTGCATATCCATTTTGACAAGCCCTGAGACCACACATCCTCAGACTCAGAGGGCACCAGCCTCTCTGTCAGATGTGCTTGCACAGAGATGCCCACCCCGACTCCCCACCATAGTCCCCCTCCTCCGTATGAGTGCAGCCTCACTCACACTGAGACTCACCTGTTCAGTTGCCTCTTTACTTCTCCCCATACAATAACAATAACAATTTTACTTCTGCAGATGAATTTGTAGCTTTTTTTTTTTGGACAGGGTCTTGCCCTGTCACCCAGGCTGGAGTGCAGTGGTGCAATCATAGCTCACTGCAGCCTCAAACTCCTGGGCTCAAGCAATCCTCCTGCCTCAGCCTCCTAAGTAGCTGGGACTATAGGCATGCACCACCACACCTGGCTAATTTTTAAATTTTTGGTAGAAATAGGGTCTTGCTATGTTTCCCAGGCTGGCCTCAAACTGCTGGGCTGAAGCTATCTGCTCACCTCAGCCTCTCAAAGAGCTGGGATTACAAGTGTAAGCCAGCACACCCCACCGAATTTGTGGCTTAATTCACAAATGTTCTCCTTGCCCCACGCTACCTCTGCCTCATGTTGGTCCTTGTGTTTTCACAG
Seq C2 exon
TAACTCGGGGAAGGAGGCGGTCCACGTCACAGTTCCTGACGCCATCACCGAGTGGAAGGCGATGAGTTTCTGCACTTCCCAGTCAAGAGGCTTCGGGCTTTCACCCACTGTTGGACTAACTGCTTTCAAGCCGTTCTTTGTTGACCTGACTCTCCCTTACTCAGTAGTCCGTGGGGAATCCTTTCGTCTTACTGCCACCATCTTCAATTACCTAAAGGATTGCATCAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535-A2ML1:NM_144670:18
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.385 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0020717=A2M=PU(9.9=23.1)
A:
NA
C2:
PF0020717=A2M=FE(83.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGCGGTGGTCATCCAGAG
R:
CCTGATGCAATCCTTTAGGTAATTGA
Band lengths:
343-1852
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)