HsaINT0000060 @ hg19
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin-like 1 [Source:HGNC Symbol;Acc:23336]
Coordinates
chr12:8993965-8995957:+
Coord C1 exon
chr12:8993965-8994132
Coord A exon
chr12:8994133-8995729
Coord C2 exon
chr12:8995730-8995957
Length
1597 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGC
5' ss Score
9.85
3' ss Seq
TCTCTCTCTTTTATTCTCAGGGA
3' ss Score
10.56
Exon sequences
Seq C1 exon
ATAAGAGTTAGGGGCCATGATGACTCCTTCCTCAAGAACCATCTAGTGTTTCTGGTGATTTATGGCACAAATGGAACCTTCAACCAGACCCTGGTTACTGATAACAATGGCCTAGCTCCCTTTACCTTGGAGACATCCGGTTGGAATGGGACAGACGTTTCTCTGGAG
Seq A exon
GTAAGCATGGACGGAGGACCAGCTTCCTAGAAAGGAAGGCTTCCCTGAAGGAAAACTTCAGAATTTTCCTGTTTCCTATTCTCCCCTCTGCTTGGAATTACATCTTTCTCACTCACAAGTCCTGCTCTCCCGTTGACAAAAAGTTTTCCTTAGATGCTTTCTGTTTTTAATATCAATCAAATAAATAGTCCTTACTTGGATGAAAACTACTATTTCTACTAATACATCTTTTAACTTACCCCCATCTCTATCTGATCCTATCTATATATGAAGTTAGAGCAGGGAGGAATAGGTGACTCAGAGTCTTTTTCTTTCTCTTTCCCCTTCCCATCCCCTCATTACTTAATAAAAACAGCAAACAAGAGAACTCTAGATTCTAGATAACTTATAAGTATCAATTATCAACTGCCACAACAATGCTTCTTATCAAACAGCTACAAACTTCAGTATCGTGCAGCAGAAAGCATTCACTGCTTGTGCATCTGGGGCATTCAGTCAGGCAGCTCTGCTGATTTCGATTTCCAGAACTGTCTGCAGATCGGCTGGCCATAAGCTGCTGCTCCGCATGCCTCTCATGCAGGAGCCAGCTAGCCCAGGTATATTCTTATGGCAGTGATGAGGTGCAAGTGCAAAAGCTGATGTTCAGGGCTTTTCCAAACCTCTGTATATTGCATATGTTTTTTTCTTTTTTTTTTTTTTGAGACAGAGTCTCACTCTGTCACCCAGGCTGGAGTGCAGTGGCGTGATCTCGGCTCACTGCAAGCTCCGCCTCCCCGGTTCACGCCATTCTCCTGCCTCAGCCTCCCCGAGTAGCTGGGACTACAGGCGCCTGCCACCACGCCCGGCTAATTTTTTGTATTTTTTAGTAGAGATGGGGTTTCACTGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCGCCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCCCTGTTGCATATGTTAACACCCCTTTCCCAACAAATCGAACAGTGGGCACAGACTAGGAGGGTACTGGAAGACCACATGCTCAAGGATGCTGATCTCGGAGGGGGCGGGGTGCGTGTGAGGAATTGGAGCCATTAATGAGATCGTTCAACCTCAGGACTTAAGCAAACACATACTACTTGCCTTGTGGCTAATTTGACTATTTCTTTACTCTAGGCATGACTCAGTTACTCAGAAATAATTATTTTTCAATCTTAGTGTCTTCTGTGCCTAGTTTTCTTATCCCTGAAATATAATCTTTGATTTCTATATAATCTAAGTCACGTTCATCTATCCCAGGAATATCTGTGAAGATACATCACCCACAATTTCCTCTCATTTAGTAACTATAATTCAGCCCTTCTGTCGCTCTCCTACATACCAAAATATTGCTGTACACAGCTACGTTTATGGATTCTTTATCCATCCTTGGCTGGACCGCTAATGAAATACCCACATGCCATTCTCAGGCAGTGAAGATTTGAGAGAAAGAGCTCTATTTGAAAACCGTAACAAGTCCGTGGGGTTTCCATGGTTGGAGCACATGCTAAAATTCTCTCTCTCTCTTTTATTCTCAG
Seq C2 exon
GGAAAGTTTCAAATGGAAGACTTAGTATATAATCCGGAACAAGTGCCACGTTACTACCAAAATGCCTACCTGCACCTGCGACCCTTCTACAGCACAACCCGCAGCTTCCTTGGCATCCACCGGCTAAACGGCCCCTTGAAATGTGGCCAGCCCCAGGAAGTGCTGGTGGATTATTACATCGACCCGGCCGATGCAAGCCCTGACCAAGAGATCAGCTTCTCCTACTAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535-A2ML1:NM_144670:11
Average complexity
IR-C
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:
PF106704=DUF4198=FE(85.9=100)
A:
NA
C2:
PF106704=DUF4198=PD(3.1=2.6),PF077039=A2M_N_2=PU(26.2=51.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGCCATGATGACTCCTTCCT
R:
ATCGGCCGGGTCGATGTAATA
Band lengths:
349-1946
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)