HsaINT0000090 @ hg38
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr12:8836255-8837566:+
Coord C1 exon
chr12:8836255-8836339
Coord A exon
chr12:8836340-8837439
Coord C2 exon
chr12:8837440-8837566
Length
1100 bp
Sequences
Splice sites
5' ss Seq
TAGGTAAGA
5' ss Score
9.14
3' ss Seq
CTTATGCTTTTCTTGGTTAGGTA
3' ss Score
7.82
Exon sequences
Seq C1 exon
TGCTGCCGAAGTTTAAGGTGGAAGTGGTGGAACCCAAGGAGTTATCAACGGTGCAGGAATCTTTCTTAGTAAAAATTTGTTGTAG
Seq A exon
GTAAGAGCAGAAGCTTGGGATCTGGTGGAGATTAAAGATGCATCGAGAGACATGATGAGGGGATGACATGGGATGTGGGATTATGGGTGGGCCAAAACTTGGGGCATTTTATGTAATTCAGAGTCATGGCTTATCCAAGACCTTTTTTTTTTTTTTTTTTTGAGACAAAGTCTCACTCTTGTTTCCCAGGCTGGAGTGCAATCACGTGATCTCGGCTCACTGCAACCTCCGCCTCATGGGTTCAAGCGATTCTCCTGCCTCAACCTCTAGAGTAGCTGGGATCACAGGCGCGCGCCACCATGCCTGGCTAATGTTTGTATTTTTAGTAGAGATGGGATTTCGCCGTGTTGGCCAGGCTGGTCTCGGACTCCTGACCTCAGGTGATCCGCCCACCTTGGCCTCCCAAAGTGTTGGATTACAGACGTGAGCCACCGCGCCCAGCCAAGAACATATTTTATAGTTGTGTTTCTGCTGTTTTTTTCCATTGCTCACTCAGATAGTATTATTGATTTAGTCTTTACAAGACACAATATTGAATCCCATAGATAAATATGGATCAGGAGAAAGAAAGATACTGTTTCCGTCCTTAGTATGGTGCTAATTGTGGAAGTGGGTCTACTCTAAGACTCTGAGTAAAGTAGGGAAGGGGAAGAGAGCTAGAGAAAGGTAGGATTGTCAGAGCTTGCTTTCTTCTTTTTTTTGAGACAGAGTCTCTGTCACGCAGGCTGGGGTGCAGTGGGGAGATCTCAGCTCACTGCAACCTCTGTCTCCCAGGTTCAAGCGATTCTCCTGCCTCTTCCTCCCGGAGAAGCTGGGATTACAGGTGTGAGCCACCATGCCCAGCAAATTTTTGTATTTTTAGTAGAGACAGGATCTTGCCATGTTGCCTAGGCTGGTCTTGAACCCCTGGCCTCAAGTAATACACCTGTCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCACTGGCCCAGATTGTCAGAGCTTTCTTTCAGAGGCTGGAGTGTGAGAGGGAAGAAGTGGTGTTTGAGGGAAGAGTTGGATCTCAAGTGGAATTTCCCAACTCTGACTCCTTATGCTTTTCTTGGTTAG
Seq C2 exon
GTACACCTATGGAAAGCCCATGCTAGGGGCAGTGCAGGTATCTGTGTGTCAGAAGGCAAATACTTACTGGTATCGAGAGGTGGAACGGGAACAGCTTCCTGACAAATGCAGGAACCTCTCTGGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535:ENST00000299698:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.070
Domain overlap (PFAM):
C1:
PF0183514=A2M_N=PD(19.5=79.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
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:
GCTGCCGAAGTTTAAGGTGGA
R:
TGTCCAGAGAGGTTCCTGCAT
Band lengths:
210-1310
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