HsaINT0000069 @ hg38
Intron Retention
Gene
ENSG00000166535 | A2ML1
Description
alpha-2-macroglobulin like 1 [Source:HGNC Symbol;Acc:HGNC:23336]
Coordinates
chr12:8823182-8823882:+
Coord C1 exon
chr12:8823182-8823365
Coord A exon
chr12:8823366-8823719
Coord C2 exon
chr12:8823720-8823882
Length
354 bp
Sequences
Splice sites
5' ss Seq
CTTGTAAGC
5' ss Score
4.33
3' ss Seq
AAGTCCCCTTTCTTGGTCAGGTA
3' ss Score
5.73
Exon sequences
Seq C1 exon
AAACTACCTGGTGACATTACCAGCCCGGCTAAATTTCCCCTCCGTTCAGAAGGTTTGTTTGGACCTGAGCCCTGGGTACAGTGATGTTAAATTCACGGTTACTCTGGAGACCAAGGACAAGACCCAGAAGTTGCTAGAATACTCTGGACTGAAGAAGAGGCACTTACATTGTATCTCCTTTCTT
Seq A exon
GTAAGCACAGACTCAGCCCTCACTCGAATCCCTTACTTGCCTATTCTCCTCCCTAGGCTCACTATAATCTACTTTAAGTATAATTTCTGTTATCTTTTGCCACGGCCTCTAAACCTATTTTTTCTCAACTTAACCTCAATCCCCGGCTATAACTCACCCACGGTTTCCTCGACCTAGGATTTCTCCCTTTAGTTCCTGACCTTAATTCTTCCTCGTGGTAATTTGTTTTATGTCTCTATCCTTGCTACCCCCATCTAACTCAGCTCTTTCCTTTAACTCACTGTTGGGTTGAGACCAGTTGATTCTGTTCCCCCAATCCCTTACCCCTCCCCAGAAGTCCCCTTTCTTGGTCAG
Seq C2 exon
GTACCACCTCCTGCTGGTGGCACAGAAGAAGTGGCCACAATCCGGGTGTCGGGAGTTGGAAATAACATCAGCTTTGAGGAGAAGAAAAAGGTTCTAATTCAGAGGCAGGGGAACGGCACCTTTGTACAGACTGACAAACCTCTCTACACCCCAGGGCAGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000166535:ENST00000299698:2
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=0.041
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0183514=A2M_N=PU(13.6=29.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
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:
TGACATTACCAGCCCGGCTAA
R:
CTTGCTGCCCTGGGGTGTAG
Band lengths:
336-690
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