HsaINT1003172 @ hg38
Intron Retention
Gene
ENSG00000204305 | AGER
Description
advanced glycosylation end-product specific receptor [Source:HGNC Symbol;Acc:HGNC:320]
Coordinates
chr6:32183324-32183750:-
Coord C1 exon
chr6:32183555-32183750
Coord A exon
chr6:32183389-32183554
Coord C2 exon
chr6:32183324-32183388
Length
166 bp
Sequences
Splice sites
5' ss Seq
ACCGTAAGA
5' ss Score
6.66
3' ss Seq
CTGGATTTTTCCTCCTTCAGAGA
3' ss Score
8.02
Exon sequences
Seq C1 exon
AACACAGGCCGGACAGAAGCTTGGAAGGTCCTGTCTCCCCAGGGAGGAGGCCCCTGGGACAGTGTGGCTCGTGTCCTTCCCAACGGCTCCCTCTTCCTTCCGGCTGTCGGGATCCAGGATGAGGGGATTTTCCGGTGCCAGGCAATGAACAGGAATGGAAAGGAGACCAAGTCCAACTACCGAGTCCGTGTCTACC
Seq A exon
GTAAGAATTCCAGGGTCTTCTCCAAGGCCTCCCTCTTACCTAAGAAAAAGCCTTCAACCCCAGCCTTGGCCCATGAGGGCCTCTGACTTCCACTGGCCTCATTTCCACACACAGAGTTTGAGAACCTTCACAATTACAGCCTCTGACTGGATTTTTCCTCCTTCAG
Seq C2 exon
AGATTCCTGGGAAGCCAGAAATTGTAGATTCTGCCTCTGAACTCACGGCTGGTGTTCCCAATAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000204305:ENST00000375076:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.107 A=NA C2=0.446
Domain overlap (PFAM):
C1:
PF138951=Ig_2=PD(63.0=95.5)
A:
NA
C2:
PF138951=Ig_2=PD(3.0=7.7),PF082057=C2-set_2=PU(16.7=41.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Conservation
Chicken
(galGal4)
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:
CGGACAGAAGCTTGGAAGGTC
R:
GAACACCAGCCGTGAGTTCAG
Band lengths:
244-410
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains