HsaINT0005697 @ hg38
Intron Retention
Gene
ENSG00000188157 | AGRN
Description
agrin [Source:HGNC Symbol;Acc:HGNC:329]
Coordinates
chr1:1050233-1050591:+
Coord C1 exon
chr1:1050233-1050329
Coord A exon
chr1:1050330-1050426
Coord C2 exon
chr1:1050427-1050591
Length
97 bp
Sequences
Splice sites
5' ss Seq
GGGGTCGGT
5' ss Score
0.09
3' ss Seq
CCGACTCCCCATGACCCCAGGGA
3' ss Score
5.93
Exon sequences
Seq C1 exon
CCTCGGGGCAGGACGGCTCTGGGCCCTTCCTGGCTGACTTCAACGGCTTCTCCCACCTGGAGCTGAGAGGCCTGCACACCTTTGCACGGGACCTGGG
Seq A exon
GTCGGTGGGGCAGGAGCAGGGGGAAGGGCCGGCCCCCACCTCCGTCTCTCCTGTGGGGAGGGGACAGCAAAGACACCCCGACTCCCCATGACCCCAG
Seq C2 exon
GGAGAAGATGGCGCTGGAGGTCGTGTTCCTGGCACGAGGCCCCAGCGGCCTCCTGCTCTACAACGGGCAGAAGACGGACGGCAAGGGGGACTTCGTGTCGCTGGCACTGCGGGACCGCCGCCTGGAGTTCCGCTACGACCTGGGCAAGGGGGCAGCGGTCATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000188157:ENST00000379370:28
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=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0005418=Laminin_G_1=PU(34.8=82.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCTTCCTGGCTGACTTCAAC
R:
GACACGAAGTCCCCCTTGC
Band lengths:
173-270
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