HsaINT0083903 @ hg19
Intron Retention
Gene
ENSG00000173801 | JUP
Description
junction plakoglobin [Source:HGNC Symbol;Acc:6207]
Coordinates
chr17:39910859-39912147:-
Coord C1 exon
chr17:39911982-39912147
Coord A exon
chr17:39911685-39911981
Coord C2 exon
chr17:39910859-39911684
Length
297 bp
Sequences
Splice sites
5' ss Seq
CCAGTACGG
5' ss Score
3.83
3' ss Seq
TGTCCCCGCTCCCCTAACAGGTG
3' ss Score
13.1
Exon sequences
Seq C1 exon
ACATGGATGCCACCTACCGCCCCATGTACTCCAGCGATGTGCCCCTTGACCCGCTGGAGATGCACATGGACATGGATGGAGACTACCCCATCGACACCTACAGCGACGGCCTCAGGCCCCCGTACCCCACTGCAGACCACATGCTGGCCTAGGCGGCCTGGCCCCA
Seq A exon
GTACGGCCCCCTCTTTGCAGGCTTTTCCTCCTCTCTAGAACCTCCTTCTGTTGGAGGCCCTCCCATCTCCCCGCTGAAACCTGCGCTCCTTTTTTGGGGGGATCCTTTGCTGCTGAGCTTCCCCAAGCACGGTGTGCCCTGGCCTGCCTTCTTCTTGTGTCTTTGGTGGGGATGGGGAGGCCTATTCCTGCTGGCCCCTTCTGGGGGTGGTGGGCAGGTGACACGGAGTGGCTTGAGCTTCTGGGGATGCAGGTCCACCGAGCCCCTGACCCCTGTCTGTCCCCGCTCCCCTAACAG
Seq C2 exon
GTGCGGTTCCTCATCTGAGAGGCTCTCCGTGCAGGCGATGGGGCAAGACAGAAAAGTGCCTGAGCTGGGGAAGCCGGGGTGTAACTTCCTGCTGCACCCTGCGCCTCCAGAGGTCCTCCGTAGGGTCTTTCTTGGGATAGTGTTCTGCTCCTGCTTTTCTGTCCTGGGCATGGGTCCAGGGCCTGACACCCCCTCCCCGCCCCTGTGGCCCTGGCCACTAAAGCTTCAGACTCAAGTACCCATTCTGTTTTCCCCCAGCAACGCCCCTCCAAACCTCCAGCCTCCCTGTCTCCAGCTGCCTGGGCCCGGAAGGGCTTTGGTTCCTTCTCTGGGTCTGATTTTCTCACTGAACTCCACCGACCAACTGCCCTAAGCCCCCAGGGCCTCCAGGGCCCAGGTTCGAGACCCAAACCCCCAAAATCCAAAACTTCTCTTGAAAAGTTCAGGGACCGTCCAGGGGAGATGGGGAGGAGATATGGAGTGAGTCACCTGCTCCAGAAGATGCCAGCTTCTCTCTCCAGGGTGCTTAGTTGGCTTTGCCCACCCCTCACTCCCCAGGGAGCTCTGGGGACAGCTTCCTCACACCCCTGTCCCACCCACACAGCTGCCCTAGCTGACCCCGAGAAGTGCTCTTGGCTGACCCCTCTGGTGTGTGGTGAGGGGCTTTCTCTTCCCCTTCCTGTTTCAGACCCCCCCATTTCCCGCACATGGTGTGGGGGGCTGGGGGAGGTCCAAGCAGAGTGTTTTATTATTATCGCTTTATGTTTTTGGTTATTGGTTTTTTTGTATAGACCAAAGCAAAGAAAATAAAAATAACACAGATGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000173801-JUP:NM_021991:14
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
3' UTR
No structure available
Features
Disorder rate (Iupred):
C1=0.280 A=NA C2=NA
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCATGTACTCCAGCGATGTG
R:
GCAGGAGCAGAACACTATCCC
Band lengths:
300-597
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)