HsaINT0179358 @ hg19
Intron Retention
Gene
ENSG00000148429 | USP6NL
Description
USP6 N-terminal like [Source:HGNC Symbol;Acc:16858]
Coordinates
chr10:11531101-11532879:-
Coord C1 exon
chr10:11532831-11532879
Coord A exon
chr10:11531222-11532830
Coord C2 exon
chr10:11531101-11531221
Length
1609 bp
Sequences
Splice sites
5' ss Seq
ACGGTAAGT
5' ss Score
11.81
3' ss Seq
TGTTCCCCTTTGCTCCCCAGGAA
3' ss Score
10.59
Exon sequences
Seq C1 exon
GCAACAATCCTTATTCCATGTGCTTGCTGCCTATTCTATTTATAACACG
Seq A exon
GTAAGTTGGGGCCTGCCTGCCCAAGGTCTTTGAGTTGTATTCTGAGGTACTCCCTACTTAGCAGGGCCCTGTGGGCACATTTCTGCATCTCAGAGCTAGGTGGTCTCCATGGTCTCTTTAGCTCTGTGGATCTTTTTAAGCTGAAACCCTGTGATAACCCTAGGGCCTTAGAACAGAGCTGATTCTGAAGTGGAAGAACCTAAATATGACCACAGTATGCCAGTGAGTCTCACCTTTTCTCTCTCCCTCCATATTGTTTTGCTTTGTAATGTTTTGTGTTGTTTTGTTTTTATTTTTAAGCAGATATACAGGGTAGAAGGACAGGAAGTGGGTGGCTTGGTTAATTTTTGCTTGACTTTTTATAACTCTCTTTGCTCTTGGGAGGTTACTTTTCACAATCACATTTATCTATTAGGTGAGGTCCAAACAAGATAACTATGCCCTTACTGGCTATCCCCAGGAGGAGGCTAAACTCTTCGGTAATAGACATGCTCTTCTTAAGGCATTCAGCATTGTTGGGGGAGAAGATAATCTGGGATAGATTAATTTGTGTTGGACTTAATGTGGGTGTTAAATGAATACTTGTTGACTAGGTCCCAGGGAGGACCTTTGAACCTTGGGATGTATAATTTCTATTGTAGTTAAAACCTTTAAATTATAAGAACAGAAATTCGCTCAAACTAGGAAAAGTTAAAAAGGGGTTTTTAAAGGGACATCTCATAGGAAGGAAGCACTAGTTGGGCCTCACCGGAATTGGAGCTGGAAGGTGGGAAGCGTCTGGTGAGAAGGAAAGCTGCACCTTCCATCTCTCCCATTCTGGGGGCCACTCAGTATCTCAGATGATCTCTGTGAACTGTTCAGTTCACTGTTTCTCTCTCCAGATTGCTTCCTTTGCCTACTGGCCAGTTATACTGCGGCTCAGATTGCACCCACAGATTCATTGTGAGCATTCTGTTCCAGTACGTACCCCCATCTGATTACAGTCTCTGGCTTTGTTCACATTTCATAGAGACAGTGTCTGATGAGTCAGTGCAACCAAATAACTGTTCCCCTGGGGTCAGCTGTCCTCTTCTGGTCCATTAGCTGTGGTTCCTGTGGCACAAGCATGAATCCTTAAGGCCACATCATAAGCAGGGACTATGGGGAGAGTGGGTATTTCTTAGAGAGGAGGCATAGACTGTGCATGGGCATCCCAAGATGTGTCTGCTTAAGGGTTCAGAAATCTAGAGGAGACAAGACAGCATACTGGGTGTTGTAGAAGGGGAGACTTTGCCAGCAACTGAGCAAAGAAGAGGAATAGTGAGCTAAGAATCATACATAAAGTGAAATAAATATTATCACTCTTTAAAGAAAGTGTGACAGTATTGAAGACCGAGTCCAATAAAAATATGTAGCAATTTAGACTTTGTACCTGTGCATTTATTTTTTAGCACAATTTTATTCTCTTATGTGGCATAATACTGTAAAGAGTATAGTATTTGTCTCTAGAATGGACCATTAAATGATGTGTGTAGGCATTTTCTGGTTTTTATAGAGTAGCTTTTTCTCTGTACATATGCATGTAATTCGACTGAACTCCCCAGCTTCTGTGTTCCCCTTTGCTCCCCAG
Seq C2 exon
GAAGTCGGGTATTGTCAGGGGATGAGCCAGATCACAGCTTTACTCCTCATGTATATGAACGAGGAAGATGCCTTCTGGGCCCTGGTCAAACTCTTCTCAGGCCCTAAACATGCCATGCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148429-USP6NL:NM_001080491:8
Average complexity
IR-S
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:
PF0056613=RabGAP-TBC=FE(19.5=100)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(19.0=100)
Main Inclusion Isoform:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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
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)