HsaINT0179356 @ hg19
Intron Retention
Gene
ENSG00000148429 | USP6NL
Description
USP6 N-terminal like [Source:HGNC Symbol;Acc:16858]
Coordinates
chr10:11535118-11543207:-
Coord C1 exon
chr10:11543100-11543207
Coord A exon
chr10:11535228-11543099
Coord C2 exon
chr10:11535118-11535227
Length
7872 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
TTCTCTCTTTCTCTCTTCAGAAA
3' ss Score
12.22
Exon sequences
Seq C1 exon
TTTCATAGGCGAATTTACAAAGGAATACCACTCCAGCTCAGAGGTGAAGTCTGGGCCCTCCTTCTTGAGATCCCTAAAATGAAAGAAGAAACAAGGGACCTGTATAGT
Seq A exon
GTGAGTAGCTAAAGCTAACTTGTTATTTTGAAATTAAAAAGTAAAATCCATTTCTTTTAGCATTCAAGGTGACATAAGATATTCATATGATCACTTAAAATTATATTAAAATTCTATCGCATTGGAGGTTTTGGAGGTCTATTTGTTTTCTTGATTGCAAAAATACTTCTTAAATTTTAAATAGATACTTCAGTAAAAATGTTATTGTCTGTATCAATAAGTATGAAGTGCTTTTCAAATACATAAATGATCAATTAAAGTAATTAGATGATCAATGTTAGGACGTGGTTGCATGGAAAATGGACTAACACCTAATTATAGCTGCTTGTTTGCCACATGGTGTTAATGGAGAGATTTGTGGTATCACTTTGAGAGTTCGTGGGAAACAGCAGCAGAATTCAGTTTAACCAACACCTGCTGTGTATGATTCTTTTCTTCTAGCATGAAAAAAAAGATGACTTTGCCCCAAGATTATTAGGGTATCTCTAGGTTTTATTATTTATTAATAAAAAGTTAAACTTTTGACTGAGTAATAATTTTTTTCTTAAATTAGGTGCTTTAAATGTATCTCCTTGTCATCTCGTAGCTATACCCTTTCTGAACCTAAATTTTCTATTAACCTTTGAAAGGAGTAAGAGATTTACATCTAAGAATCTTAGACCCATAGATTTTGAAATATGTTCCTTAGAAAATATGTACAAAAAAATTAATGTGGAATAAATGGGAAAAAATAAAAATTGCTGTTTTTTTTTTCTTCAACTTTTATTTTAAGTTCAGGGGTACACATGTGCAGGACGTGCAGATTTGTTACATAGGTAAATGTGTGCCATGCCATGGTGGTTTGCTGCATAGATCATCCCATCACCTAGGTATTAAGCCTTAGCACTCATTGGCTATTCTTCCTGATGCTCTCCCTCCCACCTCCACCCCTTGCTGACAGGCCCCACTATGTTTTGTTCCTCATCATGTGCCCGTATAGTCTCATTATTCAGCTCCCACTTATAAGTGAGAACATGCATTATTTGGTTTTCTGTTCTTGCGTTAGTTTGCTGAGGATAATGGCTTCCAACTCCATCCATGTCCTGGCAAAGGACATGATGTCTGAGAGAACATAATATGAAATATAACCCCAGCACCTAGTACAGTGTGCCTAGCATATGGTAGGTGCTCTGTTAGTATTTGTTTAAATAATGAAAGTAGAAAATGAAAGAAAAAGCACTTTATTTACATGCTGTATTCATTTAGGGCTGCTGTAACCAAGTACCACAAACTAAGCGGCTCAAAACAACAGAACTCTCTCTCACACAGTTCTTGAGGACAGAAGTCCAAAATTAAGGTGTCAGCAGGACAACACTTTCTCTCAGGGCTCTAGGGAGGCATCTTCCTGGCCTCCTCCAGCCTCTGGTGGTGGCCTACCATCCTTAGTGCATTTTGGCATCGCTCCATCCCTGTCTTCCTTATCACCTGGCTATCCTCCCTCCTGTGAATGTGTGTCTGTCTTTCCTGATAGGGACAATAGTTATTGCATGTAGGGTCCACCCTCATCCAGGATGACCTCATCCTAACTTGATTACCCCGGCAGAGGCCCCATTTCCAGATGAGGTCACAGTCACAGGTTCTTGGTGGACATGAGTTTTGGAGGGACACTATTCATCCCAGCTTGCCTGCTAATAGTACTCTAATTTTCAGTTATATTTTAGACTTTTTCTATGTAGAATAAAATTATCAGATGGCCAGTTAATACAAGAGAACCATTTAGTAAAATCTGACAGCAACTACAACAAAAGAATGACTTGCCTGCCAGTACCTTCAAGCCTATGATTTTCAACACTGTCATCAATATTATTTTTACTATTTGAGTTTCCCCCAGCATCATTATTTAGCCAACTTTTTTTTCCTTTCTCATCCACTCTTTCTCTCTCTCTCCACACATCCTCCACGAACTGGAACTTCAGTAGGACTAAAACTACAACCTTCTCTTAATCTGCCGAGACTTTTCTCAGATGGGTGAAATTATTTGGACCCAGCATATTATCAGCATTCAGTCCTTCAAGTTCCCCTGGTGGCCTGTTTGTCCTTTCTTGTCCCCATAAAGCTCTGTGGGTGGTATTGAAGAACGTATGAAGATGAATAGGTACAGTGGCAAGAATCTTTTCTTCTAGGTTGGAGGAGACATGGTTGCATAGAAATATTTAATAATAGTCTGTGATAAATACTCTAAAAGTAGGAGTTGAAAAGAGGGTAAGAAAAGAAATCACCTTTATGGTTCAGGAAGACTTCATGGAGTAGGAGGTGTCTTGGTGGGACTTTGTTTCCTACAGGAAGGAAAAAGATTGCTGAATTTCAAAGCACATTGCAAAGACCTTCCCTGATCTCCTCCAATTTGGATCTGATTAGTTTTAACTTGAAGCTTCATATTGCCGTATTTTAAAATAAAGTACCTACTTTACCATGAGGAGAGCTGACATTGTTTGAATACTTTTATGTCTAAGTGCTCTATGGGAATTACCTCATTTAGTTCCTGCAACCATGCCAAGATGCAGGTTTTGTCCTTATTATATTTATCTTACACATGAGGAAACTGAGCTTAGCGAGGCTAGGTGACTTTTCACCCCAAGGTTAGCAAGTGGCAGGGGTAGGATTTACTATCCAAGCTGTCTTGGCTGCTCCCATCTAATATGTTTTCCTCTTCTGTTATCTCATTTTTATTTTTCTCTCTTGCATTTAGCAGTGTACCTTACAGATGGTATAGGATCAGACCATAGTGGAAAACAGCTTCATCCACAGCCTTAGTGTGGCTCAGTAATCTCGTAGGCCAAACTCACAATGATAATCCTAATTTTTTTTTTTTTTTTTTTTTTTTTTGAGACAGAGTGTCACTCTGTTGCCCAGGCTGGAGTGCAGTGGTGTGATCTCGGCTCACTGCAACCTCCACCTCCTAGGTTCAAGCAGTTCTCTGCTTCAGCCTACCGAGTAGCTGGGATTACAGGTGCCCGCCACCATGCCCGGCTAAGTTTTCTATTTTTAGTAGAGATGGGGTTTCACCATGCTGGCCAGGCTAGTCTTGAACTCCCTGACCTCGTGATCCACCCGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGTGCCTGGCCAATAATGCCAATTTTTTATCTAAATGCTTTCCACTGTACTTCTGCCCTCAGGTTTATGGGTTCATTTGATCCCATTTTTTAAAATAAAGTATTTATTTTTATATTACTGTGACGCTCATGGATCTCAACCCACCTAATCTCAAAGGTAACTGTAGAAATTGTTTACCTCTTTTCATTCAGGAGTAAAAAATATGTTTGATTCCTGCATTCCATGCATTAGCTTATAAACATTTTAGGACATAAATAATATTTCTGACCTATTATTTTTTACATACTTACCCGGGCTTTTCTTCCACCATGAGGCCTTTTTTATGATGGATTTTCTTGTCCTCTGGAGGAACTGATACTATAGATGCGTTTGGGTCTTTTCTGCCTTCCTATTAACTTTTATTTTAAGGCATTTTATTTTATCATGTCTTGTCAAACATTTTCTTCCTGTGTTTTGACATCTCATCTTTTACAAGGAAGCCTGTAGAACAACAGTTGAAACCTCTTTACTTGCCCATTATCTTTTTTGTTTTTTCTTTCTTTTTTTTTTTTTTTTGAGACTGAGTCTCACTCTTGTTGCCCAGGCTGGAGTGCAGTGGCGCGATCTTGGCTCACTGCAAGCTCCGCCTCCCGGGTTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCGCCACCATGCCCGGTTATTTTTTTTCACATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCAAGATGGTCTCCATCTCCTGACCTTGTGATCCCCCCACCTCACCCTTCCAAAGCGCTGGGATTACAGGCGTGAGCCACTGTGCCCGGCCTTGCCCATTATCTTAAAAAAAAAAAAAAAAAAAAGATGGAAGAGAACAAATATGTACAGATTTATTTTTCAAGCTAAATTTTTATAATATCTTCTGAACCACCTTTTTCAGAAATAATATACAATAATATTTTAGTGGCCATATGAATCTAATACAATACTCTAAATGTCTTCCTCTGTCTTGAGAATTCTGAAACATACTGTGGCTGTTCTTCCTGTTTTAAAAAGCTGCAGAAGCCCCTTCTCTGACCTTCAATACACAAAAATACACAGACTCATAAAACACTTAACATACACATACTTATTCTAGACATGCCCAAATAGCCTTATTCTAGACATGCCCAGATAGCCTTATAATAGACATCCCCAGATAACCTTCTTTCCACTTTTAGCTGAAGTCGGGAACAGTTATGTTTTTATGTATATTTATTGGAATTGATTCAAGCAGAAGTCCGTATTACCAGTACATGGTAAATAGGTCAATATAACATATGTATATAAATTCTTATTTATATTAAACATGGTTAAATTTTAATCTCCCATCTGTTTAAACATGGGAGATTCAACATACTCATTTAGCTCCCTTTCCCTTGAAATGCCACTAAATTGATAGCAGAGTTTTTATTATAAAAAGGCAAACCCACAGAAATAAGAAAATGGGAGATGCTTAACAGCTACCAGTTTTGGAAAATGAGAATGCAGACAGACATTTAGTAAACTTAGCAAACCTGAGGAAGCTAAATCCTAGGCTGGCAGTGGGAATTGGAGAAGCAACCTGATTAGTAGCTCAGAATCTCCGTAAGGCTTGGTAATTGCCAACTGCAGGAACCTCTGGAAGTGGAGGTGAAGCTAAACACAGAAGTGGTTGAAAGTCTGTTTCAGAAGCAGTTAGAGCTCCTTAGCTCCCTCAGTGCTAGCCCAAGACTGGAGGTTTGTTATTTGGCGAGGATGAAACAGAGGGCCTCTGGACTAGGGAAAACGCAGACCTTGCTGAGGGTGAGCTGCTGTCATGAAAGCAGAGGAGTTGAGTAGTTTAAATTTTGGACAGTCCAGCCTTTTTCCTCAACTCACCTCCCAGATCACTAGCAGCCAGGTGCTTGTCTTCCTGACAGGAGATTGGAAGAGCGTTCTGTGGGGGATGTGATCAGCATAAGAAAATAAACCCAAAGGTACTGACTTCAGGGAACCCCAGTCCAACTGCTTGGCCACATGCCTCCACGAGCAGGATCACAGTCAGGAAGCCTCACCCAGGCATGCAGCTTTTTTGTGTCCCACTTTTAAACAAAAGCAGAAAACGAAGTTTTGCTGTTCATTTGAAGAAGGGAGCTAACGTGAAAGACAAGTGGAAGCAAATGAAGAAAGCAGCTTGTAAGAAACAGATTATAGTGTAAAGAAGAGAATCTAAAAAACTATTTTTAATATCTTCAGAGAAAAATAGATACTGCATCCATAAAACAAGTATAGAATGCTATAAAAAGGAACACTCAAAAACAACAGAGCTTATGAATATAACAAATATTAGTAATGAAAAACTTAATTGAAAATGACAATTGAAGAAATTCCCAGAATGTCAGTTATAAAAGCAAAGAGATGTAAAATAATACAGAAAAATACAAGAAAATTAGATGATAGCCTAGGAGTTCCCAGACTGTAATAATAAGAGTTTCAGAAAAAGAAAATGGGAATGGAGGGAGGGTGTGGGCGGCAAGCCATCCAGGTGCTGAGGCAAGAGACCGAGGACACGAGCTGTTCCAGTATAATAAAATATAAAACAAGAATAGTTATACCAGATGTAGATCTTAGATATGATTATATATGAATATCATTAATCATTAGTTTGTAGCAATTACTCTATATTCCAATATTATAATAATCCTCGCTCTATAATCATAACCTAGGAAAAACCAGGCCATACAGAGATAGGAGCTGAGGGGACACAGTGAGAAGTGACCAGAAGACAAGAGTGCGAACCTTCTGTTATGCCCGGACAGGGCCACCAGAGGGCTCCTTGGTCTAGCGGTAACGCCAGCATCTGGGAAGACGCCCGTTGCCAGGCGGACCGAGGTCTAGCAGTAGCGTAAGTGTCAAGGGAAAACACCGGCTACTTAGCAGAGGGAAAGGGAGTCTCCCTTTCCCCGGGGGAGTTTAGAGAAGACTCTGCTCCTCCACCTTTTGTGGAGGGCCTGACATTAGTCAGGCTCGCCTGCAGTTATCCGGAGGCCTAACCGTCTCCCTGTGATGCTGTGCTTCGGTGGTCATGCTCCTAGTCCGCCTTCATGTTCCATCCTGTACACCTGGCTCTGCCTTCTAGATAGCAGTAGTCAATTAGTGAAAGTACTAAAAGTCTCTAATAAGCAGAAATAATGGCGTAAGCTGTCTCTCTGTCTCCCTCTCTCTCTCTGCCTCAGCTGCCAGGCAGGAAAGGGCCCCCTGTCCAGTTGACACGTGACCCACATGACCTTACCTATCACTGGAGATGACTCACACTCTTTACCCTGCCCCTTTTGCTTTGTATCCAATAAATAACAGTGCAGCCAGACATTCGGGGCCACTACTGGGCTCCGCGCATTGGTAGTAGTGGTCCCCTGGGCCCAGCTGTCTTTTCTTTTATCTCTTTGTCTTGTGTCTTTATTTCTGCACTCTCTCGTCGCCACACACGGGGAGAAACTCACCGACCCTATGGGGCTGGACCCTACAGGAAGGGAAGATGAAGAAGTTGACAAATGAATTGTTGAAGATGTCTGAGAGCTGAAAGATTTGGGTAGGAGTTTTTAAGATTGGAAGGATTCACTAAGTACCCAACCCTGTGGATAAAAATAGATCCAAACCCAGTACTGAAATGTGAAGTTTCAATACATGGAGAGAGAAACTCCTACAAGCTTCTAGAGAGAAAACGCAGATTGCACATAAAGAAACAGAATAGCAACACTGGAAGCCAGAAGACGGTGAAGCTGTGCCTTTTGAGCAAAAATATTTTCCAACTTAGAATTCTAAAACAGCCAAATAGTTAAATAAGAGGGTAGAATGATCAGATATTCAAAGTTTCAAAAATTTTATCTTCCATATAGCCTTTCACAGGAGCTACTAAAGGGTGTGTTCCTGCAGAGCAAGGGAAGAACCTGAGAAAAAAGATAGGAGACCAGGAAACAGGGGGCCCAGCATGGGAGAAAACCACCCCAGCAGGTGGAGAAGGGAGGCTCCAAGACCTGAGCTGTGCAGCAGGCCCAGAGGTCAGGCCGCACAGGCAGGAGCAGGCCCAGAGGTCAGGCTGCACAGGCAGGAGAAGGCCCAGAGATCAGGCCGTACAGGCAGGAGCAGGCCCAGAGGTCCGGCCGCACAGGCAGGAACAGGCCCAGAGGTCCGGCCGCACAGGCAGGAGCAGCAGACAGCAAGATGAAGCTGGTGGAACACCTACTCTACTGGAACATCACCTGAGGAGATTATACCATTTATAGTGGAGCTTAGGATTGAATTAGGTGGGAAACAAAGCAAATTGAGAAACAAGGCAATGATTAGCTTCAAGGAAAACAAAAGCATCATCCTGGAAAGAAACAAGAAATCATAACAGACTGCATGGCTCAGCCATGAAGAACTTTCACATAGTTCAGCAGTGCCAACTCTGAAAAGTTCTCTATCCTAAATTAAAATTAACTAGATAGACAGGATGGAAGAGAAGGAAGGTAGGGGAAGAGGGAGAAGCAGGCAGTAGGAGAAATGGGGGAATGGAGGGGAGGGAAAGTTTCTATTGTGTACCTTTTTGTATATATAGTTTTGATTTTTTTTAACCATTGAGTGATTTTTTTAAACCAAAAACTTTTTAATGAGAATTATTATTTGTCATAGAGTTTTCAACAACTAATTTCCATAAAAATCTGTTCTGTTCTCTCTTTCTCTCTTCAG
Seq C2 exon
AAATTAAAACACAGAGCACGGGGCTGTTCACCTGACATCAGACAAATAGACCTGGATGTCAACCGCACATTTCGGGACCACATTATGTTTAGAGACAGATATGGTGTTAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000148429-USP6NL:NM_001080491:6
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.028 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0056613=RabGAP-TBC=PU(11.9=69.4)
A:
NA
C2:
PF0056613=RabGAP-TBC=FE(17.1=100)
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:
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
- 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)