DreINT0173010 @ danRer10
Intron Retention
Gene
ENSDARG00000022187 | usp6nl
Description
USP6 N-terminal like [Source:ZFIN;Acc:ZDB-GENE-041210-192]
Coordinates
chr4:24067477-24069816:-
Coord C1 exon
chr4:24069709-24069816
Coord A exon
chr4:24067587-24069708
Coord C2 exon
chr4:24067477-24067586
Length
2122 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAC
5' ss Score
4.07
3' ss Seq
CTCTCTCTTTCTCTCTGCAGAAG
3' ss Score
12.81
Exon sequences
Seq C1 exon
CTGGTGAGGAGGATCTACAAGGGCATCCCGCTGCAGCTCAGAGGACAGGTGTGGTGTTTGCTGCTCGATATTCCCAAAATCAAGGAGGAGAAGAAGGACTTCTATGAG
Seq A exon
GTGAACACACACTTTCTCCATCACAGCACAGCCACGCTTACTTCACAGACACTTTAGTCCACAGAAGTGTGTGTGTATGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATATGTGTGTATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTCTTTGTGTTTTTGTGTGGGTGTGTGTGTGTTTTCGCTTGTGCTGAGGGTGTGTCTGTCTGTGTGTGTGTGTGCATCTGTGTGTGTCTGTGTGCATGTGTGTGTGTTTGTGGGTGAATGTGGGTGTCTGTGTCTGTCTGTGTGGTGTGGGTGTGTGTGTATCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTATGTGTGTGTCTGTGTGCATGTGTGTTTTGTGTGTGAATGTGGGTGTCTGTCTGTCTGTCTGTCTGTCTGATGTGTGTGTATGTATGTATGTGTGGTGTGTTTCTGTCTGTCAGCGGCTGTCTGTCTTTCTCTGTGTATGCGTGCTTGCATGCATGTGTGTATGCGTGTTTGTGTGTGAATGTGGGTGTGTGTGTGGTGTGTGTATCTGTATATGTACGGTATCTCTGTGTGGTATGTGTCTGTATCTGTATCTCTGTGTGTGTGTGTGCGTGCGTGCGTGTGTATGCGTGCGTGTGCATGTGCATGTGTGTGTCTGTGAGAGAGGCGATCACAAGCTCTTAAATATGACTTTCTAAAATAACCAGCCCCTGAGGTTTGCAATGTAACACTTATGTGGTTTGACACACACACACCGCAGAGGGAAAATCACTCCAGATGGACAATAGCAGCGGCACTAAAGCCCTGCAGCATCAGCTGGACTCAAAACATGATTTGCAGACTGTATTTTCTTTGTGAGTGTGGCAGAAATCAAGCTGTGGGCTCTGGGGGTGTTGTTTTATTCGTTTGTGGCCTGTAATTTAGTGTTGGGGTGTGTGGTACTCACAAAAATGCTATTTCACTATTTATAGGGATTTTCAGTAATGGTAATTAAAACTTGTACATTATTTTCAAAAGAAAAGTTACACATCATCACACAATTACACAGTTACAGTTGAAGTCAGAATTATTAGCCCCCTTTTTCATTTTTTTCTTTTTTAAATATTTCCCAAATATTGTTTACAGAGCAAGGAAATTTTCACAGTATGTCTGATAATATTTTTTCTTCTGGAGAAAGTCTTATTTGTTTTATTTTGGCTAGAATAAAAGCAGCTTTTAATTTTTTTCAAAACCATTTTAAAGTCAGAATTTTTAGCCCCTTTAAGCTAGATTTTTTTCAGAAAGTCTGCAGAATAAACCATCGTTATACAATAACTTGCCTAATTACCCTAACCTGCCTAGTTAACCTAATTAACCTAGTTAAGCCTTTAAATGTCATTTTAAGCTGTATAGAAGTGTCTTGAAAAATATCTAGTTAAATATTATTTACTGTCATCATGGCAAAGATAAAATCAATCAGATATTAGAGATAAGTTATTAAAACTATTATGTTTAAGATATAAAATCTCATTATTTTCAAAAATTCTGTCAATTTATTCAGGTACCAAAACATTTTATTGCAATTTGCAAATAATGTATGAATTATTATTTTGTTAATTTAATTTTTCATTCATTTGAAGGATTTCAATGATTTAAACTACAAATGACCAATACAGGTAGTATTATTGCTTTCAAAACATGATTCATAGTGTCATTTAATACAGTATGTTATTTTCATTATTGTATTTTATTTAAATTTATTTATTTATTTTTATTTATTATTATTTAAAATATTATTTTATATTCATGTTTATAGCTTTCTTGATATTCAATCTGGTATTTAACTTTATTATTACAAGTTATATATTTTTTCATTCTTTTTTGAACACTCAAGACATGTTTTTGTTCAGTTTTTCTTGCAAACTGAGTTACATCCTCCATAGCGACTTACATATTCAGTGCTAGTTATTAATATTTAAGATGAACTCAATGCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTCTTTCCTTCTCTCTCTCTTTCTCTCTGCAG
Seq C2 exon
AAGCTGAAGATCAGAGCGAGGGGTTTGTCTCCAGATGTCCGTCAGATTGATCTGGATGTGAATCGGACGTACAGAAATCACATCATGTTTATGCACCGCTACGATGTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000022187:ENSDART00000143571:6
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:
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
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]