RnoINT0162018 @ rn6
Intron Retention
Gene
ENSRNOG00000017644 | Usp6nl
Description
USP6 N-terminal like [Source:RGD Symbol;Acc:1311786]
Coordinates
chr17:75784807-75791010:-
Coord C1 exon
chr17:75790903-75791010
Coord A exon
chr17:75784917-75790902
Coord C2 exon
chr17:75784807-75784916
Length
5986 bp
Sequences
Splice sites
5' ss Seq
AGTGTGAGT
5' ss Score
6.96
3' ss Seq
CTTCCTCTCTTTTTCTTCAGAAA
3' ss Score
11.98
Exon sequences
Seq C1 exon
TTCCATCGACGAATTTACAAAGGAATTCCACTCCAGCTCCGAGGTGAAGTCTGGGCCCTTCTTCTTGAGATCCCTAAAATGAAAGAAGAAACAAGAGACCTCTATAGT
Seq A exon
GTGAGTAGCTAAACCGACTATGCCTTTGAACTAAAATGTAAAATAATTCCAGTTTTTAAGGTGACATGATATTCTCCTATCGCTTGAACTTGTATTGAGATCACGTGCCACTGAGATTTCGATGCTTCCTGGTTTATTTTGTTACTGCCAGTGTACTCAGATTTGAAATAAAGTATTGCCTGTATCAGCTGGTATTGTTAGACACAGATAGCGATCCCTTAGTGCTGAGGCACATATGAGGGAACTTCTTCCCTACACTGGTATTATAAGGAGTTTATGGGGTCACAGAAGCAGAGCCCCACTCCCTGCACCTGCCTGCACGTGGCTATTCAGTCAGAATAAGAAAAAAAGTCTGTTCCCAGGACAGTCTAGTATTTCCATTTTATTACTATGAATTAAAAGTTAGACCTTTTGCCGAGTGATAGTTTCGTTAAATTGCATAATGATTAAATATACCTCCTTATCACTTTAGCCATAAACTTTCTAAACCTGTTTATATTAACCTTCAAAAAGAATAGGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGGAAAAAAAAAAAAGAACCAAAAAGAATAAGAACTTTACATTTAAAATTCTTAGAGCCATAGGTTTAAAGTATGTTTCTTAGAAATGGATAGAAATGGTAGAAATGAATAGAAAATAAATGGGATGAATTACAACACAACAAATGGAGGAGAAGAAAAACCAGTTTAAACCCAGCCAATGTAAGAGCACTTTAGTGAGTTCACCATGGGTGAGCTCAGATGAAAGCTTGCCAAATGAAAGACAACAGGCAGTAGTTAGACAATACTCGGTTTATGAGAATACGGGACTTCACACAGAGAATGAGTTTGTGTTTCAGAGCATTAGAGTTTGGAATTATCTTAGAGTACTAGTGAGATATTTCTTATGAGTGTGGAGGTTGTAGAAGCCATGTTCAAAGGGAAGTATGGCTGAGAGAACACATGCACATGCAGTCTAACTCCAGAACAGAGTACCCAGTATGCAGTAGGTACTCAGGAAGTATCTAGTTAATGAAGGAGCGTAGAGAATCCCACAAGTACAGAGTGCTTGTACGCCGTACTCCCCGTCAGGGCTGCTGGAGCCAGGAGGTGTAATGTGGGTGACTAAAGGCCTCAGAAGCCTGTTCTGTGTGGCTGCAGGACATGGCTGCCCCTCAAGAGAAGGAAGACTCTTCCTGGCCTTCTGCCAGTTTCTGGTGGCTACCCACAGTCGCTAGTGATCCTCGTCTTGTAGCTCTGGGGCTTCTCTGCTTCCTTTGCCACATGTCACGTGTGTCTGTGTCTTTATCTTGCCTTATAAAGATGCTAGTCTTTGGATTTGAGTCTTACTGCAGTGAGCCACCTGCCCTTAATGGTGTCTTCAGAGTCTGTTTCCAGAAAAGGCCACACGCACTGGCTCTGAGTAGACATAAACTTGGGGACACTCTTCAACCTGATACACTTTATTTTGGGTGCTTTCCCTATATAAAGTCATCCATCGTATGAGCAGTTAGTGTAAGATAGTAATTTAGTAAACCCAATAACAACAAAACAAAGGAGCGTAAGAGGTTCCAGGCTTGTTACTCCGGTCACTGCCTTCAAACATCCCAGATACTGTTTAGTTCCCGTCATGACATCATTTGATCATCTCTTCTTTTCCTGACCACCCTTTCCTTGTCACCTTTACAACAGTGGCTCATGTTTCTGCCTACACATCTCTGTGACCTGGTTCTTCGTTGTTTAGTCTACCAAGGTGTTGTCATGGAGCCTGGCATGTTGTGTGTATATTGTCCTTTAATGTCACCTGAGGCTTGCCTGTCCCTTCTTAGAGCAGACCTCTGTTTGGTGTTAAGCAGCACATAGAGATGCAATGTCCAGAAAGGTTGCTGTCTGGGAGGAGATGAGGCTGTGTAGAGATGTTTACTGCTAGGTAGGGCCTGACATTTAGACCACAAAACAAAGGCCTTGACTGAGTGGAAAGGAGGAATAACAAAAAGAAATAGCTTTTGATGTTCGGGAAAGTAGACTAGGTAATGTGGGGACCGGAGAGAAGGAGGATTGGGCTTCAAGGCACTTTGGAACACCTTCTGTGATTCCCTCCCTTCAACTGGGATTGGAGCACCATAGTACTGTGTTTTAAAAACATCTTCCCAATACTTTCATGGGCGCTGTCCGAATGCTCTGCCGGAATTATCTTTCTTAAGTCTTGCCATTAAGGTACCACCCAGCTTTACCCCTGCTTTCCGTACAATCCTCCTTCCACGTAACAGACAAGGAGCCTGAGCTAGTAAGGTCACGGTATGTGTTCACCCAGGGTGAGCCTAGAACAGGATTTAAAATCTAGTTAGCTTTGACTCTGAGGCAGAGGTGCCCTTTTTTCATTTAATTATACCCCGTTTGTATCTGTCTGTCTTGTATTTAGCAGCATACCTTAAAATGCAGAAGGTCTGTCCACCATGGTCCTAAGGCCTCTCTGAGCCTGGCTCGGGGTTCTGGGAGGAGCCCCATGGAGAGATCTGTGCCCTCTGCTCTGCGGCCGCCTTGGCTCATAGCTCCTCAGGTCTCTTTCTCTTAGTGAGAGCATTCATTAGTGAATCACCGTGACTAGAGATGTGTAATATAGATCCAACCGGCTCTGGTGCTGAGTGCTTCCTTTCCGTGCGTGTGCACGTGTGTGGCGAGCTTAGGTCTGTGTTTGTTTCTCTGCATCTTGTGCATTAGCTTGTAAACATTTGAAAACATGGATGATATTTCTGCCCTCTTCTTACCTGGGCTTTGCTTCTATTGTAAGGTCTGTGTTATGATTTTCATGTCTGAGAAGAGCCAGTTTTGTAGATATGTTAGGTCTTCTTTTCTCCAGCTAAATATTATTTTAAGACATTTTTTTGCCAGCTTTTACCAGGGGGCCTTTAAAATAAGCAAGCCCTCTGTACTTGACCATTTCCTTAACAATAAAAAAACAAATATATACCGATTGCTGTTTGAATAGTTTCAAACCCTTAAACACACTGTGGTGACTCATGGTATCTTTGGGGTATTTTATAACGCTGAGGATAAAACTTGAGTCCTCTCATTCACACACACACACACACACACACACACACATAGAAATATTATCCCACTGGGCCATACCCCCCCAAACCATTCTCGTATTTCAAAAGGCTGCAGAAGGTAGCACCTCAAAAAACACAACACTTAACATGTATACACATACGTAACAGTCCCATGTTACTCTAGACATTGTCCACATGGCCTTTTTCTTCCTAACTTAGAGATCAAAGTTATGTTTTTTTTTTTAATTAATTAGTTAGTCGGAATTGTCTTTAGTTACAATTTGTATTACCAGTATATGGTAAATAAATCTATATGGGCATGTTTCTGGATGGCTATTTAAACATACCTAAGTACAAGTCGTAAATGTTAATTTTTTTTTTTTTTTAAAGATAGGCAATGAAAACAGTCATACTTTAGTCACCAAACTGACAGGAGAGGTTTTGAAAGGAAAACATATAATAAACATATAATGAACAAGAAAACGGAAGAAATAGCCCTGCTTCCTTCTGGAGTGCGGAGTGCAGACAGGCATGTAGTGAACGTGCAGACCTGAGGGCGCCGAGCCCTGTGCTGGCGGCAGGAGACTGGAGAAGCACGGGCTGTATTTAAGTCTCCTCAGGACTTGGTAGCTGCCACCCTCAGGTACCTCAGCAAGGAAAGGTAAAGCTGGACCCTGGCGTGGTTAGGAGTCTGTGGGAGAAGTAGGCAGAGCCCCCAAGTCTCCTCCCGCCCAGGCCCAGGGCTGCTGGTCTCTGTCTGGGAGAAGGGGAGCAGCTATCTTAGTGTGCAGGGCAGCATAAGACCCCAAGTTTCTGACAGTTAGTTTTCACCCAAGAATGCTGTCCGTCAAAAACAGCAAGAGCTGGGAGGACATCCTCTGGGAATGTGACAGGACAGAAAGACAGACACTAGAGTTGCAGTGGCCACGCTTCAGCTGCCCTGCCACATCCCCACCCTACAGCAACGTCACTGTTGGGAAGTCCCATCTGGGCACACAGTTTTGTTTAATGTCTTACTTTCAAGTAAAAGCTGATCACAAAGCATTAGTAGTCATTTGAGGAAAGGGACTTAAACTGGAGACGAATAAAAACAAGTAGAAAAATACACTTTTAAGAAACAGATTATAGAGTAAGAAGGAAACCTAAAAGATTGTTAATATCTTCAGAGAATGAAATCTGTATTGCATCCATAACACAAGCATAGGAAGTCTAAAAAGGAGCGTTCTATAACAGCTAAGAACTTAAGAATATAAACAGTATAATAGGGATAAAAAACTTAATTGAAATAACAATTGAAGAGATTTTTCAGAAGATAAAAGTTAAAGGCATGGATATGAGCACTAATAGAGGAAATCAGGAAAGTGAGCTGAGTGCTTTGAGTTCCCTCATTATAACAACCAAGCTCCCGAAATCAGGGCAGGGGTGGGGACGGACTTGATAAAGGAAGGAGCAATCACTAAAGATGCTTTTTCAGAGACGAGAAATGAGTTATAAAGTTGAAAGTGCCCGAGTCTAGATGAAAATAAATGCAAATCAAGCAAAGAGACGGGCAACTTCCAGACATGGAGCTAGCTCCCACCACCTGCCAGACATGGAGCCTGCTCCCACCACCTGCCAGACATGGAGCCTGCTCCCACCAACTGCCAGACATGGAGCCTGCTCCCACCAACTGTCAGACATGGAGCCTGCTCCCACCACCTGCCAGACATGGAGCCTGCTCCCACCAGCTGTCAGACATGGAGCCTGCTCCCACCACCTGCCAGACATGGAGCCTGCTCCCACCAGCTGTCAGACATGGAGCCTGCTCCCACCAACTGTCAGACATGGAGCCTGCTCCCACCAACTGCCAGACATGGAGCCTGCTCCCACCAACTTGCAGAGAGGAAGAGACCTCACGTAGAGAGTGAGAATTCCAGAGGTAGCACAGGAGACCAGAGAACAGTGAGTCAGTGCTTTGTGAACAAAAACGCTCAGTCTAGAATTCTCAGGCAGCTTCCCAGTCATGTAAAGTGTAAGTCACCAGGTATTCAAGGAGTCCAAACCTTTACCTTCTGTAATGTGTGCCCATTTACTGTAACTGTTGGAGAATGCAGTCCTCCAGGACAAGGTCAGATACCAAGAAAAGGGAGATGTCAGACCCAGGCATTGGGGACCCAGGCTCAGGGCAGAGCAAAGGGAACCTCAGCACATGGAGAAGACCAGAGGGAGTCACCCCAGGACCAGCCACTCTGGCTGAAGCACCATGCGGGTTGCTTTAGGAGAAAGTTTAAGAAGCTGGCCGCTAGGCCGGGCTTGATGGTGCATGTCTTTTATCCTAACCTTTGGGAGACAGAGGCAGGCAAATCTCTGTGAGTTCAAGCCCAGCCTTGTCTTATGTAATGAGTTCCAGGACTGCCAAGGCTACATAGTGAGACCCTGTCTCCATAAAAACCAAGACATGAAGAAAAGAAATTGGTCAGTGTTCACTAGGCCGTCCTGAGAATTCCACTGTGTACTTCAGACTTGCTGTTGGGTTCCCTATAAGGATGTAGAAAGTGAAGCAAATCACGCAGTCACTAATTCCAAGGAAAGAAAATGCTCAGCCAGAGAGAAAAGGATTTCCTCATAGAGTGAGTGGCTCAGCTATCGTAGTCCTGCAAACTCTGGAAGTTCCTGCCCCAATTCTCACTGCTGATCCCATGAAGAGAAAGGGAGGGAAGGAGGGCTTTGAGAGGAAGGAAAGAGGTTTTTGTATGTCTGTTTATATTTCTTAGATCTTTCTTAGCCCTACCCTCTGCCATATGTAAATGAAAAAAGGTTTTAATGAGGATTATTTTATTATTCATTATAGACTTCTAGCAATTAGTTTTCATAAAAATATGTTTTCTTCCTCTCTTTTTCTTCAG
Seq C2 exon
AAATTAAAGCACAGAGCACGGGGTTGTTCGCCTGATATCAGACAAATAGACCTTGACGTGAACCGCACATTCAGGGACCATATCATGTTTAGAGACAGATATGGTGTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000017644:ENSRNOT00000046266:7
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
Other Skipping 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]