RnoINT0036335 @ rn6
Intron Retention
Gene
ENSRNOG00000012448 | Chrnb3
Description
cholinergic receptor nicotinic beta 3 subunit [Source:RGD Symbol;Acc:621544]
Coordinates
chr16:68881291-68887592:-
Coord C1 exon
chr16:68887548-68887592
Coord A exon
chr16:68881401-68887547
Coord C2 exon
chr16:68881291-68881400
Length
6147 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TGTATACCTGTTTCATGCAGGAA
3' ss Score
7.65
Exon sequences
Seq C1 exon
GATGAAAAGAATCAGCTGATGACGACAAATGTGTGGCTGAAGCAG
Seq A exon
GTAAGGACCTGTCCCAGGCTGTGTCTGCTAGCCAGTCCAGACACTGACAGTACTCTTTATTTACACACACTGCCATCTGGAAGTACTCCAGAAAACATGCGGAATCCTTAGGGGAAGATTTAGGAATGCAAGGGCTTAACTTCAGCGGTGAGCACGGAGAGTAGCCCTGTTACTGTGTGGGCACGCATCTTCCTGTGGTACTGTTTCTCAGGGATGGGACAGCATGGGGCAGGGGGTGACACTGCAGGTGATGACTGATAAAGTTTCGACACTATGAGAGTCTGCTAAGTGACAGGTATTGTGCAAGATATTGGTAGAATGAGGAGGGGCAGCCCTGTCTTTAAGGAGACAGCAGAGGGTTAGTTGCTGTAAAGTGATGAGCATCATTAATAGGTTTGTATAAAGCCCGTGATTACATGACAGTAGCATGGAGATGGGGAGGAAAGTCAGGGGATGCTCAAAAGAAGAGCAGATATCTAACATGGGTGTCAAGGTCAAACGCAAGCCCCACAGACCAGGTAGGAGTAGGTTTTTTGAATCACATGGGCGGTCTTCCCAACAATTCCCAAGACTTCACAAAGCTCTCACACCTAAGCTAACCAGTAGAAACTCTGTCCAAGCATCCTTTGCTTCCCATACTAGCCTCCCAGTCTAGGTCTCCTCCCAGCCATTGACCTTTTCAAAGTCTAGCTGTCCCACGTACAGGGCTCCCTCTAGCTGGACCTATTTTTATCCTATTGATTTTATTTTGCAGACTCGTGTGTCTTTCTTCTTTGAACTTTCAGCGAGTAATCAAATCCCCGGGAACCATAAATATCTTATCAACAGACTTGCTGAAACCACACGAGGAAGGACACTGTCATGACCCCTCAGATTCTGCACCATCATATTCAAGGTCCAAACGCATTTCCATCCATTCGCCTGACTTCACTGTTTCCCAGCACCTTCCCGCACACTACTCCACCACGGTCTCCCTAACCTGCCCCGCCAGCCACGCCCTGACTCCCCATCCGTCCCTTTTCAGCTGCAAGCATCTTCTCCTCGGGATGCCTATACCATCTCTTTCCTAGCGCCGTCTGCAGCTTGCGTGAGTTAGTCTCTGGCGGGGAGTTCATAGTGCTGGGGACCACCACTGCGCTCAGTACCCTTTAACGTGGCACATTCTGTGACACGATGACATCCCCAAGCTAAGTCCCCGCAGCTGCTTCTTTTTACATCTCTGTCCCCGTTATTGATCTTGCTGCTGGAGGGCAGAAAGTAAGAGCAATTACTCTGACTTGGAAATACTCCCCCCGGGGCTTGCCTCAGTTCTCTTTGCACAGCGTTTCTGAAATCGTTTCATCCTTTACTCCTTTTTGTTCAAGAAGATTTAGGGGGTTCTTAGACAAACCCACACTAGCAAGCATCTGTTGGGATTCAGGACCTGAAGAGGTCAGTGGCGAGGTTTTACGTACAGCTCCCTCAGGACACAAGCAACACCATCAGGCGTTGCTCTTGGCTTTGAGGCAAGGCAGCTCAGTGGTCTCCAGCTTATGACCCTTCTGTTCCCCACATGTTGGGATTACAGGCTTGGAGCACCAGCCCAGTATGATTTATTTCATTTTGAGTCTGATAGTTTTCCCCCTTTGTCTCTAAACAATTTTCTCTGAAGATATTGTTTACCATCCATCTTGTGGTTTGGTCTGGTCTGTTCCTTGTCATTGGGTCAAAAGTCTGTCCCCATGGCGCTCTCTCTGTCTCTCTATCTCTGTCTCTCTCTTTCTCTCTCTCTGTGTGTGTGTGTGTGTGTGTGTGTGAGAGAGAGAGAGAGACAGAGATAGAGAGACAGAGAGACAGACAGAGACAGACAGAGACAGGGAGAGAGGTGATAAGTGTCAATAAAACCCTCTTCTGAAGAACAAGTGCATTTTGTATATGATAAAAATGTTTATTGAGTCGCGGCAAACAAAGGTAGAACACACTTAAATCAACAGACTGCTGAAATGGCTGAGCTCCACCCGAATCGTACTGCTTAGCAGCAGTCGAATTCTCAAATTTTACCAGCTAGTTTATGTTAAAGTTTGACATATAACTCATGGTATATAAAAAGAGGGTCGCTTGGCATGCTTTAAAACTAGACTTTAATTCTGCCAGCCTCTCCATAAAGTTTTGTTTGTAGAATTTTTCACATGATACGTTCTTTCCCTTCCTTCACCTTAAGTTGTAAGCACAGCTGTTTTCCATTGTAGAGACACCCACGCCTCTCTTAGTGGTCTAAAATATCGTTGCTTTGAAAGACTTTGGTTTCTGAAGTTGTCAGAGGCATTGCCAGTTCAGCAGGAAAATGCAAGTTTGGTGAGTGTCACTAAGAGCAGAGGGGGGCAGCATTTGTTATTGCTGCTGTTGCTGTTACTTTGGTTTGTTTTTCAAGACGGTGTTTCTTTGGGCAGCCCTGGTTGTCCTGGAACTCGCTCTGTAGACCAGGTTGGCTTCAACTCACAGAGATCTGCTTGCCTCTGTCTCCTGAGTGCTTGCACCACCACCAGCTGGGCTAACAAAGGCTTTTTTTTTTTTCCTTTTTTTCTCTTTTTTTAAAAAAAAGAAAGCCTCATTCACTGGGCTGAAGAGATGGTGCTTGCTACTCTCACGAGTTAGCCAGATCTCTTCTGGCCTCTGCGGGCACCTGCATATGTGTAGCATTCACCACACACACCACCACCACCACCACCACCACCACCACCACCACCACCACCACCACCACCACCGCTACCACCACCACCACACACACACACACACACACACACACACACACCACACACACACACACACACACACACACCACACACACACACACACACACACACACACACACAAGTAAACATAAAAATCTTTTTAAAAAAAGAAAGTCATGTTGCTTTAGGCAGGAGCTGGTTTCCAATAATATCGGTGTATTAAAAATTTGACCACAGAAAATCTTTCAGATACATTTGCATTCAAATCCCTTTCAACATTATTTAAACCTATACAAAAACTATCTTATTTTTTTTTAGATAAAATACTTCATAGCTTTATGATGGAACACATAAAACACAGCTAAAATTCTTTTGCTGCCGAATTCCTTTTCTGCCTATAGGGTTGAGCACTTTCAGCAGAATTTCAGGTGGGAAGAAAACCACTCCTCATGGAGACCATCCATCTTGTGGTTTGGTCTGGTCTGTTCCTTGTCATTGGGTCAAAAGTCTGTAAAAGCAATCTGTAAAAGTCTGGTAAAGCAATCCTCAATTCCTGCTCTTCCTGCTGGCACCTTATGAAAGTGCATTCGCGAGCAGTCCCAAATACCTTGCAAAAGAGTTAAATCTGAATTATTTTCTGATGGGATGTAACAGATTAAGGTCACCTGTTCACATGGCTAAACATTAAGAGCATCATCGAGTGAGTCTTAATCACGCAGCAGCAACCTTGGGCTTTAGAAAACAGAGCCCCCACCCCCATCCCTAGTTCTAGATTTAACTCTTAGATGCCTGCATGTGAGTGAAGCCGGGCTTTTAAAGAGACCTTAAATAACTGTTTTAAAAGAAATACTCAATTTAATAAAGATGGGGGGGAAAAGGAAACATTTTTCTGAGGAAATAAAGATCTTCAGGCATCTAAAGTTAAAAAAAAATAAAAAAAAATAAAAAAAACCAAAAAAATTTCGTAAGTCGTAGAGGCACAGGAGGGACAGGGAAGTCTTAGCAGGTGGTACCACATTGACTAAGTGACCTTCTGCAGGCAGAGCTGGGCAGGGCGGGGAATTTTATTGGGGACAGACTTCTCAATGGCAAATGAGGGGAAAGTAAAGGAAAGCAAACAAAACATGCTACTGTGTGTGAACACTTCTGAGAGTTGGACCCTCTGATGATTCCAAGAGTCTCTCAGAAGGACGCCAGGCAAGGAGGGAGTGTGTGCGCTCTTACAAATGGGGGTAAGGAATCAGGGAGAAGCCTGAGAGCACTGAGAAAAATCTCACACATGCTGTCTGTCTGGCTTTTAAGTAGCTAGTCTTCTAAGGAACTTTCTCACAGTTATACAGTATTTTTAACTGTTTTAGATTATAAATTCCCAAATGCTGTGTCTCCTTGTTTGAGGTAAAGAGATGTCACATTTGCTGAGATCCTACTATTTATCAAGTTTATTTTATTTTTTAAAAATTTTATTTTTATTCTTTGAAGACTTCATATAGGAGGAGCCTTATGTCTTGGTCATATCTACTATTCACGTCCTACTTCAACTCTGTCTGGCCTCCCCAACACACTACATGTCTTCTTTAATATATATATATGTATATATATTATGTATACTATAATTTAATTTAATATAATATATAATATAATATATTAATATATAATAATACATAATAAATAATATATATTCCCACTGAATCCAATTACTGCTGCCCATATGTGCACTGGTAATCAGGCATAAGCAATACACCATGGCCACATACTGCAGAGAAAAGACCCCCCAGCCAGGAGTGGTGCCTCAGTAGCTCCTCCCCCACCCATTCTAGAAGAGTAACAAATCAGTATTTATTTAAGCAACACAATGCCAGCTCTAACTAGACATGTGTCCCTTGTGCCCCAAACAAATCCATGTAAGCCGCTTTGCCAAAAATAACAGGAACTAATACAAAAGGCAGCTTGAGGGACAGTTTTTCTACATCAAACTGAGTCCTCATCTCTCTGCCTACATTAAATCCAAAGTGAAATATAGATTTGTTCTCCGAGAAGTTCATACTTGTGGACAGTGTTATTTATATTCATTTCCCACTTCCCCACCCTTTCCAGGCTCCACTCATTATATATAATATATATATCCCTCCTGTTTTCTATAACCCTGAGTTTGGTTAGCAGTACCTATATACCTATATTAGAGGCATGGGTGTGGGACATCCACTGGAGCAAGGAACTGTACTCCTAAAGAAAACAGATTCTCTGTCCCTTAGCAGTCATCACTGTTAATAGCTACTCAGGTGGGTCAGGTGGGGTGGGAGCTTGGCTGTCCCTTCTCCTTCTCTACTGGAACAGTGCCTGGCTTCCTCTTGTGCACATTTTGTGCAGACAACCACAGCTACAATGAGTCCAGGAAAGCATCGCCGGTCATGTCCAGAAGACACTGTTGACATTGACCTCAGGCTCTTACATTTTTCCTGTCCCCTCTTCTGTGATGGTCCCTGACCCATAGGTGGGGTGGCAGGGTTTGGGGAGATTGATATAGATAATTTATTACCGATCAGTCCTAGTTCTGAACACTTTGAACAGTTATGGGTCCACGAATTGACCACAGTTGAGACCTCACAAAGATATGGGTATAAAATAAATATTTAGAAAGGGATTTGCACGTTTTAAGGCATCATACATATTTCAGTATTTTACCATTCAATTAAGCCACCCATCTGCCAATTCCTGATTTTTTAATGACCTAGATGGCATCATTGTTCTCCAGGAAGCCTCACACTGGGTGGACCCTTCTAGTGCTTGAAGAAAAAAACTGGAACATATGGAGGCCCAGAATATTAGGGACATAATTTAAAATGCTAATTAGGAGTTTACAAGGTCAATTTAGATAAATTATAAAAGTTAAGTCTCTGTCCATTTGCTCTGTATAAAAGTGACAGTGCCATGGGGGACGGTCAGCAGAACTGAACATTTCACAGTAACAGATCGAGATCATATGTTCCTATTGTCAGGGGACAGAAATCTCAATAGACAGCCCTCCTGGAATGACCTGAACGAGATGGCCATTCCTTTTTAGAAAGGGTCTCATTGTATAAAGCAGGTTTGAGTTTAAGGTCCTCTTAGGCTTACCTTCCCAAGTTCTGGGACTAGAGACATGCACCTTCCCACATAACTGTGGGCTTTCTTGTTTGTTTCTTAAGAGAAAAGAGGAAAAAAACAAGCATGAATCAATGCCCTCTGTGATTAGGCTCATACATGGGCCCGTGGAAGTTCAGGCTGGCTTACACTGTATTCAGAAGCTGCAGGGAATCCTAGATAGTTCTAATCTGGGTGAAAATCCCTTTTGTAACACAATGATGGGCTGGTAAATTAAATTGAAGGAATTGGGAGAGCCTCACTTCCACAGTACTGAATTTTCAGAATAAAGTTGCTGTATACCTGTTTCATGCAG
Seq C2 exon
GAATGGACAGACCAAAAATTACGCTGGAATCCGGAAGAATATGGTGGAATTAATTCGATAAAGGTTCCATCAGAATCGCTCTGGCTGCCGGACATAGTTCTCTTTGAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012448:ENSRNOT00000016656:3
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:
PF0293118=Neur_chan_LBD=FE(23.7=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
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]