RnoINT0036286 @ rn6
Intron Retention
Gene
ENSRNOG00000013829 | Chrna3
Description
cholinergic receptor nicotinic alpha 3 subunit [Source:RGD Symbol;Acc:2345]
Coordinates
chr8:59596364-59602961:-
Coord C1 exon
chr8:59602852-59602961
Coord A exon
chr8:59597376-59602851
Coord C2 exon
chr8:59596364-59597375
Length
5476 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGG
5' ss Score
7.66
3' ss Seq
GACCCACTGTGTCTTCACAGCGC
3' ss Score
9.78
Exon sequences
Seq C1 exon
ATCTGGAATGACTACAAGCTGAAATGGAAACCCTCTGACTACCAAGGGGTGGAGTTCATGCGTGTTCCTGCAGAGAAGATCTGGAAACCAGACATCGTACTGTACAACAA
Seq A exon
GTAAGGAGCTGGCTGTCCCATACTCTGGGTCTGGCAGACCGGACTCTGGGTCCTCTAGCCACTCATTATGCTTAGTCTTGGGTGTGTTTTGTTTGGGTTTTTGCCTTTCTGAGAGGAACCTGCTTACTTGTTCACCCTGAGGGCACTGGGCAACAGTTATGTGATGGGCACCATAGGTGCAGTGAGCCACAGAGAGGTAGGAGGCTGAGTGGCTCCTAAGAGATCAATGTGTGGCTGGAAGAAGGGAAAGGTCACCAGAGAAAGCTGCTGGAAGGAGATGGCATTGACATGGGCCTTGAAGGTCACATGGGATTTGGAAGAAGGGACCTATGGCAAGGAAGGTCCAGGGAGGCAGGAGAGTATGCCATGGATAGCTGAAGTGACCTCATTAACTGCACTGTCGGGTAGAAGGCTGGAGCAGCTCCAGTGAATGGTGGGGGATCTGGGATGGCAGGGGAGGGGCTGGACGTGGCACCGGATACTAGCTCTGCAGGCAGGGATGGGAGGACATGGCTGTCTCACCCTCTTTGAGAGGGAATACTTGTGGGAGAAAGGCAGGACTGGGCAGGACTCACAGGTTGTCCCTAGAGACCAGAATAGTCACTGAGGAACTGCTAAACACACATTTTCCCGGGATTAAAACATTTTCTATTTTCTTCTTTGTTTATTACTGTCTTCTCTAAAGAGTGTGTGTGTGTCTGTCTGTCATGTGTGTGTGTTTTTCTGTCTGTTGTCCATGTGTGTGTGTGTGTGTGTTTCTGTGTGTGTCCGTGTGTGTGTCTGTGTGTGTCTGTCCTGTGTGTGTATGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGTCTGTATGTGTGCCTGTATGTGTCTGTGTGTCTTCTTTGTTAGGGGCTTGTTCTTTAGCATGGCTACCCAAAGAATTTTTATCAGCCTTTGTTCATCCCATTTCCTGCCATAGGCAACTTTTTCTGAGTAATTCCTAAAGGGAGTTTTGTGAGTTGTGGGTTGTTGTGAGTTCTGAGATCTCTACAGAGCTGCCCCAGCCTTGACTGACTTCACTCCACCCCTCTGTGTATTCTCACTATAATGATTTCTTTACATTTATTTATTTGTGTTGGGGGTGCAGGGTCCCAGTGCTGGGATTACAAGCGAACATCATCAAAGCTTCTCTGTATGGTCCTTGTCTTCATTTCCTCTGTTTCTGACCCTAGAACTCACTCTTAGGACCTTGAGACCCCATTTTCTCCTCCCTAGGTTACCCCCATTCAGCAGCTAATCCTACCTGGCCCCTGGGTCTCATGATGCTCTGGCTCTATGCCTTCCCATGCTGACATTCACGGGACACCAGAACCCTCACTTACCATGTGGATTGTGGGCTTGTCCTGCTATCATAGCTGCCCCATTGTCCCACTTTCTGGAGCCTCTGCTGCTGTGATGTTTTTTCTATCCTTGCTCCATTTCCACACATAATCTTCTTCTATATAAAAGGACCTTGGCTGATCCTTTCCACTCCCACTGCCTTTTCTCATCTTAACCAACTCAGAGTCCGGCAATAAAGCAGCTCAGACCCTTCCTGCAGCTGTTGTTTCTTTTGTCTCTGTCACCACCCAGAACTCCCTCTATATGTGTGATGGGTAGAGATTTTCACTTAGGTTTTTGGCCCCTTATTTTGTCAACAAATTCAAAGGCACCATGTGGCAATCAGTGTGCCAGATTTTAGTCTCCCGCTGGGCCCTTGTGTTCTGTGACTCCTGGTGGCACACCATTTTAAATCCCAACCTGCACAGCAAACAGGCCTCTGGTGTGAGCAGATACAACCAGGGGCTTCTGTGACTGTAACAAGTGAACTGGGCCCCCAGAGACCACGGGCATGAGCAGCTGGGCCAGGGCTGGCCTTTCTCTGGTGCTTGTCCATTGAGTACACACTCATTTTGCTGATGTGGGGACTGGTGTTCTGAAATGTCCAGGCTCTGCCCACAGATGCTCTGTGGACCTTGAACAAATCAACCCTGATCTTTGACCTTCAGCGTACTCTTCAGTCACATGACACAACTGGACTAGAGCAGAGGCATCCTGGAAAGACCAGGTAGTAAGAAATAATTAATAATGATAATATTATTATTATTTAAGAAAATTTAACATTTTGAAAATTAGAATTTGAGTAGATGCGGTCTCTGTCATAGCTATTCCACTCTGCCATTGTAGCTCAAAGTAGCTACTCAATAAACAATGAATGTCAGCAACTTTGTTCCAATAGAAACTCGTGGGAATTGTGCTTGAGAAGATGGCAGTGGTTAAAGCACTTGCCACATAATCATGAGAACCAAAGTTTGGATTTCCCAGAACCCATGTAAGTGCCACTTATGTGTGGCAGCCCTGGAAGGCAGAGACAGGGGCTCTCCAGGTCACCTTACCATCACAAGTGAACCTTATTGTTACTCTGGGTTTGATCAAGCAATTCCGGGTAAGCTCTGGGTTTGACTGAGAGATCCTGCCTCAATGAATAAGGCTGAAAGAACAATCAAGGATGATTCCTGACATTGCTCTCAGACCTCTACATCCACTGCATACATGGTCACCCCCACATATGTGCCCACATACACACAAATTTACATACACACGTTTCCACAACCCAAACACACACAAATGGAAAAAGAAAAAAAATGGTGGGACTATGGAGGGGACATGTCTTAGTTAGAGTTACTATGGCTGTGATGAATCGACATGACCGAACTTTGGGAGGAAAGGGTTTATTTCACCCACAGTTCCTTATGACAGTTCATCATCAAAAGCAGTGAGGACAGGAACTCATGCAGGGCAGGAACCTAGAGGCAGGAGCCGACACAGAAGCCAGAGGAGTGCTTCCTACTAGTTTGTTTCCCATGGTTTGCTCAGTCTGCTTTCTTATAGAACCCAGACCACCAGCCCAGGGGTGCTCACATCCACAGTGGACTGGGCCTTCCCCCAGAATCAGTAATTAAGAAAATACCCGGGCTGGAGAGATGGCTCAGCGGTTAAGAGCACTGACTGCTCTTCCAGAGGTCCTGAGTTCAATTCCCAGCAACCACATGGTGGCTCACAACCATCTGTAATGAGATCTGGTGGCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCATATATAATAAATAAAATATTAAAAAAATTAAAAAAAAAGAAAATACCCAATAGACTTTCCTACAGTCCAATCTTATGAAGACATTTTCTCAGTGAGACTCCTTCCTCACTCATGAGTTTAGTTTGTGTCAAGTTGACGTAAAACTAGTCAACACAGGAAGACTTGTGGCCATAGTTTGCCAACTCCTAGACTGGGCCCTGGGCTTTGAAGGTAGGTTCCTTACTTTCCTGTCATTTGTTGAGCCTGGATACTCCAAGTAACCTTGTTAAGGAGGCCCATGTATTCTGTATGGTCTTTGAGGTTCTGTTTAGCCCTCATGGCTGTTGGAGTGTTGTACTGAGTCTAAGCAGAGACTACCTAGAGACTATATACAGCTCTGTCCTCTCCTACTGCTCTTTTCCTCCCGAGTCATCAGGGATTAGAATGTGGAAAGCCATTGGGCTGGCAGTAGTAACCATTGCCTTTAATCCCAGTATCCAGGAGGCAGAGGCAGGAGGATCTCTTGAGTTTGAGGTGAGTCTGGTCTACAGAGCAAGTTTTAGAACTACAAAATGAATTCCAGAACAGCCAGAACTACACAAAGAAACCCTGTATAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGANNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGAAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGAGGGGGGGGGGAGAGGAAGGGGAAGGGGAAGAAAGGAAGAAAGAAATGAAGAAAAGAAAGGAAGGAAGGAAGAAATGAAGAAATGAAGAAAGGAAGGAAGAAGACTGTGAAAAGCTGGTAGAGAAGCCACAAACATGGGCAGGGGCTCAGGCATTGAGTTGTCTCATGTAACAGTGGGTCTATTCAATGGAATCAGTGTGGGTGGAAGGACAGAGAGCAGCAGGGGGAATGAACTGAACCTGAACACTGCTTTCCAACAGTAAATGATATAAAGTCATTCCTAAATGTTTAGAATTTTGATGCTCAGATTTTCACATGACAACCAAAGGGGCATGAAAATCCTGAATGCCTCCCATGACAGCAAGCTAAGAGACCCACGGAGCTGACTGTAGATGTCGAGAGCCTTCAGTGAACCAGGCATTGGTGCTGCACACCTGTAATCCCAGCATTGAGGAGGCTAAGGTGGAAGGATATTGAGTTTGAGTCTAGTCTGAGCTACAGTAGCATGCCCTTATTGACTGAGGAAGAAGAAATCTTCAGTGGGAGGGACACTTGTGGGAACCAAGTGACTTTTCTGTCAGATGACTTCTCTTGGTCACCAAGATGGAATTCTGAATACAAGCCCAACAGGGAACTAAGATTATCATCAGTTCTACTGTTAAGAAGTCAGTTTATAAACATTAACAGGATGATTCTAAGAAAACTGCATCATCTATATAAAAAGAAAGGCAGGTGCTCATGGCCAAAAGATAGAGTAGAAACATGGCGGGTGAGTGGAGGCAGCTAGAGAGGATAGCAAAGGGACCTGCTGGCTGGGTTTGATTTGAAGGTGTTCAACAAAATCAGAAAACATAGTCTTTTATTGAAGAGCAGTGGTGGGAGGAAAGGGGGGTAGTGGTAGAACTGAGGTCTGGTGGAGAAAACGAGCTTCCTTGCTAAAGTGAGTTTCACAGCATAAGCACTTATGGCTGGCCCTTGGAACCATTCCTAGATCTGCCATGGGGTTTCACACATGTATAGAACACTTGGTGGAGACTGGCTATAGAGGTGTTAACAAGGTTCTGCCTACTAATATTTCCAACAGCTGCTGAGACACCCATCTCCAGACAACATTCATCTCATCATAAATTCAGAACCCAGTGGGGTCCATTTTGGGTACTTAGGAGTCTCTATAACATCAATCTGGAAATTAACACTCTAGAATGTACTGGGATATGACCAGCATGGCAGTGTGTGATGGGGTGTCCAGGAGATGGGGAAAGTCTACTAGGGGAAGCTGGAGTGGGGGTAACAAGTGTGGCAAATCATGTGGCAGGAGAGGTGGAGGGTGGCTGAGCATTGCTAGGGGAGGTCTGGCCTCAGTTTCTCCACTGGAGAATGGGGCAGTTGGCATGATGGCTTCTCTCAGCCCTTTGATCTCTCACATCCCCTTTTGTGTACATTGTCACTTGTTTATCATCCTGGTGGCAGCATGGGAAGCCAGGCTGGGTGGCTATAGAGTGATGACCGTGAGTTGTGTGACCCACTGTGTCTTCACAG
Seq C2 exon
CGCTGATGGGGATTTCCAGGTGGATGACAAGACCAAAGCTCTACTCAAGTACACAGGAGAAGTGACTTGGATCCCGCCGGCCATCTTTAAGAGCTCATGCAAAATCGACGTGACCTACTTCCCATTCGACTACCAAAACTGCACCATGAAGTTCGGCTCCTGGTCCTACGACAAGGCAAAGATCGACCTGGTCCTCATCGGCTCCTCCATGAACCTCAAGGACTACTGGGAGAGTGGCGAGTGGGCTATCATTAAAGCCCCGGGCTACAAACATGAAATCAAGTACAACTGCTGTGAGGAGATCTACCAAGACATCACGTACTCGCTGTACATCCGTCGCCTGCCGCTGTTCTACACCATCAACCTCATCATCCCCTGCCTGCTCATCTCCTTCCTCACTGTGCTTGTCTTCTACCTGCCCTCCGACTGTGGGGAGAAGGTGACACTCTGCATCTCTGTGCTCCTCTCCCTGACTGTCTTTCTCCTGGTGATCACCGAGACCATTCCTTCCACCTCGCTGGTCATCCCCCTGATTGGGGAGTACCTCCTCTTCACTATGATTTTTGTCACCTTGTCCATTGTCATCACAGTCTTTGTGCTCAATGTGCACTATAGAACTCCAACCACACACACCATGCCCACTTGGGTCAAGGCCGTGTTCTTGAACCTGCTCCCCAGGGTCATGTTTATGACTAGGCCGACCAGTGGTGAGGGGGACACTCCTAAGACGAGGACCTTCTACGGCGCTGAGCTCTCAAACCTGAACTGCTTCAGCCGTGCAGACTCCAAAAGCTGCAAGGAAGGCTACCCCTGCCAAGATGGGACCTGTGGCTACTGCCACCACCGTAGGGTAAAAATCTCAAATTTCAGTGCCAACCTCACAAGAAGCTCCAGTTCTGAGTCTGTCGACGCTGTGTTGTCCCTCTCTGCCCTGTCACCAGAAATCAAAGAAGCCATCCAAAGTGTGAAGTACATTGCCGAAAACATGAAAGCACAGAATGTAGCCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013829:ENSRNOT00000019307:4
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=0.006
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=34.0),PF0293211=Neur_chan_memb=PU(86.7=63.6)
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]