RnoINT0036325 @ rn6
Intron Retention
Gene
ENSRNOG00000014698 | Chrnb1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:RGD Symbol;Acc:2349]
Coordinates
chr10:56393473-56399786:-
Coord C1 exon
chr10:56399577-56399786
Coord A exon
chr10:56393697-56399576
Coord C2 exon
chr10:56393473-56393696
Length
5880 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TTCTGCCTTCTGTCTCCCAGGAG
3' ss Score
9.93
Exon sequences
Seq C1 exon
AGAATGGTCAATGGGAGATTATCCACAAACCCTCTAGGTTAATCCACCTTCCAGGGGATCGAAGAGGAGGGAAGGAAGGACATCGTGAGGAAGTTATCTTCTATCTCATTATTCGGAGGAAGCCTCTCTTCTACCTGGTCAATGTCATTGCCCCGTGCATCCTCATCACCCTCCTGGCCATCTTTGTTTTCTACCTTCCACCAGATGCAG
Seq A exon
GTAAAGGGCAAGGGCTCCAGGCCCTCTGTGTCCTTAGCCCAGCTTCTTTCTTCTCACCTTTTGGTCCAGGTTAGCTTTTGTTTTCTAAAATTTGTCTATGTGCTGGGTGGTGATGGCCCATGCCTTTAATCCTAGCACTTGAAGGCAGAGGCAGGTAGGTCTCTGAGATCCAGGCCAGCCTGGTCTACATAGTGAGTTCCAGGCCAGCCTTGAACACACACACACACACACACACACACACACACACACACACACACACACACACAGGTGCTGGAGTTCCAGGCATTCCCGAGTCTCCTGAGGCAGGTAATACTGGGTTCTGAACTCCAGTCCTCAGCTCTAGCCTAGTTTTCTTTTTTGTCACTGCAATAAAAGACTCGCCAAAACCAACTTATGGGAGGAAAGGGTTTTGTTGGCTAACAGGATACAGTTCACCATCGAGATAAGCCAGGGCTGGAGCTCAAAGTAAGAACTAAAAAACAGACCATGAAGGAACATTGCTGACTGGCTTGCTTCTTCTGGCCTGTTCAGCTACTTTCTTTATACAGTCCTGAGCCACTTGTGGAGGAATGACACTGTCCCATAGTGGACTGGGCTCTTCTATATCAATCAGCAATTAAGAAACTGTCCCCTACTCGCCCACTGGGTAGTCTGATGAGGTCATTCCTATTGACGTCTCCTTTTCCCAGGTGTGTGAAATGAACACACTGAAGTTCATCTAGACAAGCATAACTGTTCTTAACTACTGAGCAATCTCTCCAGCCCCCAGGCTAGGTTTTTCGCCAAGTCGAACAGTCATGGATTGGATATGGGCAGTCCCAGGTTCTCCCCATGCACAATCTGACCCAACTGCAGGCTCTGCCATCCCTTTGCTTCTGGCTTTTCCTCACTCCTCCCGTTAGAGTCCCAGCCTCCCATTCATGGAGCTCCCACATCTATGACAAACCAAATTCCAGGCTAAGCCAAATTTTTGTTTCCCATTCCTAGCAAACCACCTTCCTCCTACCTTCCAGACACCAACTGGCGTCTGATTTGGCTGTCTCCCTAGGAAATGGCAGTTGACTTTTCTCTATAAGGAAGTACAAAGTAGCAACAGGGTAACAAACCCTGGGCAGGTTTCATAATGATCAGGTGTCCTGATCTGGAAATGGGACAGTCACTGTCTATTGTGTGGAATGATTTTGAAGATTGACCAGGTTAATAAAACTATACCTGGTATCTGGTTGGATCTTTGTAAATGTGTTTGTTTGTTTGTTACTTTTGAACAATTGCTGGATGGTAATACAATTGAATTATATGTGTAAATTCTAATCTTTACAATAACCTTTCAGGTAAGTGCCAAAATGTCATTTCCATTTATAGAGAAGGGTTAAGAGGCTGAAGGAGTTAAAGTCATTTTTCCTGGTATCACATCCGGGTCAGTACCTTAGCATTTGAGAGGTTGACGCAGGAGAATTGCCAAGAGTTTGAGGCCAATGAGTATGGGCTTACCTGGAGGTTTGTCTTTTTTTTTTTTTTTTAACGATTTATTTATTTATTATATATAAGTGGTTGCTGGGAATTGAACTCAGGAGCTCTGGAATCGCAGTCAGTGCTCTTAACCACTGAGCCATCTCCCCAGCCCCTGTAATTTCATAAGCAAGACTCTGTCTCAAAAAATTTCCAAAAAACAAAGCAAGCGAATATGAAAATAAATAAACAGACCCCTGTGTTTTCCTTGACTCTAGCATCCAGGCCTCTATCCAGAAAGGAAGAGAGATGCTAGTCAAGAACATATTTCCAAGTCCAGTTAAGATAGCTCAGTAGGCAAGATGCTTGCGACCAAACTCGAGGGCCTGAGTCTAATATGGAACCCTCAAGTTGTTCTTGGACTGCTCTAGGTGTTCTATGGTAGGCTTTTGTGTATACACACACACACACACACACACACACACACACACACACAATGTTAAAAAGAAAAAAGAACCTACTTACAAATTCAATCACTTCCTTCTAGAACAGGCCATCTTGGAACCTAGTATTACAGGGCCAAAATGGAATGAGCTGTATAGCTTATTTCTTTCTGTAGCTTTCATAAAGTTCATAAGGTCTCTTGTATGACACAGAGTCACCCACTTTTGTATACTGTTTTATTTTTAGATTCTTCAAATTGCTATATTGTTCTTGAAAAAGCCACAGAGATTGGTCTATTCCTTCATGCAACTATGTCTGTGGGAACCCTGTGATATTCTGGGCACTGAAAATGTATCAGGGAATAAAAACAATAAAAACCGGATTGAGAATGTGGCTCCATGGGGTTGGGGATTTAGCTCAGTGGTAGAGTGCTTGCCTAGCAAGCACAAGGCCCTGGGTTCGGTCCCCAGCTCCAAAAAAAAAAAAAAGAGAGAGAGAGAATGTGGCTCCATGGTAGAGCTCTAGAGGAGGTCTATAGAGCTAGTCTACTGCGCATGAAGCCCTGGATTCCGTCCCCAGCAATGGGGGGTGCAAGGGTGGCAGGGATGTAGTGTGGTTGGCCCAGTGTTTACTTTGTACGCATGAATGAAGCCCTGAGTTCATTCTCTAGAACCCAACTATGAACAAACAACAAACAAGCAAATAAAGTCCCTGACTTTCTTCTGGTGGGGAAGTCAGTCAATAAATTGATGTCTACCATCGTATGTTAGAAAAGAGCAAGTTTTTGTTTGTTGTTTTATTTTTATTTTTCTCCAAGACAGGGTTTTTCTGTGTAGTCCTGGCTGTCTGGAACTCCCTCTGTAGACCAGGATAGCCCTTAACTACCTGCCTCTGCATCCTGAGTGCTGGGATTAAAGGTGTGTGCTACCACACCCAGCTTCGGAATGAGTTTTGAAGAGGAAAGTAAAACGAGAAGGGGTTTAGAAAGATGAGAATAGGGGTGGATTCCTGTTATACTAGCATTTGGGGATAGGAGAACGGGGAGTTTGAGGCTACCAGGCTACGTAGGGAACAAAGAGAGATCCTGTCTCAAAAAGGGGGCTGGGGATGGAGCTGTAGCATTTGCCTCTCGTGAGTGAAGCCTTTGACTCTTATCACAGAGTAAACCAGACAAAGTAACAAACCCTGAAAGCCTAGCCAGGGGCGGGAGGGAGGACAGGAGGATCAGAAAGTCAAGGTCACCCTCTGAGCACAGTGAACTCTAGGCCAGCCTGAGTATGTGACATCTGGTCTCAAAAATCAAATAGAGCTAGAGAGACGGCTCAGCTGCTTACACCACTTGCTGCCAAGTCTGACAGCCTCAGTCTGACCCCCGGGACCTACATGACATGAGGAGGGATGGACTCTTGCAAGTTGTGTTTACCACGCATGGCACTTGTGCCCACACACACAAACCCCCAAAATGAGTTAAAATGTGATTAAAACAAAACAGGGCCTGGGACTCTGTGGTTTTTCTTTTGATACAGGGTCTGATGCATCCCAGGTGACCCCAACTCACGCCGTAGCTAAGGTAACCTTTAACTTCTGATCCTCCTGCCCCTCTCTCAGGAGTACTGGCATCAGAGGCATGCACTACCACAGCAGATTGTGGGGTGCTGGGGATTGTACCAGGGCTCCCTGCACGCTAGGGAAGCAACCATACCAATCGAACTCCATCCTTAGCCTTAGCGGCTGCAAATTCAAAACACCATCCCTGGGTTTGGTCCCTAGCCCCAAAGAATAAAAAGAAATGAGTGAGTGAGTGAGTGAGTGAGTGAGTGAATAAATAAGTAAATATTAGGCAGGTAAAGCTGGGGATGTTGGCACACATCTTTAATCCTAGTACTCAGGAGGCAGAGGGAGGCAAAGCTCAGTGGATTTGAGACTAGCCTGGACTATAATAGTATGTTCCAGTAAGAGACGGGCTACTACCTGAGACCATTCAAAAACCAAAATGGGTTGGCAAGATGGCTCAGCCAGGAAAGGGGCTTGCTGCTAAGCCCGATGACCTGAGTTCGATCCCCACATGGTGAAAGAGAAATGACTCTTGAAAACTGTCCTCTGGGCGTGGCTCTTGCTCTCCCATATAGGTACATGTGTGTGCATATGCATGTGTGTGCACAAATGTATACACAGAATAAATAGAGTAAAAAATTTAAAGTGAGTAAAATTTGCTGTTAGCAAATGCCTCAAGGAAAAATGGGTATTGGGCTTTAAGAGGGTAGAGAACAGGGGTTGGGGATTTAGCTCAGTGGTAGAGCGCTTGCCTAGAAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCAGGGAGGGGGGGGGGTAGAGAACAGCCTCAGGTTTCTGGTGGAAAAACGGGCTAGGTAGGAGAGACAGCAAGCACAGTGGCCCTCCAGTGAGATGATGTTACCTACATTCCCAAAATAGGGAGGTTTGAAATGATAGAGGTGGGTGTGAGGGCACACACCAGTAACCCAGTACTTGGGAGACTGAGGCAGGGGGATCACCTTAAACTTGAGGCCAGGCTGGAATACATATAGTAAGTTAGTTCCAGGCCAGCCTGAAGACGATGAAGCCCTGTCTCAAAGACTACGACAAGCATGGTGGCACCAGCTTTAATCCTGCACTAGAGCCCTGAGCCCAAGAGAAGCCCGAGCAGAACAGAACAGAAACTAAAACACCTCAAAACCAAACACAGAGGAACCTCTTTGGGTAAATAGTTCAAGGCTAGTCTGGTCTATATAGTGAGATCCAGGCCAGCCAGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTATGTATGTATGTATATGTGTTTATCTCATTTTCAGAGTTTAATGTAGTCCAGGCTAGCCTTGACCTCAACATGTAGTTGAAGCTAGCTAGCATTGAACTCCTGATCCTCCTGCCTCTATCACCAAAGTGCTTGGATTGGTGTGATGACATGCTAGGCCTAATTTGCTTTATATGGTAGTAAGATAATAATGTAATGGTACCTATATTCAACCTCCTTTCAAAATAAACATTTGGGTACTGAGAATTGAATCCAGGGTCTTTTTTTTTTTTTTTTTCTTTTTTTCGGAGCTGGGGACTGAACCCAGGGCCTTGTGCTTGCTAGGCAAGCGCTCTACCACTGAACTAAATCCCCAACCCTGAATCCAGGGTCTTAAGCAGCAAGCAGGGCTAGCATTGTACCAGCTCATTTGAATTCCCAGCCTCATCCAGCCCTGTTTACCTAAGCAGTCCAAGTTTACCTTGAATTTATTCTGTAGCCCAGAAGTTGGGATACAGAATTGTGCCAGGCCCAGCTAGGAGAACAGCTTCAATAGGGAGGGAATTTAGTTGTACACGTGTCAAGTTTGTGATGTCTGTTAGCTATTCAGTGGGAAAAATGAATAGGCTTTGAATGTAAGCCTAAAGTTCAGAGGAGCTCTGGGCTGGAGGAACAAATATCAGAGAGATTTGCATACAAATGACTTTTCCAAAAGCCTGCCCTTAGGTTAGAGACATGATTTGATTATGCCATAGAGGTTTCCTTCTGGTAAACGCTAATCCTGGTGGTGTCAGTGCACACCTTTAATCCCAGTATTTGGGAGGAAGAGGCAGGGGGATTTCTGGGTTTGAGGCCAGTCTAGACTACACAGCATATACCAGGACAACCAGGGGGTACACAGAGAGTCCTTGTCTCAATAAAATATATAGGGGCTGGAAAGATTGCTCAGTGGTTAAGAGCACTGACTACTCTCCCAGAGGTCCTGAGTTCAAATCCCAAAAACCACATGGTGGCTCACAACCATATGTAATTGGATCTGATTCCCTCTTCTGGTGTGTCTGAAGACAGCTACAGTGTACTCATATATAATAAATAAACATCTTTAAATAAATAAATAAAATATATAGTTTTTTAAAAGACCATTTCTTCTGCCTTCTGTCTCCCAG
Seq C2 exon
GAGAGAAGATGGGGCTCTCCATCTTTGCCCTGCTGACCCTCACTGTGTTCTTGCTGCTGCTGGCCGACAAAGTGCCTGAGACCTCCCTGGCGGTCCCCATCATCATCAAGTATCTCATGTTTACCATGATCCTTGTCACCTTCTCAGTTATCCTTAGCGTTGTGGTCCTCAACTTGCACCATCGCTCACCCCACACCCACCAAATGCCCTTTTGGGTCCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014698:ENSRNOT00000019947:7
Average complexity
IR
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:
PF0293118=Neur_chan_LBD=PD(18.7=57.7),PF0293211=Neur_chan_memb=PU(81.5=31.0)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(31.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]