RnoINT0036285 @ rn6
Intron Retention
Gene
ENSRNOG00000013829 | Chrna3
Description
cholinergic receptor nicotinic alpha 3 subunit [Source:RGD Symbol;Acc:2345]
Coordinates
chr8:59602852-59604914:-
Coord C1 exon
chr8:59604870-59604914
Coord A exon
chr8:59602962-59604869
Coord C2 exon
chr8:59602852-59602961
Length
1908 bp
Sequences
Splice sites
5' ss Seq
CAAGTAAGT
5' ss Score
10.08
3' ss Seq
TCCCTCCCTCCCACGGCCAGATC
3' ss Score
8.12
Exon sequences
Seq C1 exon
GATGAAGTAAACCAGATCATGGAAACCAACCTGTGGCTGAAGCAA
Seq A exon
GTAAGTACCCAGGCTCTGTGTACTGCTGCCCCCTAGTGGTGATTGCTTTATTTGTGCTGGGGAAAAGGGAGTTGGACGCTATTCCTAGATCCAGGACAGGGTCACCTCATGGCTCTTGAGGACTGACTCCTCTCTCACGTCACAGACAAGTTACAGCCTGGAGAGAGAATTCTCTCCATGGCCCCGCTACAAAACTGAACAAGCTGGCCACAAGCTGATGTGGTGACTCAAGCCTTTGATCCCTGCACTCAGAAGGCAGAGGGAGATGGATTTTTATGAGTTCAAAGCCAGATATATATCAAGTTCCAGGATAGCTATGTAGAGGGACCTTAATCTCAAAAAACAAAACCAACCAACCAAACAAAGACAATTTGATCTACAAAATGAGTTCCAGGCCAGCCAGGATCACACAGTGAGGCCCTGTCTCAACCTTCCCCTACCCCCCTCCCCACACACACTGTACCCCAACCCCGGATTCTACTAGCACTTGCGATAACAGCCTTGCTTTCTCTTGTGAAGCCAGAGGTGGATTCTGTTGCATTATGGGTAGGCAGGGAGTACAACACTGGTGTTCTTTAGAAGGAGGGAATGCGCTTGGTTCCCACATGTCCTCCCCAGGGACGCTTTGGCCAGATCTTTTGGGAGACATCATGACTCTGCAGCCTAATGATAGCTGGCCCATCTGCCAGCTCAGCCAGCCTAGCACTCAGCTCCTGCGAGCCCTTGCTTGAAGAGGCTGTCGAGACAAGCGTAGTGTCCCATCTACATGTTCCCCGACAGCCCCCACCCCGACCCCCTGCTTCCTTCTGTGGTCTACACTCAACACCTTTAGGGTCTTGTGGGATCATGGCTTCATTCTGAGGGGAAAAGACTCTTTTTAGTTAGAAAGCATTACTGTTTTTTTGAGATGGGGGAGGGTGTCTCATGTGTTTCATGCCAGCCTCAAGCTCACTGTGTGGCTGAAGAAGACCTTGAGCTCCTGGCCCTCAGCCTTCATCTCCCTAGGGCGGATTATAGGTGTGCACTCCCGTGCTTGGTTTCTGTGCTGGTGGAGACTGAGTCTGTTAGATGAGCAGGCTACCGAGTGAGCCACATCTCTAGCCCCATGTATTCGATGTGCACGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGCATGTGTCTAGGCAATCGTGTGAGGGTGTGCATGCATGTGTGTGAGGTCAGACGTTGATGGGGGATGTCTTCCATGATCAGTCATTGCATCACTGGTTGAAGTAAGGTGTCTCACTGACACTAGAGCTCAGCTAGGGAGCCAGCTTACCTCGGGGGTCCTATTTCTGCCTCCCCTCAGAATTATAAAATGGGAAGGTTGTGTGGGTGCTGGGGAGCCTCACACTTATGCAACAAATCCTTTGTTGATCGGCCAACCCCTCCTTTCCTATTTGAGACAGGGTCTCATAGCTCATGGCCCAGGACTCCCTATATAGCTTAAGCTGGCCTTGAACTCACAACCCTCTTGCCACTACACCTGGCTGGAGAGTGATTTCAAAGCATAAAAAAAAAAATAAGAGCTTAATGTATAAGCTGGGTAGAAACCCAGAAGGCTGACACCTTGGCTAATGTGATTGGAGAAGGTAATGATTAACGACTCCCATTTGGTTGAGAAGGATTAGTCTCCCCAGTCTTGAAGGATGACTTCTAGAGCAAGGGCAACCTGCAGACTCAGTCAATGCTATCTGTCCTGCTGCCCCATGTTGCTCCCTTGGGCCAACACTTTCTGCAGCATGTAAATGGCTCAGTGACCCAAGGCATGGGTGACCTGTCACCATGGTGGCCATGATGAAATTCTGTCAGGAGAAGGAAAATCTGGTCAGCCCTTCCACTGTCTTCTCCCTCCCTCCCACGGCCAG
Seq C2 exon
ATCTGGAATGACTACAAGCTGAAATGGAAACCCTCTGACTACCAAGGGGTGGAGTTCATGCGTGTTCCTGCAGAGAAGATCTGGAAACCAGACATCGTACTGTACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000013829:ENSRNOT00000019307:3
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(6.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(17.4=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]