RnoINT0036276 @ rn6
Intron Retention
Gene
ENSRNOG00000020293 | Chrna10
Description
cholinergic receptor nicotinic alpha 10 subunit [Source:RGD Symbol;Acc:620142]
Coordinates
chr1:167206722-167208971:-
Coord C1 exon
chr1:167208439-167208971
Coord A exon
chr1:167207934-167208438
Coord C2 exon
chr1:167206722-167207933
Length
505 bp
Sequences
Splice sites
5' ss Seq
TCGGTGAGC
5' ss Score
9.1
3' ss Seq
CAATGCTCTCTGTACCACAGGAA
3' ss Score
7.51
Exon sequences
Seq C1 exon
GGCGGACACGCAGCCACCTGCCTCAGCCAGCACCAACGTGGTTGTGCGGCACGACGGCGCTGTGCGCTGGGACGCACCGGCCATCACACGCAGCTCGTGCCGTGTGGACGTGTCTGCCTTCCCTTTTGACGCGCAGCGCTGCGGCCTGACCTTCGGCTCATGGACGCACGGTGGGCACCAGCTGGATGTGCGACCTCGGGGCACTTCCGCCAGTCTGGCCGACTTCGTGGAGAACGTTGAATGGCGGGTGCTGGGCATGCCAGCACGCAGGCGGGTCCTCACCTATGGCTGCTGCTCTGAGCCCTACCCAGATGTGACCTTTACTCTGTTGCTGCGCCGCCGCGCTGCAGCCTACGTGTGCAACCTCCTGCTGCCCTGTGTGTTCATCTCCCTGCTGGCACCTCTGGCCTTCCACCTGCCTGCTGACTCTGGGGAGAAGGTGTCTCTGGGCGTCACCGTGCTCCTGGCGCTCACCGTCTTCCAGCTGATCCTGGCCGAGAGCATGCCACCTGCAGAGAGTGTGCCACTCATCG
Seq A exon
GTGAGCCTGAGGGCGAGGGCGTGGGAGAGTGGACACTAGGTCAGAAGAGTGACCAGGGCAGGGGACGAGAGAAGGTAGACCTGTCTGGGAGAACAACCTGCACTGCTAGGGCCTTGATGGAGGAAGATCTGGTGCCCAATGTAATAATAAACAAACTGTAGTGAGGGATAGCTGTGTGCCGGGCATTCTCCTGTGCACTTGACATTCGTTCTCTCACATGAGCCATGCTATGAACCAAAGAGTAGCCAACAGGTTATCCCAGGTGTACACACAGGACCAGTATCTTGTTCAGGTTGCAACCTCAATCCCATCCCCAGTAGAGGAAATAATAGGTAGCAGATATCTTCAGAGCCCTAATCAGAGTGAGAAGAGGGGAGAACTTAGGTCTTTGTCTCTCCCCTCACCGGGTCTGATACTGGCCTTCTTTCTATTTATGATGAGGCAACTGGGAAGCTCTACCGTCTTCATTTCCAGTTTGGGGCTCACAATGCTCTCTGTACCACAG
Seq C2 exon
GAAAGTACTATATGGCCACTATGACCATGGTCACATTCTCCACAGCACTTACCATCCTCATCATGAATCTGCACTACTGTGGCCCTAATGCACATCCAGTGCCCGCCTGGGCTCGGGTTCTCCTGCTGGGACACCTAGCCAAAGGCCTGTGTGTGCGGGAACGAGGGGAGCCCTGTGGGCAGTCCAAGCCACTAGAGTCAGCCCCCAGCCTCCAGCCTCCACCAGCTTCCCCAGCGGGCCCTTGTCATGAGCCACGGTGTCTATGCCACCAGGAAGCCCTTCTACATCATATAGCTTCCATTGCTAGTACCTTCCGCAGCCACCGGGCTGCCCAGCGCCGCCACGAAGATTGGAAGCGTCTGGCTAGAGTAATGGACCGCTTTTTCCTAGGCATCTTCTTCTGCATGGCTCTGGTCATGAGCCTCATTGTACTGGTGCAAGCCCTGTAAGGGCCAGGAACTGGATTTCAGGGAGCTACGGTCACATCAACACCACCAGGCAGGAATGGCAAAGCCCAGGTGGTTGTTGGTACTCAGATGCACTAGCCAGTCTCTCCCCAAAGTGCTGCTAACAGTCAGAGACACCTCTTCAGGACCAGTGCTTCTGACCTCACAACTTACAAACAGCCTTTGCGATCTACATGCCCTCATGGAGGGGGATCTAAAGCCCACCTCTAATTCCAACATGATTAAGGTCAAAGTACAAACTTGGAGGATAAGACTCAATGCCAGATGAGCACGGTAATTCCAGCACATGGAGGCTGAGACAGGAGGATTACCTTAAGTTCTGTAGCCTGAGGCATAAAAAATTTTTTTGAATAGTCACCCCATTGTCTACACTTGGAATCATAGCTATTGGCTGGGGGAATCCAGATTATTTCTGTCTATTGAGACAGAGTCTCACTATGTAGTCCTTGCTATCCTGGAACTCGCAATGAAGCCCAGGCTGGCTTTGAACTCACATAGATCCACATGCCTCTGCCTTTCCAAACACAGGTGCCACTATGCCTGGCTAGAGTGTAGGTTACTAATTAAAGGGACAAAGCCACACTTTGCTTGTCACCCTTAGCAGTTGCTGTTACAGATTCTCACCTGGCTTGTTTCTGCTTAGGCTCTCCCGGAAGGGAGTTCACGGTCTAGTTTCCAGAACAGAAGGCTGTGCAGACATTTGACCCAGAACTTCAATCCATAATAAATGAGAGTATTCCCGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020293:ENSRNOT00000027507:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.017 A=NA C2=0.107
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=64.2),PF0293211=Neur_chan_memb=PU(37.8=31.3)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(61.5=60.7),PF0293211=Neur_chan_memb=WD(100=46.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Mouse
(mm10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGTGTTCATCTCCCTGCTGG
R:
GACTCTAGTGGCTTGGACTGC
Band lengths:
355-860
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]