RnoINT0036336 @ rn6
Intron Retention
Gene
ENSRNOG00000012448 | Chrnb3
Description
cholinergic receptor nicotinic beta 3 subunit [Source:RGD Symbol;Acc:621544]
Coordinates
chr16:68880218-68881400:-
Coord C1 exon
chr16:68881291-68881400
Coord A exon
chr16:68881101-68881290
Coord C2 exon
chr16:68880218-68881100
Length
190 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
AGTGACTACTTTCATGGCAGTGC
3' ss Score
3.79
Exon sequences
Seq C1 exon
GAATGGACAGACCAAAAATTACGCTGGAATCCGGAAGAATATGGTGGAATTAATTCGATAAAGGTTCCATCAGAATCGCTCTGGCTGCCGGACATAGTTCTCTTTGAAAA
Seq A exon
GTAAGTATCTTTAATACTGCATTGGTCAGATGCAGAAAGTCTGCTTTGGGCAGAACAATTGACTATGTTTCTTCATAACATGGTTTCTTTGTAAAGCATGACTTGACATTGGGGTAGGAAAGGAAAGCCACGTAGATTGCCTCCTGTGAGTGTCCAACCATCCACTAACCAGTGACTACTTTCATGGCAG
Seq C2 exon
TGCTGACGGACGTTTTGAGGGCTCCCTCATGACCAAGGCCATTGTGAAGTCCAGTGGAACCGTCAGCTGGACTCCTCCCGCCAGCTACAAGAGTTCCTGCACCATGGATGTCACATTTTTCCCGTTCGACAGGCAGAACTGCTCGATGAAGTTTGGATCCTGGACTTACGACGGTACCATGGTTGACCTCATTCTAATCAATGAAAACGTTGACCGGAAAGACTTTTTTGATAACGGAGAGTGGGAGATACTCAACGCAAAGGGGATGAAGGGCAACAGAAGAGAAGGCTTTTACTCCTATCCGTTTGTTACCTACTCTTTTGTCCTGAGACGCCTGCCCTTGTTTTACACGCTCTTTTTGATAATCCCCTGCCTGGGGTTGTCTTTTCTCACGGTCCTGGTGTTCTACCTACCCTCGGACGAAGGGGAAAAACTCTCATTATCCACCTCCGTTTTGGTCTCTTTGACGGTGTTTCTTTTAGTGATTGAAGAAATAATCCCGTCCTCTTCGAAGGTCATCCCCCTCATTGGCGAGTACCTCCTCTTCATTATGATTTTTGTCACGCTGTCTATTATCGTCACGGTTTTTGTAATTAATGTCCACCACAGATCTTCCTCAACGTACCATCCCATGGCCCCCTGGGTGAAGAGGCTGTTTCTACAAAGACTCCCGAGATGGCTTTGCATGAAGGACCCCATGGACCGCTTCTCTTTCCCGGATGGAAAGGAGAGTGATACAGCCGTGAGGGGGAAAGTCTCAGGCAAAAGGAAACAGACTCCCGCCAGCGATGGAGAAAGAGTTCTGGTCGCTTTCCTCGAGAAGGCCTCCGAGTCCATCAGATACATTTCGAGGCATGTGAAAAAGGAACACTTCATCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000012448:ENSRNOT00000016656:4
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=0.027
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=42.4),PF0293211=Neur_chan_memb=PU(62.1=18.3)
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:
TTACGCTGGAATCCGGAAGAA
R:
ACTTCATCGAGCAGTTCTGCC
Band lengths:
244-434
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]