HsaINT0035232 @ hg19
Intron Retention
Gene
ENSG00000147432 | CHRNB3
Description
cholinergic receptor, nicotinic, beta 3 (neuronal) [Source:HGNC Symbol;Acc:1963]
Coordinates
chr8:42585737-42587692:+
Coord C1 exon
chr8:42585737-42585846
Coord A exon
chr8:42585847-42586809
Coord C2 exon
chr8:42586810-42587692
Length
963 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGT
5' ss Score
9.72
3' ss Seq
TGAAACTGCTTTGATTGCAGTGC
3' ss Score
5.18
Exon sequences
Seq C1 exon
GAATGGACAGACCACAAGTTACGCTGGAATCCTGATGATTATGGTGGGATCCATTCCATTAAAGTTCCATCAGAATCTCTGTGGCTTCCTGACATAGTTCTCTTTGAAAA
Seq A exon
GTAAGTATCACATTGTTTCTTACTTATGGGGAAAAAAATAAATTTTTTAAAAAGTGAAAAAAAGGCTGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGTGGATCATGAGGTCAGGAGATCGAGACCATCCTGGCTAACAAGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGCGCGGTGGCGGGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATGGCGTGAACCCGGGAAGCGGAGCTTGCAGTGAGCCGAGATTGCGCCACTGCAGTCCGCAGTCCGGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAATAAATAAATAAATAAATAAATAAATAAATAAAAAATAAAAAGTGAAAAAAAGGAAAGTAAGTATCACAGAAGAAAACTATTTTGGTCAGATTAACACTAGGAATAGAAAATTCTGATTCAGGCAAAATACTTAAAAGAAATATTCAATTTTAAATAAAAAAATTGTTTATTAAAACAGTTACCTGGCGTTGTGGTAGAAAAGTCCTAAAATAGGGCAGGGTGTGGTGGCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCAATTCATGAGGTCAGGAGTTCGGGACCAGCCTGGCCAACATGGCGAAACCCTGTCTCTACTAAAAATACAAAAACTTAGCTGCGCATGGTGGCCGGTGCCTGTAATCCCAGCTACTCAGGAGGCTGAAGCAGGCAAATTGCTTGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATGGCGCCACCGCACTCCAGCCCGGGCGATAGAGTGAGACTCCATCTCAAAAAAGAAAAGAAAAGAAAAGTCATAAAACAGAAATAGTCAATGCTGGGAAAAAGAACAAAAACTAGCAGGTGCTCCACCGACTGCTAAGGTGAAACTGCTTTGATTGCAG
Seq C2 exon
TGCTGACGGCCGCTTCGAAGGCTCCCTGATGACCAAGGTCATCGTGAAATCAAACGGAACTGTTGTCTGGACCCCTCCCGCCAGCTACAAAAGCTCCTGCACCATGGACGTCACGTTTTTCCCGTTCGACCGACAGAACTGCTCCATGAAGTTTGGATCCTGGACTTATGATGGCACCATGGTTGACCTCATTTTGATCAATGAAAATGTCGACAGAAAAGACTTCTTCGATAACGGAGAATGGGAAATACTGAACGCAAAGGGGATGAAGGGGAACAGAAGGGACGGCGTGTACTCCTATCCCTTTATCACGTATTCCTTCGTCCTGAGACGCCTGCCTTTATTCTATACCCTCTTTCTCATCATCCCCTGCCTGGGGCTGTCTTTCCTAACAGTTCTTGTGTTCTATTTACCTTCGGATGAAGGAGAAAAACTTTCATTATCCACATCGGTCTTGGTTTCTCTGACAGTTTTCCTTTTAGTGATTGAAGAAATCATCCCATCGTCTTCCAAAGTCATTCCTCTCATTGGAGAGTACCTGCTGTTCATCATGATTTTTGTGACCCTGTCCATCATTGTTACCGTGTTTGTCATTAACGTTCACCACAGATCTTCTTCCACGTACCACCCCATGGCCCCCTGGGTTAAGAGGCTCTTTCTGCAGAAACTTCCAAAATTACTTTGCATGAAAGATCATGTGGATCGCTACTCATCCCCAGAGAAAGAGGAGAGTCAACCAGTAGTGAAAGGCAAAGTCCTCGAAAAAAAGAAACAGAAACAGCTTAGTGATGGAGAAAAAGTTCTAGTTGCTTTTTTGGAAAAAGCTGCTGATTCCATTAGATACATTTCGAGACATGTGAAGAAAGAACATTTTATCAGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000147432-CHRNB3:NM_000749:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
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=PU(84.1=59.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAATCTCTGTGGCTTCCTGACA
R:
AAGGGATAGGAGTACACGCCG
Band lengths:
344-1307
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)