HsaINT0035216 @ hg38
Intron Retention
Gene
ENSG00000170175 | CHRNB1
Description
cholinergic receptor nicotinic beta 1 subunit [Source:HGNC Symbol;Acc:HGNC:1961]
Coordinates
chr17:7445270-7446113:+
Coord C1 exon
chr17:7445270-7445409
Coord A exon
chr17:7445410-7446068
Coord C2 exon
chr17:7446069-7446113
Length
659 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGG
5' ss Score
8.3
3' ss Seq
CTTAAATTTTTCCCTTCTAGAAC
3' ss Score
9.78
Exon sequences
Seq C1 exon
GCGTCCGCGGCTCGGAGGCGGAGGGTCGACTCCGGGAGAAACTTTTCTCTGGCTATGATAGCTCCGTGCGGCCAGCGCGGGAGGTGGGAGACCGTGTCAGGGTCAGCGTTGGTCTCATCCTGGCGCAACTCATCAGCCTG
Seq A exon
GTGAGGGCGCGCGGGGGGTGGAGGTCAGGCCAGCCGACCGGCCGGGGGCGTGGCTTTAGGCAAGGCCGGACCAGGGACAGGCTGGGGGCGGGGCCTGGGACGAGACCAGGCTGAGATGGACCAGCCTTTGGTGAAGATTGGATCGAAATCAGACCAATGGACAAGCTCTGGCCGTGGGTGGTGGACGGGCCTGGAGTAGAACTGGGTAGGGTGAAGGACGGACCTGTGATCGGACCTTAAAGTGGGGCTGGGGACGAGGCAGGGGCTGGGGGACGGACCTCGACGTAGGGCCACATGAGTCCTGAGTGCCCAGGGTGGGGCGGAGCTTGGTGCTCAGGGGTCAATAAATGGCAGCGGGTGGAGGTTCGGGGCTGGGTGGATTATGAGCTGAAGGCAGGGCCGGGGACAGAGCTAGGCGGAGGGCTAGGCAGGGGCGGGTCTGGTAGGTTGATAGGCTGGGAGTGTAGACGGCAGGAAGAGGTGTTTCTGAGATAGAGGCAGGTCTTAAACTAACGCCGCTTCTGGGAGGTGGACTTGGACCCGAGAGGATGGGGCTCAGAAAAAGGGGGCGGCGTTCCCAGGAGAGAGGTTGGCCCCCCGAGCCCCCTCATTTCTCTCCACCCTACTTCACCTTTACGCCTTAAATTTTTCCCTTCTAG
Seq C2 exon
AACGAGAAGGATGAAGAGATGAGCACAAAGGTGTACTTAGACCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000170175:ENST00000306071:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.023 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(17.8=83.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PU(4.6=88.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
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]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development