HsaINT0035179 @ hg19
Intron Retention
Gene
ENSG00000120903 | CHRNA2
Description
cholinergic receptor, nicotinic, alpha 2 (neuronal) [Source:HGNC Symbol;Acc:1956]
Coordinates
chr8:27324746-27326896:-
Coord C1 exon
chr8:27326852-27326896
Coord A exon
chr8:27324856-27326851
Coord C2 exon
chr8:27324746-27324855
Length
1996 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
AACTCCTTCCCCACACACAGGAG
3' ss Score
5.82
Exon sequences
Seq C1 exon
GATGAGAAGAACCAAATGATGACCACCAACGTCTGGCTAAAACAG
Seq A exon
GTGAGGGCCCCCCTCCTCCAGTCCAGGTGGCGGGTACCGGGAATCCATGGACCCCAGACCCCTCCAGGACTTCTTCGCTAGTGAAAGACCAAGGAACAGCAAGACCCTGAACTTAGTTTACCAAGCAGATGCCATGTGGGATGTTCCCAAAGCTGACTTTTTCCACAGGGCCTGTGCTCTTTGTGGCTAGACTGGAGTCTAGTGCCTGAGAACATAGCCTCAGGCACTAGAAAGCCAAGTGGTGCTTTCCTGGGAACAGGCATCTGTTCATCCCTGCTACTTCGGAATCCTCCCCAAAGCCCCACGGGGGGTTCATTCTGCCCATTTTACAGCTCAGGAGATCACGAAGCAGAGAGAAGCTGGGCTGGAAAAGGGGGCCCAGCTGTGCCTGACTCCGAGTCCCAGGCTCCTTCTATGGGAGAACGCTGAGTGCTTAATACCTATACTGCCACCCAAATAACCCCAAACTTAGAGGCTCACAGCAGCTCCCAGCTCACTGTATCTCATGGCTTTATGGCCAGGAGTTTGGGTGGTTTCTTCTGCTTCACATGGTGACCACTAGGGTTACTTTGTGATATTTGAGTGAGGGTTCATCTGGTCTGGAGGGTCTGAGACAGCTTAATTCACACATCTGTCCCTTAGCAGGGATGTCTGGAAGGCTCTGGAAGGTGCTGGAAGGTTCTGGAAGGCTGGACTCAGATGGGCCCTTCGCCCCCTTCAGGCATCCTCAGAGTCTCTCCAGCAGGGGAGTCAGACATCCTGCCTGGTGGTTCAGGGATTCCAGAGTGAGAGTCCCAAGAGACAGGGAGTAAAAGAAACTGGGCCAGCATTGATCTTGTTGTATACTACTGGTCCAGACAGTCATAGAGCCCAGTTAGACTCAGGAAAGGGCGCACAGATCCCGCTTAGGTCGGAGGCTTCCCTCCCTCTGATGCTGTAACCCAGGAGCTATCAGGGGGTCACTCATCTCATCTTTACAGATGTGACAGCTGAGGGCCAGAGGGAAGCAGGAACTTGGAAGCTACCCAGTCATGCGGTGTATGTGTGCAGGGAGGCAGGCCTAGAACCTGGGCTGCCACAGTTGTCCCCATGGGCTGGTCACCTGGGCTTCAGGGTTGGGGTGGCAGGGCAAGGAAGGAGTACTGGAGTTTGAGGCCAGTCAGCAATGCCTCTGATTAGCTTGTGATACTGGATGAGCTACGTAACCTCTCAGAGCCTCAGTTTCCTCATTTGCAAAATGAGGATAACACAACCTACTGCCACATGCCTGGGAGGATTAATGTACCACAATTTGGTGTGGGTGCCTCAAAATGTTGGTTGGACCTGAAAACTTGACAGATGGACTACGGAGATAATACGAACCTGATGGAGGCAGGGGGACTGATTTGGACCTGCGTCGGTGGAGGCAGGGGTGGGGGCCAGACATCCCGTCTCTGGTGGGACTCCTGTGGGGCACTTGAGAGTGCAGTTTGAAGGTCCCCGGGTAACACCCCTGCCTCACTGTATGCCTCTGGCTGGTTGATTTTCCTGTCTCTGGGTCCTCAGTTTGCTCATCTGCTAAATGGGGAGATACTTTCACCTGCTCTGCATTCCCCGCTTGGCTCTCCCGTGGAGGCTTTTCCTAGATGGAGAGCATAAAACAAACCATAAACTGTGATGCCCTAAAAATGAGAGATTTCACTAGAGATGAGTGAGGTGGCCCACCAAGGTCGTCCAGCCAGGGATTGGCAGAGCGAGGACTAGAGGCAGGACAAGGGTGAACTTCATGTGCCCGGGACCTTGACTACTAAAGTCCAGGCAAAGCGAGAAGGTTGGTTACTTGCTCAGAGCCCGTTCCCAGCACCGCAGCTCCCTCCACTATTCTGGGCTGGGTGGGGAGCCCTGGCTGCTCCAAGGGGGCTGCTTGGCCCAATTCTGGGCATCCCCGGGGTGTGCTAGCTTTGCCCTAGGCTGCTCCCTGGAAGCGAGGTTGACACAACTCCTTCCCCACACACAG
Seq C2 exon
GAGTGGAGCGACTACAAACTGCGCTGGAACCCCACTGATTTTGGCAACATCACATCTCTCAGGGTCCCTTCTGAGATGATCTGGATCCCCGACATTGTTCTCTACAACAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120903-CHRNA2:NM_000742:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(14.6=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(18.8=100)
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
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)