HsaINT0035180 @ hg19
Intron Retention
Gene
ENSG00000120903 | CHRNA2
Description
cholinergic receptor, nicotinic, alpha 2 (neuronal) [Source:HGNC Symbol;Acc:1956]
Coordinates
chr8:27320496-27324855:-
Coord C1 exon
chr8:27324746-27324855
Coord A exon
chr8:27321511-27324745
Coord C2 exon
chr8:27320496-27321510
Length
3235 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGA
5' ss Score
4.46
3' ss Seq
AGCTCCTCTCCTCTTCTCAGTGC
3' ss Score
8.2
Exon sequences
Seq C1 exon
GAGTGGAGCGACTACAAACTGCGCTGGAACCCCACTGATTTTGGCAACATCACATCTCTCAGGGTCCCTTCTGAGATGATCTGGATCCCCGACATTGTTCTCTACAACAA
Seq A exon
GTAGGAAGCCATTGGGGTCCTGGGGGGATGAGGGGAGGCCAACTTGCAGGGGCCGGGTCCATGGCCTTGGGAGGGGCCCCCCTGGTGTCAGCTTCCTCGCCTCCTTCTCGACTGCTGTGCTGAGCATGCCTCCCCTACCTCTCTCTCTATTCCTTCATTTCTTTCCTTTTGTTCTCACTCTACACCAAAATGAATGGCAGCTGAGCACCTTTTAGGTATCAGTGCCTGGCACTGTGCTAGAGGGACAGAGATTTGTCCATACTGAGTATTCTTTGAAAAATTTGGTGCAGGCTCAAAAAACAATACCTTGGGGTTGAAGTTGTGAGGGGTGGCAGTGTTGTTCAGACAGGCAGGCAGCATCGGGCCAGCACCTTCAAAGGGCATGTGCTCACTTGGTATGCAGTTTCCTTTTTCCCAATCATGTTGTTTTGTAGTTGTCTTCAAGACTAAAAAGGAGTAATCTTTGACCACAATGACAAGAAGTTAATAGAAGGCAGAGGAGTCTAAAGAGAGCCCCAGGGGACAAAAATAAATCAATAAAAAATATTTTGATGGAATAAATAGACATCTATAATTTCATTTCTGTGTTTGGTATCAGACAATTCTTCCCTTAGAAGTAAAGAAGTTAAAATGAAAAGATATTTGGTGTTATGTTCATCTAAAAAGGTTTTCTAAGGTGGGGCTGTAAGGAGCATGGCTTCTTTGAGTTATAAATAGGTATGAAAAAGGGTTCTGTGGTCAAGTAATTTTGGATAACATTGTATGTCACAACACCCACCCCCATCCCCACCCAAGTCCTTTGGAAAATGGCAGAGCACAATAGCATTTTAAAAAATGTTATTTGAAGTTCTGCAGCAAAGACACCCACCTAGCCCAGCATTTCCCAATTCATTTGATCCTACTTTGGAAATGCTATCTTTAAAGAAAGAAATAAAAGGAAAAACAACCCATTTCTGGATTTTGTGTCTTCAGATGGGTCAGATTTTTTTTTTTACACCGTCCAGTTCTGGTCAGAACTACGCCCTTGCACCTAAGCCATTTTGGGGAACACGTGTTCATCCTGGGTTCTTACACTGGCCGCTCTCACACAGCAGGTGCCTAGTGTTTGCAGCTGCTGCAGGACTCATGAACTCCCCACCCTGTCGTATCTCTGTGCCCCATAGCTGGCACCCAGGGTCCTTCTAGTTTCCACTTCCTGTACATGTGGCAGAGGTCAGGAGCAAAGTCCTACATCAAATATGACTTCGAGTTTGACAATTATCCAATAAGACTTCAGCCGGTGTTACCTGATTTATTACAAGAAATGTTGGTGGGGGACAAAATTCCAAGCCGAAGTCTTGCTTACATTTAGAGATGGATCCCCTCCACCCAGATACCCCACTCAAGGTTAAGAGGAAGGCATCTTAGAGTTTGCAAGGTTCCTTCCCCCAAGTGAGCACATGTTGCCATCTAGTGGTCATTGTTTGTGATAAACAAAATGCTTAAAAATTTTTTGTTTTTGCCTGGGCGCGGTGGCTCACACCTGTAATCCCAGTACTCTGGGAGGCCGAGGCCGGCGGATCAGGAGGTCAAGAGATTGAGACCATCCTGGCCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCCGGGTGTGGTGGTGGCACCTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATTGCTTGAACCTGGGAGGCAGAGGTTGTAGTGAGCCGAGATCACACCCCTGCACTCCAGCCCGATAACAGAGTGAGATTCCGCCTCAAAAAAAAATTTTTTTTAACTTTTGTCTCAATGTATTTGTTACTCCCTTTCAAAGTTCCTATTTCCAGCCTGCCCATATCTCTACCATGGAACTACTCCATGGGGGAAAAAAGCCCCCTGTTCCCAAGTACTCTTCTGATTTCTTGGATTTTAGGATTGACTGTGGGAATTAGAAGGGGAGGGAGGATGGTTAAAGACTAGAGCAGGAGCCCACCGAGCCACCTCCTGGTGGAATCAGGGGCTGAGGCTTCCAGGAAGTGCTACCTGACTGGTCACCACTATTCCAGTGTCCCCAGACTCCTTGTGGGTCCTTGAATGCCTAGTCCCACGATACCCCTGATTCACACTCTCTGTCCCTGTGTGACCCTCTACTGGAAGGCTCTCTGCCCATTTCTCAGCCAAATCCTACCATCAGTCAAGGCCTTTTGCAAACGGCAGGCTTATCGATGACCCTGCTCACCTCCCAGAAGGGAGTTTTCCCCCAAAGGGTCTGGGGAGCACCCAGACTGCCCTCTTAGTGTTGCCAACTGCCTGCCTGATGTTGCAGTGGTTCCTGGAGACGTCTCATCTCCTCATGGCTCCTTAAAGGCAGGGACTTTTCTCATATTCCTCTTCTGCACAGCTCTGGTACAGGCCCTAGCGGATGAGGGGCTCAAAAACGCATGTTAAATGGATACATTCAAGGTAGTATCTTCACCCGCAAAGGTGTTAGGTCTCTTCTGAGCAAGGATGATCCCAGGTGGAAAGGGATCGCCCTCCTAAGGGACCGACTCATCATCTGCTAGGGAAGAAAAACAGACTCATAGATATCACTCTAATATATTAAATGATCAGCTCGCAGGAGGACAGCTTTGACCCCCTGTGATGTCATCCCCACCCAGCCAATCAGCAGCAAGCACCTGGCCACACCCACCCCTTCCCCAAAACTGCCTTTGAAAAACCCCTAACACGCACGAACTTTGGAAGAGATGCTTTGAATGCTATCTCCTTCTCCCCCGTGGCGTGGCTGGCCTTGTGTCTATTCAACTCTTTCCTTACTGCAAATAAAATAAAATATTAAATGAATAAAAATAGGCAATCAAGCAACATATACCCCATGATCACAAATATATGATTGTCATATACTGATAGATTATGTATATATAATCGTTTTACATTTTATATATATACATATATATCATCAAAATGTTATTAGTGGTTGTTTTTAGAATTCTTGGTACTTCCTTCTATTCCTCACAATTCCTCCTTTTGTATTTAAAAAGGTAGTAATTGACAAGACAGCTCAGTGGCTATAAATGTGCATGCCGGGGGAGACTTACACACTTGCATAAATAAACCCCGCCAGTGTGGCCGGGTCTGACTTGGTTCTTCGGGTTCCCCTGCTGCCAGCTCTCTGAGTAGCCTGGCTCAGGCAGGTGGGTGTGCAGGGGTCTCCCCAGCTCCTCTCCTCTTCTCAG
Seq C2 exon
TGCAGATGGGGAGTTTGCAGTGACCCACATGACCAAGGCCCACCTCTTCTCCACGGGCACTGTGCACTGGGTGCCCCCGGCCATCTACAAGAGCTCCTGCAGCATCGACGTCACCTTCTTCCCCTTCGACCAGCAGAACTGCAAGATGAAGTTTGGCTCCTGGACTTATGACAAGGCCAAGATCGACCTGGAGCAGATGGAGCAGACTGTGGACCTGAAGGACTACTGGGAGAGCGGCGAGTGGGCCATCGTCAATGCCACGGGCACCTACAACAGCAAGAAGTACGACTGCTGCGCCGAGATCTACCCCGACGTCACCTACGCCTTCGTCATCCGGCGGCTGCCGCTCTTCTACACCATCAACCTCATCATCCCCTGCCTGCTCATCTCCTGCCTCACTGTGCTGGTCTTCTACCTGCCCTCCGACTGCGGCGAGAAGATCACGCTGTGCATTTCGGTGCTGCTGTCACTCACCGTCTTCCTGCTGCTCATCACTGAGATCATCCCGTCCACCTCGCTGGTCATCCCGCTCATCGGCGAGTACCTGCTGTTCACCATGATCTTCGTCACCCTGTCCATCGTCATCACCGTCTTCGTGCTCAATGTGCACCACCGCTCCCCCAGCACCCACACCATGCCCCACTGGGTGCGGGGGGCCCTTCTGGGCTGTGTGCCCCGGTGGCTTCTGATGAACCGGCCCCCACCACCCGTGGAGCTCTGCCACCCCCTACGCCTGAAGCTCAGCCCCTCTTATCACTGGCTGGAGAGCAACGTGGATGCCGAGGAGAGGGAGGTGGTGGTGGAGGAGGAGGACAGATGGGCATGTGCAGGTCATGTGGCCCCCTCTGTGGGCACCCTCTGCAGCCACGGCCACCTGCACTCTGGGGCCTCAGGTCCCAAGGCTGAGGCTCTGCTGCAGGAGGGTGAGCTGCTGCTATCACCCCACATGCAGAAGGCACTGGAAGGTGTGCACTACATTGCCGACCACCTGCGGTCTGAGGATGCTGACTCTTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120903-CHRNA2:NM_000742:5
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(18.8=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(59.9=33.9),PF103294=DUF2417=WD(100=49.6),PF0293211=Neur_chan_memb=PU(86.7=63.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]
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)