Special

HsaINT0035176 @ hg19

Intron Retention

Gene
ENSG00000120903 | CHRNA2
Description
cholinergic receptor, nicotinic, alpha 2 (neuronal) [Source:HGNC Symbol;Acc:1956]
Coordinates
chr8:27328503-27336813:-
Coord C1 exon
chr8:27336341-27336813
Coord A exon
chr8:27328712-27336340
Coord C2 exon
chr8:27328503-27328711
Length
7629 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGA
5' ss Score
10.77
3' ss Seq
CCTTTCTTGGGCTTGCTCAGGTT
3' ss Score
6.75
Exon sequences
Seq C1 exon
AGAGAGGCTGTGTGTGTGTGTGTGTGTGTGTATGTGTGTGTGTGTGTGAGAGAGAGAGAGAACAGCGTGAGCCTGTGTGCTTGTGTGCTGAGCCCTCATCCCCTCCTGGGGCCAGGCTTGGGTTTCACCTGCAGAATCGCTTGTGCTGGGCTGCCTGGGCTGTCCTCAGTGGCACCTGCATGAAGCCGTTCTGGCTGCCAGAGCTGGACAGCCCCAGGAAAACCCACCTCTCTGCAGAGCTTGCCCAGCTGTCCCCGGGAAGCCAAATGCCTCTCATGTAAGTCTTCTGCTCGACGGGGTGTCTCCTAAACCCTCACTCTTCAGCCTCTGTTTGACCATGAAATGAAGTGACTGAGCTCTATTCTGTACCTGCCACTCTATTTCTGGGGTGACTTTTGTCAGCTGCCCAGAATCTCCAAGCCAGGCTGGTTCTCTGCATCCTTTCAATGACCTGTTTTCTTCTGTAACCACAG
Seq A exon
GTAAGAAAGGTACCCAAGGCTTATGTTGAGGGCGGCATGCATGTGGAGAGCTTGTGGATATGGGGTCAAAGAAATACTAGCAGTTTCTGGGTACTCAGGAGGGGGTTATGTCTGAATGCTGGATGTCACCTGCTCCTAGAAATATTTTAGTCTCCTGGTTGTCCCTGCTGGAGCTGTCCACAGCCAGGTGACGATGAACACCTCCTGGCTAGGATGGCTAGCCCAGTCTCAGGAATAGTGGCTTTGTTACACTGTATCTGCTCCTATGTCTTTACTACTGCTGTCCATTCTTTTGTTCATTTATTTACTCATTCTGTAAATTGTCTATGTCCTTTAAAAGGGCTAAAAGACAGCAATGCTATTTACTGACTTAGAAGGTAAATACCTTCCAAGGTTCTTCAAGTTCTTTACAGCTGGGCTTGTTCCAAGGCTGGCATTTGTGAAGTGGATTCCTCCATCAGCTGGTGTGGTTGTTCAGATGACCTTCAAGATCCCACCCAACCTTGAGTGTTAAACTTCTGTGATTGAGCAAAACAGATATAAAAGCTAGAATTACACTCTCTAGCCCCTAAGCACCTTGAGTGCATTTATTTGGAAGAAGAAATCATACTGGTTTCTCTAATGGAGGGGCTTCTTTGGGAGTGTAATGTTGCCAGTTGTGAAAAAGCTGAGACCTGTATGCTTGGGGAGGTTCTGGACAGCAGAAAGGAACCAGGTGGGATGGAAGCAGCCTTTTGGGAGAAGGAAATGTTAGTAAAAAGAGGAGAATGTGGACTGGTGGGTGAGAAGTTGAAAACAGAATTAGTAGAACCATGGACAGGGAAGTGAGCTCAAATCACCTTGACCTCCACGGAACCAGGATTCAGGCAGGCTAGAGATGCTGCAGTGAGTGTGGGGGTGGGGTGGGGGTGGCCTGGAACTGGTGTACGTGAGCAGCGACACAAGCCCAGTGGGGACACTGATGTCCGAGCACTTTACGTATGCAATCTCTTTTACATAGGCTTCTCTGTGTACCCCATTCACCCAGACCCACTTTACAATTAGGGACCTCATCCCACTCTCTCCCCTTCCCCAAATCTGCCAATCCAGCCACTTAGAGGGTCAAAGTGTGCAGCTCTTTTTTTTTTGACATCTTCCTAACCAGAGGTGGAAGTTCCCTCTAATTACTGTCAATCACCTGGAACAATTCCTCCTTTGGTTTCCAGTGACAAATTAAATGAAATGATATAGTGGGCTTATCACAGGGGATGCAGGTTTGAGGCATCTTGCTGGGAATACATCCTCTAGAGTCACTGCATCTTATTTGCACATTCTTCTGGGGGTTCCCGGGTGGCTCTCCTTGGATCTCTAAATGATGCAATGTTAGCATGCTTGGATTCCTATTCTCACTAATGGAGAAAAAAAAATCTCCTTTTTAAAAAATGCACTTGGTTAAAAGGTGAAACAGATGATAGCTTTGGAATTTGCAACTATGATATTGGTTGGCTGGATGAGAAAGTGAATCTGCACTAGAGGAACCTGCTAGAATCTGGGATCCAGGTGGGCCTAGCTTTGGGGTGAGGTGCCTGTCCCCTCTCCTCACTTGTCCTCAACAGACCTCAGTCCTGATGGTGGCTTAGCAATGACAGACACAGTGCTAGGGTCTACGGAACACAGGTGAGTACTGGCTGAATTGCTAATACGAAATCGCCCCCCTAGTTAACACCACGTTATAATTTATCGCATTCTAGTTTCGAAGCTAAAGATCTTAGCTTGAATCTCAGCTTTATCACTTTTTATCTATATGGCTTTGGTCAACTTCTCTGAACATCAGTTTTTTTTTTTTTTTACTTACATGAAAGGGATAATTATATCTCTTCCCCACACCCTCCTAGGGGTCACGTGAGGCCCAAATAGGTGAAAGCTGCAAAAGTACCTTGTAAACCTGAAAACAACATAAATGCACAGTGTTCTTAGGAAGACGTTTTAGGAATTAACATCAAGGGGGATTCTGAAATCCTCGTTCCCTGCCCCAAATCAGCCCTGTGTTCTAATATCTAGTAAAAACTTCACGCCTGTATGAAAGTAGACATAAGCAATGGAATTTCACAACTCTTTTTTATTTTAACTAGCAAATGAAACTTCTAGATGGCACTGAGCCACAGGTAAATGGGGAAGGGTGTGGGATCTTTGAGGATCCTAAATCCTCCAGGTAGAAAGGATGAAAGAGACAAGAGACAAGGAACCAGAAAGGCAGCTTTGTGATTGTCAGGTGTTTGAATGATTGCGGAGAGCAGAGAAAAAAACTTCACCTGCTCTGCAGTTTCCCCTGGGTATTAACGAGATTTAATCTCGGATAACAACACTAGGGTCTCTAAACTCAACTCAACACAACTCAAGCATCTCTCAGATGCTTATGCAGATTCAGACTCGAGGAAAAGCTTCCCAATGTGGAGAGTTGTAAAAAGCCTGGAAAGGATGCCTCAGGGAACTTGGGGCCTCCCTGGATGGCTTTGGAAGCAATGGGGCTAAATGAATAAAGTCATGCCCCACATTAGGGGTGGACGAGTGGATGAGACTCTAGCATTTTCCTTCCTTTTGGTTCTTCTCTACTCAAGCTCACTCAGTTCCCTGTTCCTAGTGCCTGGCACACTGTTGGCCCTGATGAAGAATGAGGTAGTACATTCTCTTACAGTCCAAGCATGAAACAACAACAACAACAAAATGAATGAGGTAGTGGAAAGATAAACAAAGAAAAGGATAAACAATCACACTATGAATGCAAATGTTTGATGCAGTGCTGCTCCCCAAATTAAGTGAGAAGCCTTAGTCTCCTTCCTCAGGCTCTTGGAGCCCTCCTCCTGCCCTGGGTACCTTTTGCAGGTAGCTCTGAACACCTGGAACCCACAAAGTAAGCTGGGGCTGTGCTTGGGGCTGGAGGGAAGAGGTGAATAAGATACAGTGGTCACCCTTAAGGAGTGACCTCACGACAGGAAGTTCCACTTTTCTCTGAAAGTCCCATTTGACCTTTCAGATCAATGTAGCGATCCCATTTCCTAGGCCTCAGCCCTAAGGTGATTCCAGATGAACACAGCTGACCTTTAAAAAGACTATTTTTGTGGTAAAATATACATAACATAATTTACCATAATAATGTAACCATTATTAACTGTATATAGTTCATCGTGTTAAGAACATTCACATTGTTGTGTAGACATCACCACTGTCCATCTGTAGATTTTTTTCATCATCCCAAATGAAACTCCGTACCCATTGAACAATAACTCCTCACTCCCCTCCCCCTAGCTCCTGGCACCCACCATTCTACTTTCTGTCTCTATGAATTTGACTATTCTAGGAACATCCTATAAAAGGAATCATAATGTCTTTGTCTTTTTGTAACTGGCTTATTTTACATAGCATAATGCCCTCAAGTTTCATCCACGTTGTAGCATGGGTCAGAATTTCTGTCCTTTTTAAGGACAAATAATATTCCACTGTATGGATAGACCACATTTGTTCAACCATTCATCTGTCGCTGGATACCGGAGTTGCTTCCACTTTTTACACAGCTGATTGATGAACTGCACTGCATTCTGATGGAAGAGTGGAGTCAAATCTACACAGTTTGGGTGAGCTCCTGCTGCTGTGAGATGAGGGGAGGGCTTGTAAAACACATCACAGGTATTGCTGCCTGCTTGAAAATTATTTTTATATTAAGTGACCGATACATGTTGATAGTGGGAAATTTGGAAAATGCAGAAAACTGTCAAAAAGAATAATAATCACCTCTAATTCCTGCGCCCAGAGATAACACAGGTGATCTATTTGTATGCAGAAAAGAGATTAAAAGAGAAAAGAGCAAGATGGTAAAGCTGTCTCTGGAAATCAGTTAGCTGTGCTGTTTCCTTTGCAATGGTCTGCTTTGGGGAAGTCCCCTGGGGACAAGTCCCTGCACCTTCGAGGGCCAGAGATCCCAGACCTTGCCACTGCGGTTCACCTGAGCCACAGAAGCTGCTGATGCCCAGGCTGGGGTGGGTGCTGTACAAACATTCTGCATAATTTGCAGGGCGATGTGAGTTTACACATTATATAAAGCTGCACTCCTGAACGAGAGCTCTTGACAGTTATGCTGCAGGGTTTGCTGTGTGAACAGAGCAGCTCCAGTGGGGCTGTGTGTACCAGGCCTATCTGTGGAGAAGCTTCCCACTGCCAGGACTCCCTGCTTCTCCCCCTGGAGGCACCATTCTGGGAGAGCTTTGGGATGCTCTCTCGGGCAGTTCATTCCATACATATACTGGGAACCGCCAACCTTTTGCACCTGCCAGCTGGGGATTTTCAGAGCCAGGAAGGAACCGGGAACCTCTAAGAGCTGGGACAAAGGGAGGAATCCCAGGGCAGGATGGGGTGTAGGGTGGCATGGAGGATAAGGGCAGCTCATGGACAGGGGCAATATTCTCCCAAGGGAACAGAAGAAAAATGTAATCCTCTATTTTCAACAAGTCTTTGAATTGAAACCTTCTGGGGAAATTGATGCAGGCAGGCCCTTTTCCCCTAAAACACTCTGGTGTCTGTGCTGTAGTCAGTATATGCCAGCAATTCCAACACATTGAAATTCACATCAAATCCTTCCCACATTCCTCTTCTCCTACTTGACCCAAACTGTCATTGTGCAATGCCACTGTGGGTCATGGGCCCTGACAACCATAAGAGCAACCTGTTCCCTGACCAGCCCTCTGCAGTTCCCCGGGGACTTTCATGGGCACAAGTGATCCCGTTTGCTCCCGTCACTCCTCCCACAGGGCAGAAAGTGTCCAATCTTTATCTTAAGACAAAATCCCAGGGGGATTGAGTGACCTTTCACAGATCATCACCAGCCAGTGGTGGGGCCAGGACTCAAAGCGACATTTGCCAGTGCCAGCCCTGCTCTCATCTCCTGCCAGGAGGTTAGGATGGGCCGGTGCAACCGACCCTGGGAGAGATGGAGGATTAGTGATGCTGGAAACACTGTTGAGAGTCTGTGTCAGAGTGGACGGGGGGGATGAGAATGACTAGATAGAAGTGGTTTCACAACTTCATGAATAATAATTCTGATTCTCTCATACCCGGTGGTTTACTTTTATTTTTATTTTCTTTTTGAGATGGGATCTTGCTTGTTGTCCAGGCTGGAGTGCAGTGGCAAGATCATAGCCCATTGCAGCCTTGACTTCCCCAGGCTCACACGACCCTCCCTTCTTGGCCTTCCCAGTAGCTGAGATCACAGGCACGCACCACTATGCCCAGCTAATTTTTGAATTTTTTGTAGAGACGGCGGGGGGGGTCTCACTATGTTGCCCAGGCTGGTTTTGAACTGCTGAGCTCAAACACTCCTTCCATCTTGGCCTCCAAAAGAGCTGGAATTACAGGCATGAGCTACTGTACCCAGCCCTTGGTTTATATTTTTAAAGCCACTTTTACCCTTATTCTTTCTTGAAAAGTTGTGGCTAAATACACATAACATAAAATTGATCGTTATTGGCATTTAGTACAATTCGAACAGTGTGCAGCCGTCACCACTATCTAGTTCCAGAACATTCTCACCCTTCCAAAGGAAATCCTGCACCCACTAGCTGTACCGAGAGCCTTTGTTATCTCCCTAGGCCACATACACGATGTGTCCCGGAACATGAGGCCATGCTCTTCTCTCCATAAGGGGGGCTGTTTCAAAAAATGCTAATTTGAATGTGTAAGCTTTTAAGGCAATAATGTTATTTTAGTGATATATATATATATTTTTTAAATCAAATACTCTATAAAATAATATTTTAAAATACTGCTTTTCCCAATTTTCTCAATTATGAAACATTCATTTCATATGAAACATTATATTTACCCCATCTTTGACATCTGTGTCCTTCTGGTCACTAGAACCCTTTGTGTATTGATTCTCCATGTTTGGCAAATATCACTGTCACCACAGTCAAGAGGGGTAGCTGCTGCTTCTTAATCCATGAGGTGTTTGTTTATTTTTTAATAATAACTTTTTTTGAGATAAATTCAAATATCATAAAATTCCCCCATTTAAAGTGTGCAATTCGGTGAATTTTAGTATATTCACACATCTGTGTAACATCACACCGTCTAGTTCCAGAGATCTCTTATCCCCTCTAAGGGAAACTCAGTGATCATTAAGCAGTCACTTCCCATCCCTCCTTCCCGCTGCCCCTGCAACCACTAATCTACGTTCTGTTTCTATAGATTTGCCTATTCTGCATATTCCATATCAGTAGGATCATACAATGTGTAGGAAAAACCACAAACTGTTTTTCTCTGCTCTCACCCCACAACAATCAACACGGAAGACTTCTGTGACCCCCCAAAGATGTGGGGATTTCTCCTCACCCGCAAGCAAGCTGTCAATTCTGCAGCAGAGATCAGCTGGGTGCCTTCTAATTCAATTCAGACACCATCCATCTGGAGACAGCTCAGATCCCACACGTCGAGGGCTCAGTCCCCAACACTGCCCCCCAATGTCAATGCCGATCACAAGTCCTAGGTTGTTTTACCTGTGCTTCTAACCCACTGGCTATAAATTGGGGTTCCCATGACCCCCTCCCTGGGTTCAACTAACTTGCTAGAGTGGCTCACAGAATTCAGGGAAACACTGGTTTACTAGCTTATAAGAGATAGTGTAAGATACAGGTGATGAGATGCATACGGCAAGGTTTGGGAAGGGGCACGGAGCTTCCATGCCCTCGCTGGGCTCATCACCCCTCAGGAACCTCCAATGTTCTGCTATTTAGAAGCTCTTCAAAACCTGTCCTTTCGGGGTTTTATGGAGGCCTCATTATGCAGCACGATTGATTAATCCAGTGGCCATTGGCGATCAACTTAACCTTTATCTCCTCTCCTGTCCCTGGAGGTTTGAGGGGTGGGGCTGAAAGCCCCAACCCTTTAAAGCCTGCCTTTGTCTTCCTGTGACCAGCCCCATCCTGCAGCTGCCTAGGGGCTGCCAGCCACCAGTCATGCAAAAAGATATCATTTTGGAGATTCCCAGTATCTTAGGAGTTGTATTCCAGGAGATAGGATTGAAGACCAAATATATTTTTTACAATATCACCTTCAGTATGTGGCTTTTTGCCACTGGCTTCTGGTACTTTGCACAATGCTTTCTAGGTTCCTCCATGCTGTAGCAAGCGTCAGCACCTCAGTCCTTTTTATGGTGGCATCATGTTCCGTTGTAAGGATTTACTGCCTTTTGTCCATCCATTCATCAGCTGATGGACATTTGTTTGGACAAAAGGCTGTTTCCACTCTTTGGATCTTGTGAATAGTACCCTGATCCTTTTATTGACCACTCTTTGCAGTATGATTATCCCCATTTTATAGATGACCACTGAGGCAAAGCAATGGGGACCTCAGTCCCATCCTGTGCCCTCCTTTGCCCAGTAGGTCAGGGCTGGTCTTAGGGCAGAGTCGCTGGCTGACTCTGGAGAAAGAGGAAGAGGCTGATTCCTCAATAAGCCAGGGAGAGCCCAGGAGCACTTAACTGCTGAGAGGCCTGCTGAGGGCCTTTTGCTCTCATTTCATGCCTGTGTGGAGCATGAGAAACAGAAATATGCCTATGTCAAGGATGCATGACCCTAAGAGCCCTTTCTTGGGCTTGCTCAG
Seq C2 exon
GTTCGGTGGTGAGAGGAAGCCTCGCAGAATCCAGCAGAATCCTCACAGAATCCAGCAGCAGCTCTGCTGGGGACATGGTCCATGGTGCAACCCACAGCAAAGCCCTGACCTGACCTCCTGATGCTCAGGAGAAGCCATGGGCCCCTCCTGTCCTGTGTTCCTGTCCTTCACAAAGCTCAGCCTGTGGTGGCTCCTTCTGACCCCAGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120903-CHRNA2:NM_000742:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact

5' UTR

No structure available
Features
Disorder rate (Iupred):
  C1=NA A=NA C2=0.000
Domain overlap (PFAM):

C1:
NA
A:
NA
C2:
PF0315410=Atrophin-1=PU(5.4=12.0)


Main Inclusion Isoform:


Main Skipping Isoform:
NA


Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
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]


SPECIAL DATASETS

  • Genotype-Tissue Expression Project (GTEx)
  • Autistic and control brains
  • Pre-implantation embryo development