HsaINT1007685 @ hg38
Intron Retention
Gene
ENSG00000080644 | CHRNA3
Description
cholinergic receptor nicotinic alpha 3 subunit [Source:HGNC Symbol;Acc:HGNC:1957]
Coordinates
chr15:78595305-78602264:-
Coord C1 exon
chr15:78601253-78602264
Coord A exon
chr15:78596733-78601252
Coord C2 exon
chr15:78595305-78596732
Length
4520 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
TTTATCATTTTGTTTTGCAGATT
3' ss Score
11.62
Exon sequences
Seq C1 exon
TGCTGTTGGGGATTTCCAGGTGGACGACAAGACCAAAGCCTTACTCAAGTACACTGGGGAGGTGACTTGGATACCTCCGGCCATCTTTAAGAGCTCCTGTAAAATCGACGTGACCTACTTCCCGTTTGATTACCAAAACTGTACCATGAAGTTCGGTTCCTGGTCCTACGATAAGGCGAAAATCGATCTGGTCCTGATCGGCTCTTCCATGAACCTCAAGGACTATTGGGAGAGCGGCGAGTGGGCCATCATCAAAGCCCCAGGCTACAAACACGACATCAAGTACAACTGCTGCGAGGAGATCTACCCCGACATCACATACTCGCTGTACATCCGGCGCCTGCCCTTGTTCTACACCATCAACCTCATCATCCCCTGCCTGCTCATCTCCTTCCTCACTGTGCTCGTCTTCTACCTGCCCTCCGACTGCGGTGAGAAGGTGACCCTGTGCATTTCTGTCCTCCTCTCCCTGACGGTGTTTCTCCTGGTGATCACTGAGACCATCCCTTCCACCTCGCTGGTCATCCCCCTGATTGGAGAGTACCTCCTGTTCACCATGATTTTTGTAACCTTGTCCATCGTCATCACCGTCTTCGTGCTCAACGTGCACTACAGAACCCCGACGACACACACAATGCCCTCATGGGTGAAGACTGTATTCTTGAACCTGCTCCCCAGGGTCATGTTCATGACCAGGCCAACAAGCAACGAGGGCAACGCTCAGAAGCCGAGGCCCCTCTACGGTGCCGAGCTCTCAAATCTGAATTGCTTCAGCCGCGCAGAGTCCAAAGGCTGCAAGGAGGGCTACCCCTGCCAGGACGGGATGTGTGGTTACTGCCACCACCGCAGGATAAAAATCTCCAATTTCAGTGCTAACCTCACGAGAAGCTCTAGTTCTGAATCTGTTGATGCTGTGCTGTCCCTCTCTGCTTTGTCACCAGAAATCAAAGAAGCCATCCAAAGTGTCAAGTATATTGCTGAAAATATGAAAGCACAAAATGAAGCCAAAGAG
Seq A exon
GTAAGGATATGGCTTTTATTACATTGGTCATTCATTCATTCAACAAATATTTATGGGTTCCTCGTGGGGCAAGGCATAGGGTAGGGGGTTAAGAAATTGCCCTCTGGAGTCAGTGGCCTGTGTTAAGACCAGTTATATGTCCTTGGGTATGTTACCTCACCTCTCTGAGCCTGTTTTCTCTTCTGTAAAATGGGATGATAAAGCTTGGTATGTGGTACCCTGAAGCTAGCCACCAGGCTGCCAGCAGGCTGGCAGGCTGGACCATGAAAACACCTGATGCCAATAGACTAGATTAGGATGTAGGCTGGAAAAGGGCATGGGGCCAGATGATCTCCAGTTAGTATTGGTTAATTGAGGTTATATTTTTATTTTTATTTATTTTTTTGAGACAGGGTCCTGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCGCAATCTTGGCTCACTGCAACTTCCGCCTCCCAGCTCAAGCGATTCTCCCACCTCAGTTTCCCGAGTAGCTTGAACTACAGATGCCCCGCCACCATACCCTAATTTTTTTGTACCGATGGGGTTTTGCCATGTTGCCCAGGTTGGTCTCAGACTCCTCGACTCAATCTGCTCACCTCAGTCTCCCAAAATGCTGGGACTACAGGCATGAGCCACCGCACCTGGCCTTTATTTTTACTTTCTAATTGTATATGTGTTCTCACTGAGGAAGAATTTACGTGGAGTAAAGTGCACACCTCTTCAGTGTACATCTCAATGAGTTTTTACATCATGTATACAACCATGTAACCAAGACCCAGGTAAAGATATAGAACACTCCCAGGGCCCCTAGAAAGTTCCCCAATGCCCTTGCCAGTCAGTGTCTCCCTCCCTGCTTGGTACCCACCATCCTGGCTTAGGCGCAGTGGCTCACGCCTGTAATCCTAGCACTTTAGGAGGCTGAGGCAGGTGGATGGCTTGAGATCAGGAGTTTGAGACCAGCCTGGGAAACATAGCGAAACCCCGTCTCTAACAGAAATACAAAAATTAGCCAGGCGTGGTGGCACGTGCCTGTAGTTCCAGCTACTCAGGAGGCTGAGGTGAGAGGATCACTGGAGCTCAGGAAGTCTAGTGAGCTGTGATCATGCCACTGCACTCCAGCCTGGGTAACAGAGTGAAGTCCTTTCTTTAATTAATTAATTAATTTTTTAAAAAACCATTATACTGACTTATTTGATAATTGATTAGTTTTACCTATTTTTTTTTTTTTTTGAGATGGAGTCTTGCTCTGTCACCCAGAATGGAGTGCAGTAGTACAATCTCTGCCTACTGCAACCTCTGCTTCCCAGGTTCAAGTGATTCACATGCCTCAGCCTCCCAAGTGTCTGGGACTACAGGTACCCGCCCGCTACCATGCCTAATTTTTTGTATTTTTAATAGAGAGGGGATTTTGCCATGTTTGTCAGGCTGGTCTTGAACTCCCGACCTCAGGTGATCTGCCCGCCTTGGCCTCCCAAAGTGCTAGGATTAAAGGTGTGATCCACCACACCTGGCCTTTTGAGCCCTCAGAAGAACATTTATCCATAAACATTCTTGAGAAGGCATGCCAATAAGAAGAGAAATAAATCCAGGGGGCTACAAAGGAGAGGAGGAAAGCCTCAGGCTCCACCAGTCAATGGGCAGCTCAGTTCTCTGCACTTCCCTTTAGCCAGGCTCTGCTGGGCTTGTGAGGGACCCCCTGAACCTGCATCTCTGGGCTGGGAGTGGCAGGCTAAAGAGGCAAAGTGGCAGGGGAACAAAGATCTCCCTAGCTCTCCCCTCCACCAAGCCCCTCCCCCTGCCAGCCCCAGTCTCTGGCCACACCTTCCCAGTTTCTGGGTCTTTAAAGTAGTCTTCTCATGCTTCTGGGCCAGCTCTCAATTTGGGCTAGTTCACCACTTTGCCTAACATCTGTGACTCATCAGAAAATGGCCAATATCATTGTGCTTTAAAGACTTTAGGAGCTAGATATAAGCCAGGCACAGTGGCTTACACCTGTAATCCAACACTTTGGGAGGCCAAGGCAGGAGGATCACTTGAGCCCAGGAGTTCAAAACCATCCTGGGCCACGTAGGGAAACCCTTTCTCTACAAAAAAAATTTAAAAATCAGGCCAGGTGCAGTGGCTCACGCCTGTAATCCCAACACTTTGGGAGGCCGAGGCAGGTGGATCACCTGAGGTTGGGAGTTCAAGACCAGCCTGGCCAACAATGGTGAACCTCCATCTCTACTAAAAATACAATAAATTAACCGGGGGGTGGTGGTGGCATGAGCCTGTAATCTTAGCTACTCGGGAGTCTGAGGCACAAGAATTGCTTGAACTCGGGAGACAGAGGTTGCAGTGAGCCAAGATCACACCACTGGACTCCAGCCTAGGTGACAGAGTGAGACTCCGTTTCAAAAAAAAAAAAAAAATGCCGGGTGCAGTGGCTGACGCCTGCAATCCCAGCACTTTGGGAGGCTGGGGCAGGTGGATCACCTGAGGTCAGGAGTTTGAGACCAGCCTGGCCAACATAAAACCCCATCTCTACTAAATACAAAAATTAGCTGGGCATGGTGCTAGGCACCTGTAATCCCAGCTACTCAAGAGGCTGAGGCAGGAGAATTGCTTGAACCTGGGAGGTGGAGCTTGCAGTGAGGCGAGGTCATGCCACTGCACTCCAGCCTGGGCGTCTCAAAAAACAAAAAATTGCCCAAGTGTAGTGACACACACCTGTAGTTCCAGCTACTCAGGAAGCTGAGTGGGGAAGATTACTTGAGCCCGGGAGGTCAAGGCTGCAGCAAGCCATGATTGCACCCCTGCACTCCAGCTTGAGCAACAAAGCAAGACCCTGTCTCAAAAAAAAAAAAAAGATATAAAATTTCTGTCCAGCCAGCTCTTTTTGCACCACTATTTCTATTCATGTATAAAACCCAAGTGTCATCTTTCTTCATGAGGCTTGAGTAAGGGTCATTTTATAAATCAACATTAGTATCACTAGGCTCTATTCATTAAGGACTCTGTTCTGAAACAAGCTTCTGAGGGAAGTACTGTTCTTATCCCCATTTTACAGATAAGGAAATTGAGGCTAAGAGCGGTCATGGAATTTACCCAGATTCTCACAACTCAAAAGGAGCAGAGCTGGGATTCTAATCAGTTTGTCTCCAAGTCTCTGCTTTTCCACACCTCTGCCTCCTAGAGCCTTAGGAGGTGGCTGGTAGGGGGTGGGTAGGAATCTCACATCTCAAGGTGTATCTGAAGCACACACAAACCAGTCTTAGGAATTCAAATGAAGTACCTCATGGCAAATATGGCATCATAATTCTAATTTTACCTATGACAGTAGTGTCACCAAGAGAACACATTTACTCAGGCTCACAATGGTGATGTAAAATCTTCATCTCCCAGCGCCATTTCAGTATACTTATAATAAAGAGGCAGCATGTAATTTATTAATTTCATTATTGCTTCAAAATCAGCTGACTCATGGGTTCTCTCAATTCAATTATGGCTTCTTTGCTTTCTGAATTGTCTAGGAGTATAATTACAATTTTCCTTCCTATTTCAAGCCCAAATTGAAGCTGTATTATATACAATTGGTCTTGCTTTTTCTCCCATCTTTTACTTTATTGTCAGCAATTATTTCTGATGTTCAACCTGCTCTCCAACTGCACAGTATCCCATGATACTTTGGTCTTATGAGTAAAAATGACTTTTGATCAGCTGGGCATCGTGGAGAGGGCAGTGGGGAGGGAAAGAGTGATGAGGATGGACTTGCCCTGATAACGCTTATCTCATTTTTGGAACAGATGTTAAAAGGAAATTTATTTTGTTGTTTTTGAGACAGGGTCTCGCTCTGTTGCCCAGGCTGGAGTGCAGTGGCGTGATCTCTGCTCACTGCAACCTCCGCCTCCCGGGTTCAAGAAATTCTCATGCCTCAGCCTCCCAAGTAGCTGGGGATTACAGGCATGTGCCACCACTCCTGGCCAATTTTTGTATTTTTGGTAGAGACAGGGTTTCAACAGGGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGACCTCAGGTGATCTCAGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACTGCGCCAAATTTATATCTAAAACTGGATAGAGTACTTTGAAACAATGGTAGATTATATTGGACTATATTAGCCATTCTAACCAAGGCCCAGAATCCTGCCATGGAAGCCTAAGTAACTGGTTTCACTAACTTTATAAAATTGGAATTCAGTTTAGAAAAACTAGGTTATGCATTTTTAGGAAACTTCTGATTTGAAACAGATCTAACATGACAGATCTTTTATACCTGTTTCTCTCCTGCATAAACAGAAACTTGAGAATGGTGGATTTCCTCAGACCACATCAATTAGGAAAAAAAGGGCTTCTTACATATTAGAGACAAAATGGCTTCTACTGCAACGTGTTGATTACATCTTCAGTATTGAAAATGTATTCATTTGCCTTTCCCTCCATGTTTTTTTTCTTTTATCATTTTGTTTTGCAG
Seq C2 exon
ATTCAAGATGATTGGAAGTATGTTGCCATGGTGATTGATCGTATTTTTCTGTGGGTTTTCACCCTGGTGTGCATTCTAGGGACAGCAGGATTGTTTCTGCAACCCCTGATGGCCAGGGAAGATGCATAAGCACTAAGCTGTGTGCCTGCCTGGGAGACTTCCTTGTGTCAGGGCAGGAGGAGGCTGCTTCCTAGTAAGAACGTACTTTCTGTTATCAAGCTACCAGCTTTGTTTTTGGCATTTCGAGGTTTACTTATTTTCCACTTATCTTGGAATCATGCAAAAAAAAAAATGTCAAGAGTATTTATTACCGATAAATGAACATTTAACTAGCCTTTTTGGTATGGTAAAGAGATGTCAAAATGTGATTCTATGTGATTAGTATGCTATGCTATGGAATATACATGTAAAAATGTTTCCTTTTAGTTGTTGAAACAAAACTGGATAGAAAAATGCTGTTCAGAAATATGAAAAGTCATTCAGTTATCACTACAGATCTCCCAGTAATTTTTCTTATTTAGCCCATAATCTCTTTGAAGGTTTATACTAATTCAGCAATCCCCCATCGTTACCCATTTCTTACCATGCATTTCTCGTTCTTTACTGGGTCTAAAGGGCTATGCCTCCATTTCAGAGAGCTTCAACTACTTCTCTTGCATACTTCTAAATTATACCATGAGAAATCATGCCTAGTTATTCATTGTTAATATAACTGTCTTAGTACACCATAAACTGGGTGGATTATAAACAACAGAAACTTCTCAGTTTTGGAGGTTGGGAGGTCCAAGGTCAAGGCACCAGCAAATTTGGTGTCTGGTGAGGGTCCTCTTCCTCAAAGGGTGCCTTCTAGCTGTGTCCTCACATGACTGAAGGGACTAGCTATCTCTGTGGGGTCTATTTTATAAGGGCACTAACCCCATTCATGAGAGCAGAGCCCCCATGGCCTAATCACCTTTCCAAGGCCCCACCTTCTATCTAAGACAATCACGCTGGGAATAGGTTTCAACATATGAATTGGGGGAGGACACATTTGGACCACAGCATGAACCTTTAGAACAGGGTTTCTCAGCCTTAGCACTATGGACATTTTGGGCTGGATAAATATGTGTTGGTACAGAATGGGGGTATCCTGTGCATTGTAGGATCTTTAGCAGTACCCTAGCCTCAACTCACTAGATGCCAATGACATACCTTGCTTCTTCACCAGTTATGATAACCAAGAATGTCTCCATTGTTAAATGTTCCCTTAGGAGCAAAATTGCCCCTGGTTGAGAAACATTGCTTTAGACAAATTGTTAAGAGTATCATGTACTACACTTCTGAAACTTAACGTGATCATCACCACTGACAGATGATTCACAGAGACTGTTTGAATCTTGTCTCACTAGTTTTTCCTGTGCAAAAATAAAATGGACAGAATTGCAGCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000080644:ENST00000326828:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.024 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=34.0),PF0293211=Neur_chan_memb=PU(86.7=63.6)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(12.5=72.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
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