HsaINT0035191 @ hg38
Intron Retention
Gene
ENSG00000101204 | CHRNA4
Description
cholinergic receptor nicotinic alpha 4 subunit [Source:HGNC Symbol;Acc:HGNC:1958]
Coordinates
chr20:63343223-63351027:-
Coord C1 exon
chr20:63349653-63351027
Coord A exon
chr20:63346864-63349652
Coord C2 exon
chr20:63343223-63346863
Length
2789 bp
Sequences
Splice sites
5' ss Seq
TCGGTAAGT
5' ss Score
11.78
3' ss Seq
GACGGCGTCTGTGCTTGCAGGTG
3' ss Score
9.14
Exon sequences
Seq C1 exon
TGCTGACGGGGACTTCGCGGTCACCCACCTGACCAAGGCCCACCTGTTCCATGACGGGCGGGTGCAGTGGACTCCCCCGGCCATTTACAAGAGCTCCTGCAGCATCGACGTCACCTTCTTCCCCTTCGACCAGCAGAACTGCACCATGAAATTCGGCTCCTGGACCTACGACAAGGCCAAGATCGACCTGGTGAACATGCACAGCCGCGTGGACCAGCTGGACTTCTGGGAGAGTGGCGAGTGGGTCATCGTGGATGCCGTGGGCACCTACAACACCAGGAAGTACGAGTGCTGTGCCGAGATCTACCCGGACATCACCTATGCCTTCGTCATCCGGCGGCTGCCGCTCTTCTACACCATCAACCTCATCATCCCCTGCCTGCTCATCTCCTGCCTCACCGTGCTGGTCTTCTACCTGCCCTCCGAGTGTGGCGAGAAGATCACGCTGTGCATCTCCGTGCTGCTGTCGCTCACCGTCTTCCTGCTGCTCATCACCGAGATCATCCCGTCCACCTCACTGGTCATCCCACTCATCGGCGAGTACCTGCTGTTCACCATGATCTTCGTCACCCTGTCCATCGTCATCACGGTCTTCGTGCTCAACGTGCACCACCGCTCGCCACGCACGCACACCATGCCCACCTGGGTACGCAGGGTCTTCCTGGACATCGTGCCACGCCTGCTCCTCATGAAGCGGCCGTCCGTGGTCAAGGACAATTGCCGGCGGCTCATCGAGTCCATGCATAAGATGGCCAGTGCCCCGCGCTTCTGGCCCGAGCCAGAAGGGGAGCCCCCTGCCACGAGCGGCACCCAGAGCCTGCACCCGCCCTCACCGTCCTTCTGTGTCCCCCTGGATGTGCCGGCTGAGCCTGGGCCTTCCTGCAAGTCACCCTCCGACCAGCTCCCTCCTCAGCAGCCCCTGGAAGCTGAGAAAGCCAGCCCCCACCCCTCGCCTGGACCCTGCCGCCCGCCCCACGGCACCCAGGCACCAGGGCTGGCCAAAGCCAGGTCCCTCAGCGTCCAGCACATGTCCAGCCCTGGCGAAGCGGTGGAAGGCGGCGTCCGGTGCCGGTCTCGGAGCATCCAGTACTGTGTTCCCCGAGACGATGCCGCCCCCGAGGCAGATGGCCAGGCTGCCGGCGCCCTGGCCTCTCGCAACACCCACTCGGCTGAGCTCCCACCCCCAGACCAGCCCTCTCCGTGCAAATGCACATGCAAGAAGGAGCCCTCTTCGGTGTCCCCGAGCGCCACGGTCAAGACCCGCAGCACCAAAGCGCCGCCCCCGCACCTGCCCCTGTCGCCGGCCCTGACCCGGGCGGTGGAGGGCGTCCAGTACATTGCAGACCACCTGAAGGCCGAAGACACAGACTTCTCG
Seq A exon
GTAAGTCCCGCCCATGGCTGTGTTGGGCGCCTCTGACCCAGACGGAACCGGCGGACGCCCTTTCTTCCTGGTGTGTAATCCAGGAGCCGGGCCCAGGCCTCAGGCTGCTTCGCTTTGGGGTGCAGGGCGTGGCCCCTGCTGCAGCAGCCTCTTCCCAAGCCTGCTATGTGGCCGCAGGTCCCAGGCTGAGCGGGGCAGGGGGCCCCGAGTGGCTGGCACAGGGTGGATCCCGGTGCCGTCTCTGGCTTTGGGACACAGTGGGCCTCGGCGGACGGCACGGTGAGGGGCCACAGGCAGCGTCCTTCCAGCACAGAACGGGGGCGCTCTGGGAACTCCTGCCCAGCAATGGCCAAGTCCCCAGAACGCAACGAGGCACTGCCAAGGCCCTTTCTCCAGAGTGCGCCTGTGCCTGCCCCGCGGGCCTCCCCGGGGCCCCTCCGTATCTGGGGCCTGGATGTAGGGGGCTCAGAGAAGATGGGATGGGATGGGCTGGTGGCAGGAGGACGGAGCTGGGACAGGGACACAGCTCCAAGACCATCAGCCCCACACGGCCAAGCTGGGGACAGGTGGGAGAGCCAGGGGCTGGGGGCAGAACGCTGGTCCCACGGCTAAGGCCCCCCGGGGCCCGGGGCCAGCCCACCTACCCTCACCCTCCAGCGCCAGGCACTGGCCGCACAGAGGCCCCAGGAGCCACAGTTTCTGCTAAGTGGCAGCCATGTCCGTGTTACCCGTGGCTGTGCAGTCTCCTACCCATTCCATGCAGGAGAGGCTGGGGCTGAGCCAGCTTTGCCTGACCCCAGCACCAGGTAGCTTCCCTGTTTCCTTCTGCAGACATTTACTGCCTGTCACATGGGGGGAGGCACAGGGGCCAGGGTCCACGGACAGGATAATGGGGCGGGACGGGTGGGGCACACAGGTGGCCGGGGGTCTCGGCCTCGGCTGTGCAGCCCATGACGTCCACAGCGGCAATTCGGCATCTGTCCTGTCCATCCACCTGCTGTCGCCGGCACCTCCTGGCTCTTGTCCCGGTGCCAGGGCCTGGTGCCCTCAGTGGGCCACCTCCGTCTGAAGGGGCCACCTCTGCCAGGACCCCAGAGCGCCATCCTCGATGGTTTATTCGGACGCATCTGGTGCCTGCCCCCACTAGCTGAGCGAGCCCCAAAGCGAGGGGCCCGTGCTCCATACCCATGAAAAGTGAGGGAGTTGCTCGCCCCACACAGCCACCCCACTGAATCCCAAGAAGCTGCAAAACCTCCTGCAGGTTCCAGAACATTCTGGGGTCACGAGAGCAGCCTGGAGAAGCATCGGGATCCTGCTTTGCTGCCAGCTCTTGAAGCGAGAGGCAGCTGTGCCCGGGCTGTGCCACCGTGGGGTCAGATGCATTTAGGTGTTTGATCAAAGCGGTCCTGAAGCTGGCAGTGGGTCTGAGCTCGGCGGTCGCGCGCCCTGGGCCCCTCCAGCAGCCTTCTCGGGCCGATTGCTGCCGCTGCCTGACCTGGTTCTGGGCTTGTGGGGAGCAGAGCTGACTTCACAGCAGCCACCTCGGGGACAAAGGGAAGGCTTTGGTCTGCGGCTGCGTTTCATCTTCAGGGTGGATGGAACGCGGCACACAGAACCCAGGGAACTAAAGGCACATAGGAAAGGGCGAGAGGGCGGCCGCGTCCCCGCCCCCAGAGCCGAGGCCTGGGCAGGACTTTATTTATAAGTGACCCCGTTTGCCTTCAGGCTTCCCGTAGATAAATGCGGCCGTTTTGGTTCAGTTTAACACCATCAGGAGACCCGGGATTGCTATAAACAATCAGAGCAGGAGGCGGCACTGTCCCCACAGTGTGCCCAGGCCCCCGCGGCACATCCCTCCCATCCCTCAGCATCCACAGGCCTGGGACCCAGGACACCCTCACGGCCGGGCCCAGAGGCAGCTCATCAGCTTGGGGGTTGTCTCAGGTCCTACACGGCAGAGCCAGAGACGCGGGACGGGGGAGCCGGGGCGAGGGCAGTGGCCAGCGGCATGAGTGCCTTGGGCTGCACACAGCGGCTGTCTCGAGAGTGGCTTCCCGACTCCAGGCCTGACCAGGCCACTGCCTCTGCCCTCCCTAGGCCTCTGCTCCTGGGGGTCACCCGGGGGAGGTCCGCCCTGCATCAGCCCCAGGAGTGTGGGGTTAGAAGCCGGACCTGGAGCCGGAACCCGCTGTCCCCGTTCAGATATGTAACCGCAGCCGCCCCTGAAGGCCTCAGTGTGAAAACGAGACAGGCCAGGGGAGGCTCGAGTGAGAGACTGCAGATGGCGGCAGCTCTGCGGGCTCCATGTGTGCTGCTTTCGTCCGCCCTCTGTGCGCCCACCGGGCCACATTTGCCCATCTGCAAAACGGGGAGGGGGATGGGCCCTCCCAGCGCTGGTGAGCTGAGAGCAGACCGCTCACGGGGTGCCTGAGCCCCCCTCCCCCGTGCCCCCTTCCCGGAGCACAGGCCGCCTGCTGAGAAGTGGGGGCACACAGGGCATAGTGCAGAGCTTGTCTCCACAAGGGGGTCTGCCCAGCCAGAATTCCCAGGGTTGCAAGGTCCTCCTGCCCCATACCATGGTGATGATGCCCCCCGCAGAGCACTGGCTGTCCCGTGCACCCCAATTCCTCCCCTCGGTGCAGCTGTGTGCCGCGTGCACCAGCAGCAATGGCTGCCTCGGGTGGAAGGTGGGAGGTGGAGAAGCTGTTGCCGGCGGCGCCGGGGTCCTGAGGGCTGTCCCCGCTGGCGGCGGCCGGGCCGTGCTGGAGTGACGGCGTCTGTGCTTGCAG
Seq C2 exon
GTGAAGGAGGACTGGAAGTACGTGGCCATGGTCATCGACCGCATCTTCCTCTGGATGTTCATCATCGTCTGCCTGCTGGGGACGGTGGGCCTCTTCCTGCCGCCCTGGCTGGCTGGCATGATCTAGGAAGGGACCGGGAGCCTGCGTGGCCTGGGGCTGCCGTGCACGGGGCCAGCATCCATGCGGCCGGCCTGGGGCCGGGCTGGCTTCTCCCTGGACTCTGTGGGGCCACACGTTTGCCAAATTTTCCTTCCTGTTCTGTGTCTGCTGTAAGACGGCCTTGGACGGGGACACGGCCTCTGGGGAGACCGAGTGTGGAGCTGCTTCCAGTTGGACTGTGGCCTCAGGAGGCAGTGGCTTGGAGCAGAGGTGGGGGTCGGCGCCTTCTACCTGCAGGACTCGGGCTAAGTCCAGTTCAAGAGTCTCCTGAGCTCCCCTGCAGATGGAACTCACTCCTCCCAGTCTCTCAGCAGATCTGGTGATGGTCCCGACCGCCCCAAGGGGCCCTTGAAGGGAGTTCACGCCCCTTCAGCCCCAAGCGCCCCGTCTTCTGGAGGCCCGGCCGCCTCTCCCACCCACCGTGTCCTGCGCCTGTGTGGGCTTCAACTTCTCCCCCAGGGTCCTTGAGCCTCTCGGGCCCCATGAGGGTGAGCCAGCAGCGCTCCAATCTGCTTCGCTAGGAGAGGGTCCAGGCAGGGATTGTGTTTGGTTGTGTTTTGGGTAAGTTAGTGAGAACTCAAGTCTTGTGCCTAAGGAGCCTTGGAGAACAGAGTTTTGTGGAGCTGGTTCCGCGTGGGGAGAATCGGGAGGCCCACGCGGGACCAGCTCTCCCCTGCGCAGGCCCTCCGCGGGGGACAGGAACACCCAGCCCCAGCGAGTCTGGAGACCAGGACTCTGCCTTCCAGGCGTAGGGCCAGGGCTCTGGCAGGTGGCCAGGGCTCCACGGGGGCCTAGTGGCTTCAGCCCCTGGGGTACTTCTGTGTTGTGATTCCCCGGAGCTGGGAAGGTCCCGAATGGAGTCCAGACCTGGGCCCTGGTTCCCCCAGGACCCTGAGGGTTTCCACCTTGGCGCGCAGCCCGGGAGATCCGCCCTGGGCTCTGGGTTCGGGAAGAAGGACTTCCTGCTACAGTAGCTGTGGGGAGCTGGTGGGGGCATCCTTGAGGACCTCCACCTGGGAGATGCTGGGACCCTCGGGGCAGGAAGTCCCTGAGAAGCCTCATGGGAGTCAGGGAGCCCTGGGGTTTCCACACAGGCCCATGCCCTCCGTCCTGGCAGGGCAGGCAGAGCTCAGCACAGCCTCACCCCTGCAGGCGGTATCCAGAGGTGAGGGAGGCCTGAAATGTTTCCAGGCATGACCCTGGAGCCCGGCAGTGCACCCCCTAAAGATGGCGCACCCGGCAGCCCCCCAGTGTCCCCAGGGGCACACTTCCCCTTGGGATGGGCACAGGCTGCCCCACCCCTCCATGATTCCAAGGGCCCAGAGGGGCGGGGCCAGGATGGCGTGTCCCCTGCCTGTGAGTGACATCGGTTCAGGAGGAGACAGTCAGGAAGCCTCCTGCTGAGTGGTCCACATTCTGCTGCCCCCAGACCCCATCCAGCCAGGGGTGGGGATGGGGTTGGGCTCTGCGTCCCACTGAGTCTCATTCCTCTGTCCCCGAGCCGAGCTCTCCTGGGCCAGGGTCTCGTCAGGAGGTGCCTGAGAGCAGAATGAATAATTGAGGTTAGGAACCCGGCATGCCGAGTGCCCCAGAAATGCCGCTGTGTCCCCGCGGGCAGTGACGTGAGTGGGGAGGAGACTCAGGCCCACATTGCCCACACCTGCCTCTGAACTGCTGCTGGTCACCCCCACCCCCGGGTGCCTGTGACCGGGGTCCTGAGGCTGGGGCTTTTGTGCCAGGAGTGGGTGGGACACAGAGACCCCCGTGCCAAATCCTGGGCATCCCCAGCCCCCTGGCCCCTCCCACATCCCCCGTGTATTCAGGACCCCATCTGCTGAGCTCTGACCTGCCCCCGCTCTGCCATCAGCCCCTGCTGCTCCTCGGCCAGAGCTCCCAGGACGCAGGGAGACCCTGGGAGAGTGAGGTCATCCCGGGGCCATGGAAGCTGGCAGGAGACACTGGTCTCAGAGGAGGGATAGAGACGCAGATTTCAGATGTAAGAAGCCCGATCCACATTGCATAAGTGGACCCAGCTGCCAGATGTGTGGGCAGCTGCAGGGAGTGGCCCGGGGTGCTGGGCCCAGCTGTGGTTGTTCTTTTCTGGGTCAGGAGTGACTGCGGAGTGGCTGGGACGCTCCTGCCGGGGGACCCTCCTGCCGGGGGTGGCCGCTTGCCTGGGGGAAGACCCCTTTCCCTTTCTTTTTTTTTTTGAGGCTCAAAAAAAAAATCCAAATAAAGCACCATATTCCCACCACGCCAAATTAACCTTGACAACAATGTTGGCGTATTTGCGTCCAGTGCTGTTTTTATTAATTAAGGTAAAATTTACATATGGTGAGATGCATGCTCTTCAGTGGAGACCCAGCCCCTAGAAGGTCCCTCCAGCCCTTCCTGTCGGCGTCCCTCCCCATCTGTGGCTCTGACTTAAGCACCGTGGATTGACCTCTCCGGCTCACGACCTTCGAGGAGTCAGAATCCTGCAGTTGGAGCCTTTGATGTCTGGCTTCTTCATCCTATGACTTAGAGCTTCATCCGTGCTGTTGTGTGTGTCCGTAGCTCCTTGCTGTCTGTTCCTTCGTTTTTAATTGTGAGCAGTGTTCTTCTGTCTGAATAAACTAAGACGCAGTTTGTCCATCACCTGTTAGTGGACTTTGCTTGCAGCTGTCGGTGATTAGGAATGGAGGTGCCGGTGTGTGCATGGCACTCTATCCGTTATGCATGTTTATTTTCTGCATCTGTTAATGTTTTAACATCTTTCAGACCCAGGACTGCTCCTCCTAGGGCCAGTTAGTTCCCGGGGGTGGACAGCTTGCCTAGAACCCACCTTGCCAGGGCTGTGACCCCCGACCCCCTATCAAAGTCTCACACTAAGCCAACGTTTCCCCGCCCTGTGCCAGGCACCAGGCAGCGGGAGACACTGCTGCAGCTCGAAGCCTGCCGGGGCGCCGGCCCCTCTGCGGCTGCTTGCGCCATCCTGCCCCCTCCTTCCCAGGGGAGGCCCCAGTGAAGGCCCTGGCCAGGGCTTCCCAGCCCCTTCTGCCTCCGGACCGGCCTGGGTGCTTCCCGTGTGGCCCGGCCTGGGGCGACGTGGCCCTCCTCTCAGGAAGCGTGGTAATCTCTCAATGGCTGGCCTCCGGAGTTGTCACTCAGGCTCCCTTGTAAGTTAAGGCCGGGCCCAGGACACTCTAGGGCACGCAGCTGCTGTGGGACTGCTGGGTTAGGTGTCCCCTGGAGCAGAGGCGGCTTCGGATTTCTAAAGTGGCTGAGTCCTTTCACCTTGCACCAGAAATGCTGGATCAGGCGCAGCACACACAGCACCTGGGGATGCAAGCCCGGCCAGCCCCATGGACCAAGCCCCGCCGACCGTGTGGCCCGCCGAGCCCAGGTGCGGCCGCCCGGCTTCTGCAGGCAATGTCTGCCAAGCCCTGGAATGTGCTCCCAGTGTGTGCACAGACTTCAATGAATAAAACGCACCGTCACCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101204:ENST00000370263:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.348 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.6=25.1),PF0293211=Neur_chan_memb=PU(91.1=73.2)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(8.4=73.8)
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
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development