HsaINT0035235 @ hg38
Intron Retention
Gene
ENSG00000117971 | CHRNB4
Description
cholinergic receptor nicotinic beta 4 subunit [Source:HGNC Symbol;Acc:HGNC:1964]
Coordinates
chr15:78631288-78635587:-
Coord C1 exon
chr15:78635439-78635587
Coord A exon
chr15:78631333-78635438
Coord C2 exon
chr15:78631288-78631332
Length
4106 bp
Sequences
Splice sites
5' ss Seq
GTGGTAGGT
5' ss Score
7.23
3' ss Seq
AGCCCCGTTTCCCTCCCCAGAAT
3' ss Score
9.46
Exon sequences
Seq C1 exon
GGAACTGCCGCGTGGCCAATGCGGAGGAAAAGCTGATGGACGACCTTCTGAACAAAACCCGTTACAATAACCTGATCCGCCCAGCCACCAGCTCCTCACAGCTCATCTCCATCAAGCTGCAGCTCTCCCTGGCCCAGCTTATCAGCGTG
Seq A exon
GTAGGTGCAGAGGGCAGCTGTGGCTCAGGCTCAGGTGGAGAGGCCGCTCATGCCCAAGCCCCAGGCGATCATTGGTCAAAGGAATGAAACTACTATAGTTGACTTAGACTTACCAGTACGTGTCAGGGAGGCTGCAGAAGGGTCCATGAAGTTCATAGGTGTCCAATATTTAATGAAGTCATGATTTTGTTCTAACAAAGAAGAAATGAGGGTAGGAGCAGGATGACCATTGGGTAGGCAGCCAATGGGCCTGCTGTAGACTCTGCTCAGCTGGGTCTCCAGCATGACCATAAGCTTCTCCTCCTTGTCTTTACAGCCCCACCCTATTCTCTCCCCTAGACTGCTCAGATAACCTTACATGCTTCTTACTTGTTGGGAGAAGTAAAAACCAGACTGGGGGAACTGATAGGTACAGAGAGGCCCAGGTGTAGGGGCAGGACCAGAGGCAGTGCAGCACCTATTGAGCCAGGCTGGTGAGGGATGGACAGTGGGCGTGGCTGCTGCAGGCATGGAAAGGAGGAGTGGATGGCAGCATTCACAGGTACCATTGTCAGGTTGTCCATATGTGGATGTGGGGCAGAGGTGGGGGTGCTGAGGGAGGAGGTGCCTGGGAATTTCTCTTCTCTTTGCTGCCTCTGAGTTGGAGATGTCAGAGGGAACCATGGCCTATTGTAAACCTTCCCATGTCCCCATCCACAGGGTTAGAACTCCGTCCCTGGAAGAAGCTCTGGGGGAACATTCACAAGGGGAGAGTGCAGGGCGCTGTGTCCAGCCAGGGGAAAGAGACCACCAAGGGGGCTGACCCTCCTCTGGCCAGGTAGCTGCCTTCTGAAATGCCAGACTCTCTCTCTAGCACGGTTGGCCCACACACACCCAGCCTGTCAAACCTACAGCCCTCAGGAAGGCTTTGGCCAAATTAATGACTGGCTCCATCTCCTGGGAGGACGCACAGCCCCAGGATGGGGAGGGCTGGAGAGCTGTGTACTCTCTGCCCCTCTCCCTCCGTAGTCGGACCAGAAGGAAGGAGGGCTTTCAGCCAGGCTTGCTCAGGCTGGTGTCTGAGTGTTATTGTCCAGCCCAGGGCTTCTTGCTTAATGAGTTGAACCCAGCTGCTGCGGTGCAGCTGCTGCCCTAGTGAGGGTGAACGAGCAGGAGGCTCTGCCGCACTTCCAGACTCAGGCTACCTGGTCAGATCTGCTCTGCCGGCCCTATAGGGTGATAGCGGCTACCAGAAGGAGGAGGGGATGCGGCCACCAGCCCCCACCCATGCAAGTTATATTTCCGAAAGCTTGTGTATACAGTAAATATTAGGTTGTGGGTTGCCAGGGTTTGTTTATTTATTTGAGGAGGGAGGGTTATAGGTACAACCAGTTTAAAGATGGAAATTTTTAGAGAGCAGGTAGGGATTTAGGGCTGGGTAAGGAAAGCAGGCTTGTCAAAGCAGCTGTTTTGTCATTGACTCCAGAGTCTGGTGAGCCAGGCACTCCCTCGCCAGCATCCCCACCCCCACCTCTCCAGCCCCCCTTATTCCCTGACCCTTCCACCTGCTCCCCTGCCCCAGCACTGTTTCCTCTGCTGACTCTCATCTCTTTTCCTGCTCCTGGGCTTGCCTGTTTTGATGTCCTTGACTCTCCTCTGAGTCTTCCTCTTTCCAAGCCATCTCCCCTGTACTTGACACATTCTCCTGGAAGACACCAGAGTACACAAGCTCAAGTCCCTGAACCTCGTCTTTACTCCCAGACATGTGAGGAAAATGACATAAAGACCCAAATGCCACTTGGCAAGAGATCGGGGGTATGCAGGGGGGCAGATCTGATGCTGTGGAAGCTCAGGGGGTAAGTTTGAGCCCAAATATATCAGTAACTACATTAAATGTAAATGGCCTAAATATTCTAATCAAAATGAGACAAATTGCCATGCATTCTTCTTCTCCCTCCTCCCTTCCCACCAACAGCCTGGAATGTGGAATTTGTGGTTAGAGCTCCAACAGTTATTTTGATCCATTCTTATGAGGGCCACACTCTAGGTATGGTGGAGAAGAAAGTTGGAAAGAATCTGGGTACCTATCAGAACTTTGTAGAGCAGAACTGCCATATATGTCTAAAGTGTTAACATGAGAGGGACATGAATTTCTACTTTATTTAAGCCTGTGTTACTCTGGATCACTGTTACTGGCAGCCAAACCTTATCTTACTGATAATCTTATCTAGTTGTAGGTTCCTTGAGGAAATGACTCCCAAAGTGAGATCAGTATGCTGGAAGTTATCTTGATAAAGGAGAGGCACCAAAATTGTACAGACTGAGAACACAAGACTTATCCAAAGTACTAAAGAAGGCCAGGGGGCTGGAGGACAGAACAGAGGGACATAGGGAGGTGAAGTGAGGCTGGGAAACCTGGCAAGGCCCCGTAGACCCTGCGAAGGAGCAAGATTTTTATTCTGTAGGTGAAGGAAGCCAAGGAATTAATCTAAACAGGGATAAAATTGAGGGAGGAAATGACAGGAACTTTGGAAGGTTTATTTGGGCTGCGTACGAAGAAGAGATGTATGTGTGTGTATGGTGGCGGTGGTGGTGGTGTACAGAATGAACATAGGCCAGTTAGGAGGGTCTTACATGGTCCAGGTGAGACATGGATTATGGTGGCCTGGATTATTATGGTAGGATTCCTGTATATTCAAAAAATATTTATGGAGTATCCAACATGTTACATACTCTTCTATCTGCCTTATTTTCTCATAGCCATTAGATTCTAGTGGGAGGTGGCAGACAATACACAGATAGATAGATGGTGTTTAGGGGTGAGAAATGCTACGAAAAAAAAATAAGGAGACTGGGTGAGGTGGCTTGTACCTGTAATGCCAGCACTTTGGGAGGCTGAGATGCATGGATCACTTTAGCTCAGGAATTTGAGACCAGCCTGGGCATCATGATGAATCCCCATCTCCACAAAAAATTTTTTAAAATTTAGCCAGGTATGGTGGCCTGTGCCTGTAGTCCCAGCTACTCAGGAGCCTGAGGTGGGAGGATCGCTTGAGCCTGGGAGGTGGAGGTTGCAGTGAGCAAAGATCACACCACTGCCCTCCAGCCTGGGTGACAGAGTGAGACCCTGTCTCAAGAAATACACACACACACACACACGAAAGAAAAGAAAGAAAGGGAGAAAGAAAGAAAGAAAGAAAGAAAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAAAGAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAAAGAGAAAGAAAAGAAAAGAAAGACAGAAAGAAAGAAAGAAAAAGAGAAGGCAGGGCAGGGACCGAGGTGCTATTTTATGTAGGTCAGGGAAGATTTCTCAGATAGGATGACATTTCTGATAACAGAATAAAGTGTGGAAGCATCCCAGGGGGTTTCCAGGAAAAGGGAACAGTGTGTGCAGGAGCAAAGAGGCAGTGCAGGGGAAGTGGAATGAGCAAATGGCGGAGTGTTGAGATAAGAGGTCATAGAGCTAATGGGATGAGGGGTGGTGGGGAGGCAGATCACTAGGGCCTTGTGGACTCTAAGCAGAACTTTGGCTTTTACTTTGGATGAGATGTGGCAGCAGAACAATTAGTAGAAGGGATTGAGATTGTAAAGGGATCACCCTGGCTACCATGTAGAGAATAGACTAAAGGCAGGCCAGGACAGAGCAGGAAGACCAGTTAGGGGGCTCCTGCGGTAGTCTAAGTGACAGATGATGGTGGCGGTGGAGAGAAGCAGACAAATATGAGTTGCTTTAGAAGATATAGCTTACAAGACTTATTGATGGATCAGAGAGCAAAGTGTCAGAGACAGTGTCCACGCTTCTGGCTTGTGGAACTGGATGGCTAGGGGTGCCATTCACTGAGACAATGAAGCCAAAGGAGGACCAGGTTCTGGGGAAGATCATGAGCTTTGTGTCAAACATGCTGAGTGTGACATGCCTTTGGGCCATCCAAGAGATGTTGGGGTGGCAGTTGGTCACGTGGGCCTGGAGCTCACAGCCTTTTGCACAATAAAGTGCAATCCATTTGTGAGGCTCCTCCTTCCTGGTGAACTGATAGCCCCGTTTCCCTCCCCAG
Seq C2 exon
AATGAGCGAGAGCAGATCATGACCACCAATGTCTGGCTGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000117971:ENST00000261751:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PU(19.9=82.0)
A:
NA
C2:
PF0293118=Neur_chan_LBD=FE(13.0=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