HsaINT0035181 @ hg38
Intron Retention
Gene
ENSG00000120903 | CHRNA2
Description
cholinergic receptor nicotinic alpha 2 subunit [Source:HGNC Symbol;Acc:HGNC:1956]
Coordinates
chr8:27459761-27463993:-
Coord C1 exon
chr8:27462979-27463993
Coord A exon
chr8:27461755-27462978
Coord C2 exon
chr8:27459761-27461754
Length
1224 bp
Sequences
Splice sites
5' ss Seq
TCGGTGCGT
5' ss Score
8.67
3' ss Seq
GTGTGCTGTCTTCCCCACAGGTG
3' ss Score
13.89
Exon sequences
Seq C1 exon
TGCAGATGGGGAGTTTGCAGTGACCCACATGACCAAGGCCCACCTCTTCTCCACGGGCACTGTGCACTGGGTGCCCCCGGCCATCTACAAGAGCTCCTGCAGCATCGACGTCACCTTCTTCCCCTTCGACCAGCAGAACTGCAAGATGAAGTTTGGCTCCTGGACTTATGACAAGGCCAAGATCGACCTGGAGCAGATGGAGCAGACTGTGGACCTGAAGGACTACTGGGAGAGCGGCGAGTGGGCCATCGTCAATGCCACGGGCACCTACAACAGCAAGAAGTACGACTGCTGCGCCGAGATCTACCCCGACGTCACCTACGCCTTCGTCATCCGGCGGCTGCCGCTCTTCTACACCATCAACCTCATCATCCCCTGCCTGCTCATCTCCTGCCTCACTGTGCTGGTCTTCTACCTGCCCTCCGACTGCGGCGAGAAGATCACGCTGTGCATTTCGGTGCTGCTGTCACTCACCGTCTTCCTGCTGCTCATCACTGAGATCATCCCGTCCACCTCGCTGGTCATCCCGCTCATCGGCGAGTACCTGCTGTTCACCATGATCTTCGTCACCCTGTCCATCGTCATCACCGTCTTCGTGCTCAATGTGCACCACCGCTCCCCCAGCACCCACACCATGCCCCACTGGGTGCGGGGGGCCCTTCTGGGCTGTGTGCCCCGGTGGCTTCTGATGAACCGGCCCCCACCACCCGTGGAGCTCTGCCACCCCCTACGCCTGAAGCTCAGCCCCTCTTATCACTGGCTGGAGAGCAACGTGGATGCCGAGGAGAGGGAGGTGGTGGTGGAGGAGGAGGACAGATGGGCATGTGCAGGTCATGTGGCCCCCTCTGTGGGCACCCTCTGCAGCCACGGCCACCTGCACTCTGGGGCCTCAGGTCCCAAGGCTGAGGCTCTGCTGCAGGAGGGTGAGCTGCTGCTATCACCCCACATGCAGAAGGCACTGGAAGGTGTGCACTACATTGCCGACCACCTGCGGTCTGAGGATGCTGACTCTTCG
Seq A exon
GTGCGTTGGGGTTGGGAGAGGCGCCAGCCTGGGTGGCCCCACCAACTTAGCGGGGAACCACCTTACCGCAGAGTGTGAGCTTGGGCAGCCCAGGCCCCTCTCGTGAAGGCCCACTTTCCTCAGTCATGGTCCTTAGATGGAATAAATAGCAAGAGAGCACATGTAGCTGGCCGCTTTGAGGACGTTTATTGGCACGTGGCATGTTACACACCACGGAGTCAGGCATGAGCAGCTCAGCCTAACAGGGATCCTGAGAGCCGGAGAGGGAGGATCCCAGATGCTGAACCCCGTGCCTCCCTCACGCCGCCAGCTCCCACCATTGCCTTGGAGGTGGCGGCAGGCAGGGGGAGCATTTCAGGAGAGACCCAGAAAGTCAGCTGCTGCAGTGTCAGCCTTTGTCTTTTGTCTTGGATGGTCTCTTCCTCCGCCTCCTTGTTCATGGGCTCCTGAGGATCTTGCAAACTTCACTCTTCAACCATAAACCCTGCAGATTCTTGGTTGTGCCAGGTGGACTCCGCTCCCCCGCCCCTGCCATGGCATTGGCCCCACCCTGACCCCTGCCCCAGCTCCTGTCTGCCATTGAGCAGGCCGCTACTCTAGCACAAAATTCTACTAAGCCTAGGGAAGGATGAAAGGCCGGGAGGTTATTACTGAGTGGCCTTGATGAACAGACAAGAAAATTAATCATGATGTCATCCAGGAGCAGTGGAGAATCCAGGCTCCCTTGTCTGGGCTGTGAGCCCAAGTTCTACAAAGCCCCCGCCCCACCCCCAGCCTGCCTGGGGTCCCAACCACCTTCGCCTGTTTCCCTCTCCCCAGCTCCAGCAGGTGGGTGAGGAGGCAACCTGTGAGCAGCAAAGTCTGGTGTTGCATTGAAGTCACTGCAGGCCCCCTAGAAGGGCCCATGCCCCTGGGTGGTCGTGCCGCCTCCTTGCGTCCCTCTAGCCTCCTTTACCTATAGTCTAGGAGCATAATATGGACAGGTCTGGGCATGTGGAGGGGCTGGGATGGGAGGGGAATCATCAGTGGAGCTTACTGGAGCCTTGAAACAGCCCGTCCCTCCCTTCCACTCACCCCGCTCCCTGTGCTGACCTTTGCTCCCCAAGGTCTCTGTGGGGCAGTTGCTGCTGCCCCCAGTGGCCGCCTGTGCAGGGGCTGTGAATGGGGGGAACACATCCCTTTCCCAGGCCTGGCCCCTGTCACTGTGTGCTGTCTTCCCCACAG
Seq C2 exon
GTGAAGGAGGACTGGAAGTATGTTGCCATGGTCATCGACAGGATCTTCCTCTGGCTGTTTATCATCGTCTGCTTCCTGGGGACCATCGGCCTCTTTCTGCCTCCGTTCCTAGCTGGAATGATCTGACTGCACCTCCCTCGAGCTGGCTCCCAGGGCACCCCCGCTGACCATCTTTTGACCGTCTCTGCTACAGCTGCCTCTGGTGTCCCCTTTGGGATGAGCAGGTGCCTCTCCGCGGAGTCTGGACACTGACCCAGGGATTGCAGGCTTCCATCCAGCTTAACGTTATTGTACCAGGGCTGACAGCCTGCTGGGTGCAAAGCCCTGTTTTGGATACGGAGGAGCTGGGGAAGCTCTGCAGAAGGTCGCAATAGTGTGGTGACCAAGTGGGGCAGAGTAAGATTCTCCTGGAGGAGCAGTGCAGACCCTAAGTGACAGAAGGGTCAACCAGGGGGACAGTGGGGCCAGGGTGACGAGGAAGGGAATGCAGACCTCAAAGGAGGGGCCGTGGGGGCAAAGGGGAGGGTTCTTGGATGTGGAAGGGCTTTGAACAATGTTTAGATTTGGAGATGAGCCCAAAGTGCCAGGGAGAACAGCCAGGTGAGGTGGGAGGTTGGAGAGCCAGGTGAGGTCTCTGTAAGTCAGGCTGGGGTTGAAGTTTGGAGTCTGTCCGAGTTTGCAGGGTGCTGAGCTGTATGGTCCAGCAGGGGAGTAATAAGGGCTCTTCTGGAAGGGGAGGAAGCGGGAGGCAGGGCCTGCACCTGATGTGGAGGTACAGGGCAGATCTTCCCTACCGGGGAGGGATGGATGGTTGGATACAGGTGGCTGGGCTATTCCATCCATCTGGAAGCACATTTGAGCCTCCAGGCTTCTCCTTGACGTCATTCCTCTCCTTCCTTGCTGCAAAATGGCTCTGCACCAGCCGGCCCCCAGGAGGTCTGGCAGAGCTGAGAGCCATGGCCTGCAGGGGCTCCATATGTCCCTACGCGTGCAGCAGGCAAACAAGAAAGACCATCCTGAGCTGCTCCTGACCCACCTCAAACTCATCTCATTTGGCCTGTCCTCCCTCCCTTCACCCCTCCTTCCCTCCCCAGGAACCCTGTTCCCTGTGCCTGGCTCCATCAGGAGGAGGCCTCACTTGGGAGTTGAAGATCTTTGCCTTTAGTTCCTTTGATTCTGAACTTCTCAAAGGCAGGTACTCTGCCTGTTATTTTTCCCACCCCCAGCACCTAGCACAGCGCCGGGTGAGTGGGGTCAGCACTTAGGGCGTTTGTTCTGAGTGGTTGAGGGGAGCAAGCTGGATTGTTTGGGCCCCAGGACTGTTGTGTAGATGGCAAAGCTGTGGTCCCGTCCCTTATCAGCCTGCCTCGTCTCTCCCAGAGCCCCGAGGTGTGTTGACCTGCTCTGAACCCTTCAGAGCAGCCTGTGTGTGCACCTTGGAATGCAATGCACCACCCCACAGTCTGAGGCTGCACCCAGGATCCCAGGCCGAGCTGCTGCTCCTGGGATCGGGCAACAGACCTCCCCCCAACTCTGTCCAGACTGGAGGGTGGGACATTGGCAGCTAACAGATGTGGGCATCGGGTTCTCGGGACAGCATGGAGGCTCCAGGCAGGAAGCCGAGCAGGGCGAGCTTCCAGTTTCCTTTTGGTCCTAGGGGTCCCCTCCTTCCAAACCCCAAAATGTCTCTCCCTGACACTCTCAGGGGAAACCAGCCTGGCTGTGACGCCCTGGCCCAGGCCCTGCCATGCCTCACTTCTCTCCCACAACCCCCCTGCTCATGGCACATCTGGTCTCTGGCTCCTGTCTACTCGTGTGCATGCAGCCCCCAGCGCCCCCTCTCCTCCCACTTGCTCTCCGGAGGCCTCAGAGCTCTCGGGTCCAGGCTCCCAGACCCACTCTCCTGAGACAGTGATGTTCACTTCTGTTATCCATGTCTCCCATCCATCTTGCATGTGAATAAAGAGATTAAATAAAGCTGCACCTACTGCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000120903:ENST00000407991:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(59.9=33.9),PF0293211=Neur_chan_memb=PU(86.7=63.7)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(12.4=73.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGAAGGCACTGGAAGGTGTG
R:
TTAAGCTGGATGGAAGCCTGC
Band lengths:
349-1573
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