BtaINT0038342 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002252 | CHRNA2
Description
cholinergic receptor, nicotinic, alpha 2 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1956]
Coordinates
chr8:75874056-75879491:-
Coord C1 exon
chr8:75879382-75879491
Coord A exon
chr8:75875071-75879381
Coord C2 exon
chr8:75874056-75875070
Length
4311 bp
Sequences
Splice sites
5' ss Seq
CAAGTAGGA
5' ss Score
4.46
3' ss Seq
AATGCCTCTCCTCTCCTCAGTGC
3' ss Score
9.84
Exon sequences
Seq C1 exon
GAGTGGAGCGACTACAAGCTGCGCTGGAACCCGGTCGATTTCGGCAACATCACATCCCTCCGCGTCCCTTCGGAGATGATCTGGATCCCAGACATAGTCCTCTACAACAA
Seq A exon
GTAGGAAGCGGCTGGGGTCCTGGGACACTGAGCCTGCGACGGGCGGGTAACTTGGTGCTGGGCTGCGTTGGCCTTGAGAGGCGTGCCCCCTCGTGGCCCAGCTGCGTTGCCTTCCTCGCAAACTCCTGCTTTTCTCGACGCTCCACCTTGTCTCTTGATTCTCTTCTTTCATTTCATGCTTTCACTCATGCACCCCAAGTTTACTGAGCACCTACTATATATCCGTGCCTGCGCTCTGCTAGTGGGACACAGATTTGCCAACATTGAATATTGTTTGAAAAATGCGGTTGATGCAGGCTGTGAAAACAATGCCTAAGGGTGGGAGTTTTGCAGGATGACATGATTGTTGGAACAGGTAAGCAGCATCTCCCGGTAGCACCTTTGAAAGGAGCGAAAGTGACATTTAAAAATATTATTTATAGTTGCCTTGTATTCAGAACCAAAAAAGACCAGTCTTTGAGTGTAAGGACTGGAAGTTCTCCAGGGGATCTTCCTGACCCAGGTTCACTGGGTCTCCTGCATTAGCAGGCAGATTCTTTATTATCTGAGCCCCAAAAGAAGCCCCAAAACAAAAGGCAGGGGAATCTAAAGAGAGCCCCAGAGAACCAGGTCGGTTTTTTTTTTTTTTAATAGAAGATATAAAGAACTATAACTTAATTTATGTTTCAGTTCAGTTCAGTCGCTCAGTCGTGTCCGACTCTTTGCGACCCCATGAATCGCAGCACGCCAGGCCTCCCTGTCCATCACCAGCTCCCGGAGTTCACTGAGACTCACGTCCATCGAGTCAGTGATGCCATCCAGCCATCTCATCCTCTGTCATCCCCTTTTCCTCCTGCCCCCAATCCCTCCCAGGATCAGAGTCTTTTCCAAAGAGTCAGCTCTTCGCATGAGGTGGCCAAAGTACTGGAGTTTCAGCTTTAGCATCATTCCTTCCAAAGAACACCCAGGGCTGATCTCCTTTAGAATGGACTGGTTGGATCTCCTTGCAGCCCAAGGGACTCTCCAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTTGGCACTCAGCCCTCTTTATAGTCCAACTCTCACATCCATACATGACCACTGGAAAAACCATAGCCTTAACTAGACAGACCTTTTTTGGCAAAGTAATGTCTCTGCTTTTCAATATGCTATCTAGGTTGGTCATAACTTTTCTTCCAAGGAGTAAGCGTCTTTCAATTTCATGGCTGCAGTGACCATCTGCAGTGATTTTGGAGCCCCCAAAATAAAGTCTGACATTGTTTCCACTGTTTCCCCATCTATTTCCCATGAAGTGATGGGACCATTCGTTTCCTGAATGTTGAGTTTTAAGCCAACTTTTTCACTCTCCTCTTTCACTTTCATCAAGAGGCTTTTTAGTTCCTCTTCATTTTCTGCCATAAGGGTGGTGTCATCTGCATATCTGAGGTTATTGATATTTCTCCCAAAACTCAGCAGTGGCCACAGGACTGGAAAAGGTCAGTTTTCATTCCAATCCCAAAGAAAGGCAATGCCAAAGAATGCTCAAACTACCGCACGATTGCACTCATCTCACACGCTAGTAAAGTAATGCTCAAAATTCTCCAAGCCAGGCTTCAGCAATATGTGAACCGTGAACTTCCAGATGTTCAAGCTGGTTTTAGAAAAGGCAGAGGAACCAGAGATCAAATTGCCAACATCTGCTGGATCATCGAAAAAGCAAGAGAGTTCCAGAAAAACATGGCTTTATTGACTATGCCAAAGCCTTTGACTGTGTGGATCATAATCAACTGTGGAAAATTCCTCAGGAGATGGGAATACCAGACCATCTGACCTGCCTCTTGAGAAACCTATATGCAGGTCAGGAAGCAACAGTTAGAACTGGACATGGAACAACAGACTGGTTCCAAATAGGAAAAAGAGTACCTCAAGGCTGTATATTGTTACCCTGCTTATTTAACTTATATGCAGAGTACATCATGAGAAACAGTGGGCTGGAAGAAGCACAAGCTGGAATCATTTATGTTTAGTAGCCAGTAATTATTTATTTAGAAGTCAAGAACTGAAAATTAAGAGATGTTTGGCATGATATTTGTCTAAGAATGTTTTCTAAAGTGGGGTTCCAGAAAGCACTAGTCCCTGGAGATATGACTAGGTATGAAAAATAGTTTTGTGGTCAAATAATTCTAGATAACCTTGTATGTCATTAAAACCCCTTTGGCACCCCATCTCTAGTCCTTTGGAAAATGTCATTATAAATGTTGTTAGAAGTTGGACAGACAAGACACCCCTTGAGCCCAGCATTTCCCAATTCGTTTGACCCAAATTTGGAAAAAGATATTTTTAAACAATAGAATAAAGGGAAACATTCAATTCTGAAGTTTGGTGTCCTTAGATGGGTCAGGAAGATGACAGTGACCTCTTTACACTGCCCAGCCCCAATCAGGTCCAGAGCCCTTTCATCTGAGCCATCTCTGTAAACACACATTCGGCAGGGATTATCTGCACTGTCTCACACTGCCACTGTTAGAGCACTCAGCTTACTCAGGATCCCTCTAGTTTCTGCTTCTCGTTTCTGGCAGAGAGCAGGAGCAAAGTCCTCGCATCAGCTAGGGCGTGGAGTTTTAGGATTGCCAATAAGGCCAGTGTTACCTGATTATAACAGGAAGTTCCTTTGATAGAACAAAAGTTCAAATCAAATTCTTACAGACATTTGAAGAAAGGTCTTTCCTCCAGCCAAACCCTCCACTTCAGGTTAAGAAGACCCGGGACAGTGTTTGGTTCTTTCCTCAAAATAGGGGCCCATGGTGCCATCTAGTGGTCATTGAGTATGATGTCTTCAAAAATTAAACTTGCCCTCATCAGTTTGCACCTCCTTTTCAAAATTCTGGTTTCCAATCGGCTTAAGTCTCTAGCCTGGAACTACTGCAAGGGAAAGAAGTGTCTCTTCCTGTGTATACTGGTTCACCTGCTTTTAGGATTGACTGTGGAAACTGTGGAGGGAAGTATGGTTGGGGCCAAGAGCCCATTTGCCCCACTTTGCAGGGGCATTCAGGGACTCAGGATCCCAGGAAGCCCAACTGGACTGGTCACCGCTGTTCCAGTGTCACCAGCATCCTTATGGGCCCTTGGATGGGTAGCCTCAGGACGCTGCTGACCTCCTCTCTCACCACCCCCACCTAGGACCCACCCTGCCCCCAACTCACCGTCCAGCAGTTCCCCTAGCCCAAGCATAGTCTGTGAGCCATAGCCTTTCATCCTCCATTCCTTGTTCCATGGAAGCTCTGCTGGTCCATTCTCCACCCCAGCTTTCTGCCAGATCCTACCATCCATCCATCAAGGCTTTGCTAAAATGGCAGCTTGCTCACCGGAAGGGAACTCCCCCCAGTAGTTCTTGGGGAGCACTCTGACTCTGGCCTCCTAATCCTGTTGCCAAACTGCCTCCCTTGGACTGTAGATGTTCGAGGCTCGTCTTTTCCTTGTGGTTCCCTCAGGGCAGGCGTGAGTCTCCCATCCCATCCCCCCAACAGCCCCTATAGTGGCCCTGGTAGGGGCAGCTGACTCAAATATGGCTGTTAACTGGATGGATTCCTCCTTCATCAGCAAAATTATCAGGTCTATGCTGAGGAAGAAACTAAAATCCCAGGTAGAAAAGACAAGACCTCCAGCAGAGGGGCTTCATCACCACCTGCGGCAGATGGTGGGGGGATATAGTAAAAAAACAACCAGGGTGGCTCAGCGATAAAGAATCTGCTTGCCAATGCAGGAGACAGAGGAAATGGGTTCAATCCCTGAGTCCCCCGGAGAAGATCCCCTGGAGAAGGAAATGGCAGCCCACTCCAGTATCTTGCCCGGGAAATCCCATGGACAGAGGAGCTTGGGTGGCTCCAGTCCATGGGGTTGCAGCACAATTACCCTAAAATATTAAATGAATACAAACAGGCCATCAAACTATGTATATACCCTATGATCACAAATATATAAAAATTCTATATGTGTTGTCTAGATGATGATCAAATATATGTGATATATATATATATATATATATCATCAACAGCAGTGATTATTTTAAAAATTCTTGGTACTTTCCTATATTCTTCAAAATTCCTACTTTTGTAGCTAAGAAGATGGTGTTTGAAAGACAACTCAGGTAGCTCTAGCTGTCTGTGTGCTGAAGAGTCTTGCTTCTTCAAGTCCCAACAACCCGGTGTGGTCTGGCTGTGTTATTGGGGTCCCCCTGCTGGTAGTTATCTGGAGTAGCCTGGGTTGGGCAGCTGGGGTGCCCCAGCCCCCCGCCCCCCAATGCCTCTCCTCTCCTCAG
Seq C2 exon
TGCAGATGGGGAGTTTGTGGTGACCCACATGACCAAGGCCCACCTCTTCTCCTCGGGCCTGCTGCACTGGGCACCGCCTGCCATCTACAAGAGCTCCTGCAGCATCGACGTCACCTTCTTCCCCTTCGACCAGCAGAACTGCAAGATGAAGTTTGGCTCCTGGTCGTACGACAAGGCCAAGATCGACCTGGTGCAGATGGAGCAGACGGTGGACCTGAAGGACTACTGGGAGAGCGGCGAGTGGGCCATCGTCAACGCCACGGGCACCTACAACACCAAGAAGTACGACTGCTGCGCCGAGGTCTACGCCGACGTCACCTACTACTTCGTCATCCGGCGCCTGCCCCTGTTCTACACCATCAACCTCATCATCCCTTGCCTGCTCATCTCCTGCCTCACCGTGCTCGTCTTCTACCTGCCCTCCGACTGCGGCGAGAAGATCACCCTGTGCATCTCTGTGCTGCTCTCACTCACCGTCTTCCTGCTGCTCATCACCGAGATCATCCCGTCCACCTCGCTGGTCATCCCGCTCATCAGCGAGTACCTGCTCTTCACCATGATCTTCGTCACCCTGTCCATTGTCATCACCGTCTTCGTGCTCAATGTCCACCACCGCTCCGCCAGCACCCACAACATGCCCCACTGGGTGCGGGTGGCCTTTCTGGGCTGTGTGTCTCGGTGGCTTCTGATAAGCCGGCCCTTGCCACCCTTGGAGCTCCGAGACACTCCGGATCTGAAGCCCTGCCCCTCCTATCACTGGCTGGAGACCAACGTGGATGTGGAGGAGAGAGAGGAGGAGGAGGAGGAGGAGGAAGGCAGATGGGTGTGTGTGGGTCCTTCGTCCCCCTCCGTGGGCGTCTACACCCGTGGCAGTCTGCACCCAGTGGCCTCGGGTCCCAGGGCAGAGGCTCAGGTGCCGGAGGGCGGGCTCCTGCTGTCCCCTCGTGTACAGAAGGCCCTGGAGGGTGTGCACTATATTGCTGATCACCTGCGGGCTGAGGATGCTGATTCCTCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002252:ENSBTAT00000002910:4
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=0.044
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=FE(17.4=100)
A:
NA
C2:
PF0293118=Neur_chan_LBD=PD(55.6=33.9),PF0293211=Neur_chan_memb=PU(86.7=63.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping 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]