BtaINT0038392 @ bosTau6
Intron Retention
Gene
ENSBTAG00000014050 | CHRNB3
Description
cholinergic receptor, nicotinic, beta 3 (neuronal) [Source:HGNC Symbol;Acc:HGNC:1963]
Coordinates
chr27:37180073-37184138:+
Coord C1 exon
chr27:37180073-37180955
Coord A exon
chr27:37180956-37184003
Coord C2 exon
chr27:37184004-37184138
Length
3048 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TGTCCTTTTCTCTTCCGCAGGTG
3' ss Score
14.66
Exon sequences
Seq C1 exon
CGCCGACGGCCGGTTCGAAGGCTCGCTCATGACCAAGGCTGTGGTCAGATCGGACGGGACCGTGGCGTGGACGCCTCCCGCCAGCTACAAGAGCTCCTGTACCATGGACGTCACGTTCTTCCCGTTCGACCGGCAGAACTGCTCCATGAAGTTCGGGTCCTGGACTTACGACGGGACCATGGTGGACCTCGTCCTCACAGACGAGAACGTGGACCGGAAGGACTTCTTCGACAACGGAGAGTGGGAGATCCTGAACGCCAAGGGCACGGCCGGGGGCCGGAGGCACGGCGCCTACTGGTACCCGTTCATCAGCTACTCCTTCGTGCTGCGCCGCCTGCCCCTGTTCTACACGCTCTTCCTCATCGTCCCGTGTCTGGGGCTGTCCTTCCTGACCGTGCTGGTCTTCTACTTGCCTTCCGACGAGGGCGAGAAGCTCTCCTTATCCACCTCTGTCCTGGTTTCCCTCACGGTCTTCCTCCTGGTGATTGAGGAGATCATCCCGTCTTCCTCCAAGGTCATCCCGCTCATCGGGGAGTACCTCCTGTTCATCATGGTCTTCGTCACCCTGTCCATCATCGTCACCGTGTTTGTCATCAACGTCCACCACAGATCTTCCTCAACCTACCACCCCATGGTCCCCTGGGTTAAGCGGCTCTTTCTGCAAACCCTTCCTAAGTTACTCTGCATGAAGGACCACGTGGATCGCTACTCTCTCCCAGGTAAAGAGGAGAGGAAACCCGCCCTGAGAGGTCAAGTCCTCGAAAGAAGGAAACAAAAGCAGATGAGTGATGGAGAAAAAGTTCTGGTTGCTTTCCTGGAAAAGGCGGCGGATTCCATCAGATACATTTCCAGCCACGTGAAGAAGGAGCATTTCATCAGCCAG
Seq A exon
GTGAGGGAGCTGTTGTGAGCCTCGACTGAGATTTTTAATGTCTGTTTGCAACAAATAGGGTCCCTGTTTCAAACGTGACCTTATCAGCTACCTGCTTGACATGCATATAACTTCACACAAGCCCTGACACAGAATAGGGACTTCAGTATGAATTTTCAGGGAGACCTTCACAAAAACAGAATGAGCAAAAGAGAAGCAACTCTAGATTAAGCACAGCTCCTTCTTATTAGATGTGAGTCTATTTAAGTAATTCAATTCTACATTGAAGTTGTTTGTCCAGGTCTCTGGTCATTTATCTCTCATTTTTTTATGGGATGATGGATAGCTCTATTCAGGATATTTGGAAATCAGAAAACAGAAAGAGTCAAGCTTTATATTAATACAAAACATGATGTAACAGCAAGTATTTAGTTCACAAATTTAGTTTTTAAGATGTGGAAAGGATATGGATTTAAGACTCAAAACAGTTCTGCTTGCAGATGCTACCCATGTTCCACTGGCTTGAGAAAAGCTGCTTAACCTGACCTTGTTTTCTGAACTCTCCCTTGAAGGGAGGAATTACAGACATCAAGTACAAAATATGTATTATGGGCCCAGCACACATGGTCTCATGATGTGCAGACAATAAACATTAATTCTCATCTTTCTTCTCTCCATCTCTCCCTCCTCTAAATGGTCCTTCCCCTGCGGAAGGAAAATATTATTTGACATGTAAATACTTAGCACAAACGGTAGTCTGTTGCTTAAAAAGAGTTAATATTTATACCAGTTTATACAGTTCTATTATTTTACTCTAAAATAAGTGAAAATTAGTGCCAACAGCCTAATGCCATAAACAAACTTAAGAAAGAATAGGTTTTTCAAGAAACAGCTTCTGTATTTCATATGGGCACTGCCTAGTACCTCCTCTCTCTTATAATTTGTTGTTTTTTAAATCCACTTAAAAAATTTTTTTAAAGCACTGGGGAAAGAAATGCTGCTATGGAACAAGCATTTCAGCTATTCTTAAGGTTTTCTATTTCTTTATTTACATCTTTTAGAAATTCTAACACAAAGATTTAAATGGTTTTTTATAGACTTCCCTGGTAATACAGTGGTTAAGCTTTCCAAAGCAGGGAATGTGGGTTTGATCCCTGGTCAGACAGCTAAGATCCCACATGCCTTGTGGCCAAAATAAATATATAAATAAACACCAAAGCAACGTCGTAACAAATTCAAAAAGACTTTAATAATGGGTCACATCAAGACTAAAGTATTTTTTAAATTTTTAAAATCAAAAGTAGCTTTTAAAAAACTATAAAAATAACACGTTGTTGGCATAAGGAATTTGGAAAATATGAAACATTTAAGACGATTCACATCACTAATAATCCCCCACTTAAGGTTGACACTTTTTAAAATTAAATGTGTTTATTTTTAATTGGAGGATAATTGCTTTACAATATTGTGGTGGTTTCTGCCATATATCAACATGAATCAGCTGCAGGTATATGTATGTGAAACTCCCTCCTACCTCCCACCCCATCCCACTTCTCTACGTTGTCACAGAGCTCCAGATTTGAGCTCCTGCATCATACGGTAAATTTCCACTGGCTTTCTAATTATACATATGGTAGTGTATATGTCTCAATGCTACTCTCTCAACTCATCCCACCCTCTCCTTCCCCACTGTGTCCACAAGTCTGATCTCTGTGTCTGCGTCTCCATTAAAGTGAAGTGAAAGTCGCTCAGTCGTGTCTGACTCTGCGACCCCATGGACTATAGAGCCCATGGAATTCTCCAGGCCAGAATACTGTAGTGGGTAGCCTTTCCTATCTCCAGGGGATCTTCCCAACCCAGGGATTGAACCCAGGTCTCCCGCGTTGCAGGTAGATTCTTTACCAGATGAGCCACCAGAGAGGTCTCCATTGCTGCCCTGCAAATAGGTTCGTCAGTACCGTCTTTCTAGATTCCATATATATGCGTTAATATATGTTATTTGCTGCTGCTGCTAAGTCGCTTCAGTTGTGTCCAACTCTGTGAGACACCATAGATGTCAGCCCACCAGGCTCCCTGGTCCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTGAAAGTGAAGTCACTCAGTCATGTCCGACTCTTAGCGACCCCATGGACTGCAGCCTACCAGGCTCCTCTGTCCATGGAATTTTCCAGGCAAGAGTACTGGAGTGGGTAGCCATTGCCTTCTTCCATATGTTATTTGACACTTAACATTTTCACCTTCTTTGTGGTTTTCCCTAAGGCTTTATTTCTAAACCTCTACGTGCACAATATTTTCAAGTTCTACATCAGCATCTATGTTCCTTCTAGAACAGCAGGCATCCTGCTCAGCACTGTCTTTACCAAATCCCCAGGTAGAAGAAATGGGACCTTTATTTTCCCTTGAAAGACCTCTGGCCTGGTCTCTGAGACTCCCCCAGCCCGCAGCTTGTCCTGGTCTGACCTGGCCCTCCCAGGCTGCAGACCAGTCTCCCAACCTCCCTTCCTCCAGAGGGACTGGGTCTCCTCTGTCCCTCACCACTTCCTGTCATCTCCTCCAGGAGTGTCCCCCATAGCCCTACCCAGCTGTGGAGTGGGGGAAAAGAGGCCACTGAAATAAGTGACCCCCAAAATCCTTAATTTATAAATCTGTGCTATATTTCCTATGCCATAACAGGAAGCATTGCAGTAGGAGATGCTGGCTTTTTATTTGGGTAAAAATCAGGCTTTTTCTGTTTTAGTCAGTACCATTTACAACTGCATCAGTGATTCTGTTATTTCTATTTTACCTCCTCGATGTTGATGAAAGCGTTTCCCTGAACTTGAGCTACACGCCGTTTTCTTGGGCACCAACCATGAGGTCCCAGGAAGTCGATGTCTCGGGGGAGGTGTCAGGTGCGTTTGGAAAACTGCAGGGCTGTGATCCGAATAGGATTCCTTTGAAGTCCCTGAACTCAGAACAGCCGTGCAGCATCCTGAATGGAAGGTGTCCTTTTCTCTTCCGCAG
Seq C2 exon
GTGGTGCAAGACTGGAAGTTCGCAGCTCAAGTTCTCGACCGGATCTTCCTGTGGCTCTTTCTGATCGCATCTGTCACCGGCTCGGTTCTGATTTTCACCCCTGCTTTGAAGATGTGGCTACACAGTTACCATTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000014050:ENSBTAT00000039752:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.003 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(55.1=38.3),PF0293211=Neur_chan_memb=WD(100=48.5),PF0293211=Neur_chan_memb=PU(61.6=18.0)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(36.0=68.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
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]