BtaINT0038394 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003132 | CHRNB4
Description
Bos taurus cholinergic receptor, nicotinic, beta 4 (CHRNB4), mRNA. [Source:RefSeq mRNA;Acc:NM_174517]
Coordinates
chr21:31525484-31532212:-
Coord C1 exon
chr21:31532064-31532212
Coord A exon
chr21:31525529-31532063
Coord C2 exon
chr21:31525484-31525528
Length
6535 bp
Sequences
Splice sites
5' ss Seq
GTGGTAGGT
5' ss Score
7.23
3' ss Seq
AGCTGCATTTCCCTCCCCAGAAT
3' ss Score
8.47
Exon sequences
Seq C1 exon
GGGACTGCCGTGTGGCCAATGCAGAGGAGAAGCTCATGGACGACCTTCTGAACAAAACCCGCTACAACAACTTGATCCGCCCAGCCACCAGCTCCTCCCAGCTCATCTCCATCCAGCTGCAGCTCTCCCTGGCCCAGCTCATCAGCGTG
Seq A exon
GTAGGTACTGGGGGCAGACGTGCCCCAAGGTTATTCATCTGATCTTTTTCTGTGTGTGAAAATTAAGGAATTTGCCTAAACTTTGAGACCCCTGACTCGGCCTCTAAGTTACTATTTTTCTTTCCCAAACTGCCGTCTGTGTCTTTGCGCTCGCTCTTTTCTTTGCTAGAGAGGTCTTGCCCACTTTGTGCACTCTGTTCCACACTTTGGAGCCGCCTGCACATCCATGACCCTGATACCAATTACAGTGCTTTGGCTTCAAGCATAGTTGGATGATCAACAAAGCATCCAACTATGAGTGGCTAAAACAATAAGGACATCTGTTATATCGCATAACAGGAGAGCAGGCCAGTCGTTTCAGTGTTGTCGTTAAATGTTTCAATTAATGCAGTAATTCAGTGATGTCAGGATTCTAGGTTGTTGGCAATGATGTCAGGACTGTTATTCTCTTGTTTTCTGCGCCGCCCCCCCCACCGACCCCCACCTTGATCATAAGATGGTGGCCATGGTTGCAAACATAAAATCTTCACATGACAATGTCTGTGGCAGGAAATGGCAAATCTTTTTTTGGGTACCTTTTTGAGTATGAGGAAGACTTTCCCAGAAACTTCCCCACCTCTGGGCATCCCAGTGGCCAGGGCTGCAGCTCATGCCTAAGCTTTCACTGATTGTTGGCTGGAGGAATGGAATTACCACGGTTAGCTAAGACTTAAATAATATGAGGTGGGACTTGCCTGGTGGTCCAGTGGCTAAGACTCCATGCTCCCAATGCAGGGGGCCTGAGTTCTATCCCAGGACAGGGAACTAGATCCTGCATGCTGCAACTAAAGATCTCGCATGTTGCAATGAAGACGAAGATCCTGCGTGATGAAACTAAGATCCGGCACAGCTAAATATATAATAAAGTACGTGGCGAGGAGGCCAGAGAAGGGCCCATGAAGTTCATGAGTATGCAGTATCTAACAAAGTCATAGTTTTATTAACAAAGAAGTTATAAGGGTGGAATGACCACTGAGCAGGCAGCCAACAGGCCTGCCACAGACAGATGGGCCTCCAACATGGCCATAAGCATCTCCTCCTTTTATCCTATCATCTCCCCTCTCTGTTGAACAGATGACCTCACATATCCCCTACCTATCGAGGGGAAATAGGAATCAGGGTACAGAAACCGATGGCTACAGAGGCTCAGGTGTAGGGACAGGGCCAGAGTCAGCTGCTGCCTTGGTCTAGCCAACTGGGTGAGGGTCTGGATAAATGAGGGTAGTCACTGTGGGTATGGAAATGAAGAATGGATTGTAGAGTCCACAAGTAGGGTTGTCATGTGTAGGTGCGGAACCTGGGTAGGGGTGCTGAGGTACAAGGAGCTCCCTCTCTCCCCTCTACTGTCTCTGACTTGGGGGTGCCTGAGAAAACCATGGCCCATTGTTAATCTTCCCTGGGGCCCTTTCCACATCCCCATGCACAGGTTTGGAACCCTGCCTCTGAAAGCAGCTCTGAGAAGAGCATTCACATGGGGAGTGTGTGGGGTACTGTGTCCAAGCAAGGGGAAGGAGCCGGCCAAGATGGCTGAACCTCCTCTGGTCCAGCGGCTGCCTTCTTATCCCCAGCCTCTCTCCCTAGCCCAGTCGGGCCCCACAAAGCCAGCCCCTCCAACCTATAGCCCTGGCAAAGGCTTTGGCCAAATTACTGGCTGGCTTCCTCCCCTGGGAGGAAGCACAGCTCCCAAATGGGGGAGGGGTGAAAAGCCTGTGCGCTCTGCCCATCTCCTCTCCGCAGGCCAACTGGAAGGAATAAGCGCTTCCGGCCAGGCCACTCCCAGGCTGATGTCTGAGTGTTATTGTCCAGCCAAGGGCTTTTTGCTTAATGGGGTGAGCCCAGCTGCTGCCCTAGTGAGGAAAGACAGGCAGGCAACTCTTGCCATGCTTCCAGGGTCAGGCTGCCCCTCCCAGATCTACTCTGTGGGATAACAGAAGTTACCAGAAAGAGGAGGGCACACAGCCTCCAGCTCCCACACCTGTGAGCCATCATAATCCTGAAAGCTGTGTATGGAACAGATGTGAGGTTTGGGGGCTTACTTTCCCTACTCTATTTCAGGGTTTGGTTTTCGAGAAGGGAGGATTAGGGCATAACCAGCTTAAAGATGGAAGTTTCTAGGGCGCAAACAGGGAGTTTGTGCCATGCGAAGGCCCACAGGCCTTCAGAGATTGCACTCTGGAAATGCTGGGGCTGTCTTTGGGAAGGCAGCTGCTGGGGAAGTAGAGAGGACTAAGACGTGGGACTAAAGAAGAAGAGGCCTTTCTGAGTGATAGCATTGTTCTACCTTGAAAGGAGATGGGCTACCTGGATAATGCATTGTTAAAACTGATCAAATTGTACCTCTTAAGAACTATGCCTTTCACAGTATGTAAATTGTACCTCCACTTAAAAATAATTTTTAAGGCAGATGAAGGTTTTCAGCTTCCATTATTGACAGAGTTGCTTGTTGCAGATTAACTTTCTCACAAGAATATTTAGAAAAGCCAGACAAAAATGCCTGTCCTCCCCACAGTCAGTTTGAAGGTCTTGGAGAACTTCTAGGTCTAGGATTTGAGGGACCAGGACCCAGGAGGTGGCCCTGACAGTCTCTGGTGCTTTCCCCCTTATTTGATGATTGGTAAACACTGGGCTGGAGAAGGCAATGGCACCCCACTCCAATACTCTTGCCTGGAAAATCCCATGGACGGAGGAGCCTGGTGGGCTGCAGTCCATGGAGTCGCTAAGAGTCAGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTCCACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGATGGGGGACCCTGGTGGGCTGCTGTCTATGGGGTCGCACAGAGCCAGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCAAACACTGGGCCAAGAGGCAGGGAGCTGAATCCAAAGTGGTGGCTAAGAGGTTGGGAAGCCTAGCTGAATCATTGCCACTCTTGCAGGGCTGAGATGACACAAATTGGAATTGGAGCCCCACCAAGGAGATGGGGCCTTGGTGAGAACCTTGAAAGGACCATCCCTAAGAATCAAAAGGAGTCAAGCACAGACCAGCCCTCACAAAAACTAAACCCTGCTTTGAGCCAGCTCAGTCACAGACAATGAAAATGATTTGCCCTTCCTCTGACTGCCTGCCATAAAGCCAAAGTTGGTCCTCCCTGGAGGCGGATAAAGTCAGATAAAAACCTACTAAGAAAGCAATAAGACAAGATGAAATAAGAAAAGAAAAAACAGATAAAAGAAGGGAAATACACACAGATGATTCAGATATTGAAGTCATCATACATAGACTTTAAAATAACTTGCATTATGATGGTAAAAATTGTGTTATATGTATTTTATCACTACTAAAAATAAACAAAATAAATTTCCTTAAAAAGGAAATAACATGCATTAATATGTGTAGGAAACTTAAAGTGATAGAGAATTTAAAATGTATTAGATGAGTTTAATAGAAGATTGGTCATAGCAGAAGAGAAAATAAACAGCAAGAAAGGTCAATCGAAAATATCTAGACAAATGATAGAAAAAAGGAAGGAAAACATGGAAATGAAGATAATATGGTATGTGATAAAAATGTCGGGTCTAACATGTGCATCTAGAGTTCCTGAAAGAGTGCATATCAAAATAAGACAGAAGCAATATTTGAAGTGATACTGAGAATTTTCCAAAACTGACTAAAGATATTAAGATACAGGTGCAAGAGGCTCTATGAACTCTATGTGGGATAAATACAAAGAAAATCTTACCGAGGTACATCATAGATGAACTCCTGACCACCAAAGACAAAGAAAATCTTAAAAGCAGTCAGGAAGAAACAAGTCAGAAGGAACAATAAAACTAACAGCTGAAATGGAAGCCAAAAAATTAAATGACATTTTTTAAATGCTGTAAGAAAAACCTGCAAACCTAGATGTATGCAACCAGTAAAAAAAAAAATAATTAAAACTGAAGGTTAAATAAAGATGTTTTCAGACAAAAAGAGAGAGAGAATTTAATAAAAGAAGACTCAATACCAAAAGATGTTCTTCAACCATAAGGAAAAATGATCCCAGATGGAAATACAGAAATGTAGGAAAGAATGAAGCATAACAGAAAGGGTAAATATATGGGTGAATTTGAACTGATATTGACAGTATAAAACAAAAAATATATCATGCAAGATTTTTATTATATGTAGAATTAAATACATAACAATAGCCCCAAAGTAAGGAGGGTGTGGGAGAAGGCGATGGCACCCCACTCCAGTACTCTTGCCTGGAAAATCCCATGGATGGAGGAGCCTGGTGGGCTGCAGTCCATGGGGTCGTGAAGAGTCAGACACGACTGAGCGACTTCACTTTCACTTTTCACTTTTCACTTTCATGCATTGGAGAAGGAAATGGCAACCCACTCCAGTGTTCTTGCCTGGAGAATCCCAGGGACGGGGGAGCCTGGTGGGCTGCCGTCTATGGGGTCGCACAGAGTCAGACACGACTGAAGCGACTTAGCAGCAGCAGCAGCAGCAGAAGGAGGGTGTAGACGAAATGTTCTGAAGTTCTTGCCTTGTTCTAGAAGTGATAAAAGTACTAATTTATATTAGGTGCTAAAAGGTTAGGATTATGCATCTTGCAGTCTCCAGAGTAACTACTAAAAGAAGAGTCACATTAATAAGGGGAGAAATGGATAATAAAATATCCGTTTTATTTAATTTTTTTTAATTTTGTTTATTTTATTTAATCCAAAATAAGGCAAGAAAAGAGAGAAAGGGAATAAACAGAAAACAGGTAGATGGTAGGTTTAAACCCAAATATATCAGTATCTACACTAAATGTAAATGGTCTAAATACTCTAATTAAAACAAGACATTTGAGGGAAAAAGACAACTGACATGCATCTTCTCTCTCCTCTTTCCATCTACCCTTCAAGAGCCTAGAATGTGGGTATAATGGCTGCAGCTGCAGTGGTCATTGTGGACCATGCATATGAGGACCACATTCTAGGTGTGGAAGAGAAGAAATCTGGAAGGTCCCTATTGACTTTGTAGAGCATAACTGCCATATTATGTTGGAGATACTTCAGGTTTGGTTTCAGACCGCCACAATATAGTGAATATTAAGTCACATGATTTTTTTGGTTTCCCAATACATATAAAAGGTATGTTTACACTATGCTGTATTAAGTGTGCAATAGTATTAAGCGCTAACCATCGTCTGAGTTGTAATTTTTTTGTAGTAGTAACATCAAAGATCATTGATCACAGATCACCAGAACAAATATAATAATGAAAAAGTTTTAAATGTTGCAATAATTACCAAAATGTGACATAGACACACAAAGTGAGCAACTGCGGTTGGAAAAACTGTCAATAAGATGCTCCACACAGAGTTGCCACAAACCTTGAATTCAGAAAAGATGCAGTATCTATGAAGCAAGAGATGATAGTGGCAGAGGAGATGGGCAGATCAAATCAGATCAGATCAGTCGCTCAGTCGTGTCCAACTCTTTGCGACCCCATGAATCACAGCTCGCCAGTCCTCCCTGTTCATCACCAACTCCCAGAGTTCACCCAGACTCACGTCCATCGAGTCACTGATGCCATCCAGCCATCTCATCCTCTGTCGTCCCCTTCTCCTCCTGCCCTCAATCCCTCCCAGCATCAGGGTCTTTTCCAATGACTCAACTCTTTGCATGAGGTGGCCAAAGTACTGGAGTTTCAGCTTTAGCATCATTCCTTCCAAAGAAATCCCAGGGCTGATCTCAAGCAGGCAAATCTGAGACTTGTGTAGGGTCCCCAACCCCCCGGGCTGGCACTGTGGCCTGTTAGGAACTGGGCTGAACAGCAGGTGAATGGTGAGCGAGCGATCAAAGCTTCATCCATATTTACAGCTGTTCCCCATCATTCCCATGACCACCTGAGCTGTGCCTCAGGTCAGATCAGCAGGAGCATTAGATTCTCAGAGGAGCACAAATCCTAACCCTAAAGTCAAGGTGGAATATCCTGAGATTGCCACAAAATAGAAATAAAGTGCACGATAAATGTAATGTTCTTGATCATCCTGAAACCACCACCCCCACCCCGCCCCCGCCACCTCAGTCCATGGAAAAATTGTCTTCCACAAAACTGGTCCTTGGTGCCAAAATGGTTGGGAACCTGTTGATCTACAGGACTTACTGATGAATCAGAGAGCCAGGGATCAGGGACATCTGCCAGGTTTACTGGCTTGTGGAATTGTATGGCTGGGGTGCCATTCACTGAGATGGCAATGCCAGTGGAAGCCCAGGTCTGGGTGAAGATAAGGAGCTCTGTCTCAGGCACGCTGGTTATGAAATACCTCTGAGCCTTTTGCAGATGTTAGGTCAGCGGTTGGTCACATGGCCCTGAAGCTCACAGCCTTTTGCTTGATAAAGTGGGATCTGTTCACCTCCTACTTGGTGAACTGATAGCTGCATTTCCCTCCCCAG
Seq C2 exon
AATGAGCGAGAACAGATCATGACCACCAACATCTGGCTGAAACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003132:ENSBTAT00000052576:2
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(6.8=100)
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]