BtaINT0038379 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27759876-27763362:+
Coord C1 exon
chr19:27759876-27760085
Coord A exon
chr19:27760086-27763138
Coord C2 exon
chr19:27763139-27763362
Length
3053 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
CTTCCCCTCTGTCCCCCAAGGAG
3' ss Score
9.34
Exon sequences
Seq C1 exon
AGAATGGCCAATGGGAGATTATCCACAAGCCTTCTCGGCTAATTCAGCCTTCAGTGGATCCTAGGGGAGGCGGGGAAGGACGACGTGAAGAAGTCACCTTCTACCTCATCATTCGCCGGAAGCCTCTCTTTTACCTGGTCAACGTCATTGCCCCATGCATCCTCATCACTCTCCTGGCCATCTTTGTCTTCTACCTGCCACCGGATGCAG
Seq A exon
GTAAGGGGGGGAGGAGCCCCAGCTATCTTACTTACCAATAGCTCAGCTTCTTCCTCTTCACCCATAATACAGGGAAGTTTTTCCTGCCAACTCAGGCCATCAGGAGTTTTGCTTCAGCAATCCTACCTAGGTTTTCCCTTCAAGAAGAGCCTTTGCATCTGCATTCAGGTTTCCCCTCCAACCTCAAGTGCTATCTCCCCTCTGCTGCTCATTTCTCTGCATCTAGTAACTTCTGAACTCTTCCCTTCAGAATCCTAGGATCTCATCCCTGGAACTGCCACTCCTCTGACCTGCAAGCTCCCAGGCTTAGATAACTGTTCCTTTTCTTTTTCCCATTCTTGGCATCCTCTGTCCCCTCACTTGTCAGATGCCTGCTGCTGCTGCTAAGTCACTTCAGTCATGTCCAACTCTCTGTGACCCCATAGACGGCAGCCCACCAGGCTCCCCCGTCCCTGGGATTCTCCAGGCAAGAACACTGGAATGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTGAAAGTGAAGTCGCTCAGTCGTGTCAGACCTTAGCGACCCCATGGACTGTAGCCCACCAGGCTCCTCCATCCATGGGATTTTCCAGGCAAGAGTACTAGTCCCTAAACCTCCCATCTCCCTAGAAAATAATATCCAACAGTTCTCTGTAATACAGCACAAAGTGCTAACAGAGTAACCTTGGGCAAATTCCTTAATCTCTTAGTGTCCTGATCTGGAACTCGGACACCCACTGTCCCTGTCATGTAGGACTATTTTGAGGATTAACTGAGTTGAGAGAACTATGCAGGGTACTCTGTAAACTTTGTGTAAGTGTATGTAATTTGTTAATTTTGAGCACTTGCTATAAGATAATACAAATAATATGTTTTATATATGTGCGTGCATGTGAAGTCACCTCAGTTGTGTCTGACTCTTTACGACCCTATGGACTGTAGCCCACCAGGCTCCTCCATCCACAGAATGCATATACTAACTCAATTCTAATCTTCGCAACTCTGTGAGGTAGATGCTGAATTGTCTTCCTGTTTCAGAGGAGGATAAAGAGGCTAGGAGCGTTTGTCATTCAGCTGACCTTATAGAGAGAGAGGTGGTATCGCTATTCCAACCCTGGTTAGTACCAGTTTGATTCAGAGACTGATGTCCTAAACTCCGGTATTCAAAACATGCTTTTCCCGGGAGTTCCCTGGTGGCCTAGTGGTTAAGATTCTGGGCTTTCACTGCTGTGGCCCCCAAAACAAAACAAACAAAAAACACATGCTTTCCTTCTCTCTGGAATCAAGTCCTCTCTGTCTAAGGGAAGGAGAATGATGAAGCTCTAGAAACACTTTCACATATAACTTCTTCTTCTTGGAGCAAGGCAAATCTTGGAAACCAATATTATAGAACTAAACTAGAACAGACCATAAATGTTATTTATTTCAATACCTTCCCTGAAGTTCGCAGTACCTGTTGTATGTCACAAGAATAACCAGCCACCTGGCATATTCTTATATACTTTGTTCATTTTTAGATCCTTCAATTTGCTATATAGTTTGTGCTACAGGGGTTGGTTTATTAATTCATGCAACAATATTTGTGGAGCATCTGTAATGTGCAAGACACTGGGAATACATCAGTGAATAAAACAGACAAAAATCCCTACTCTCATGGAGTTTACATTCTAGTGGAAGAGACAGTCTAAGCATAATAAATAAATCCATTGAACAGTATAGTGGAAGAGATCAAAGGACTTCTCTGGTGGTCCAGAAGCTAAGACTCTGACGTCCCAGTGTAGGGGCCCAGGTTTGATACTTGGTTGGGGAACTAGATCCCACATGCTGCAAATAAGAGTTCATATTCCACAACTAAAGATCCCTCATGGTGCAACTAAAAATTTCCACATGCTGCAGCAAAGATCAAAGATCCTTCATGCTGCAACTAAAACCCAGTGCAGCCAAATTAATAAATATTAAAAAAAAAGAAAGAAGAAGAGGTCAAGTCCTAAGAAGGAAAATGAAGTAGGAGAAGGGTTTGGGGAGGATGAGGATGGGAGTAGGGGATGCAAGTTATTTATTTAAAAAATTGTATTGAAGTATAGTTGATTTACAATGTTGTGTTTAATTTCTGTTGTATAGCAAAGTGACTCAGTTATACATATGTATATTCTTTTTCATATTCTTTTCATTATGGCTTATCACAGGGGTTGCAATTTAAAAATAGGCTGGTCAGTGAATGTCTCACTAAAAAGGGAATATCTGATCAATATTAGAACAAAAACTTGAAGGAAGTGAGAGAATGACCACGGTAGATATCTGAGGGAAGAAATTACCAGGAGGAGTTAACAGTGAATGTGAAGACTCTGAGGTGGGAGTATGCCTTGCATATTCAAGAAATAGCCAGTGTAACTGAATCAAGTTAGCAAGAGAGAAGACAGTAGGAGATGAAGTCAGATGAAGTCAGAGAGTTCATGGGAAGACCTTGCTGCAAAGTAGACTTTGGCTTTTATGCTAAAGGAGATGGGAAGCTACTGGAGTGTTATGATCTGATTTACATCTTTAAGGGATCCGTCTGGATGCTCTGTTGAGAACAGTCAGCAGGGGGCAAAGGATGAAGCAAAGAGGAGGCCTTTATAATAACTCAGACCTGAGGTAATGGTGGCTTGTACCAATAAGGTTTGGTATGGGTTGGATATGGGATGAGAGGGACAAGAGCAGAAAATGACTCAAAGGATTTGGCTTGAGCCACAGGAAAGATGGAGTTGTCATTTATGAAATGTGGAAGACTGTGGGGAGAGTCGGCAGTGAGGGAATTAAGTATTGGACATGTTAAGTCTGAGATGTTGGTTGGACACCCAAATGGAGGAGTTAGGAAGGCAAGCGTGGAATTTAGGGGAATAAGTCCAGGTTGGAGGTTTAAATGCAGGAGTCATTTGCTTGCAGTTGGCCCTTCCAAAACCCTGTCTGAGTGGGCTGGAAACATGGTCACTGATTATGCCAGGGAGATCTTCTTCTGACAAAGCCTAACTCTTCCATCTTCCCCTCTGTCCCCCAAG
Seq C2 exon
GAGAGAAGATGGGGCTCTCCATCTTTGCCCTGTTGACCCTCACTGTGTTCCTGCTGCTGCTGGCAGACAAAGTACCTGAGACCTCCCTGTCTGTCCCCATCATTATCAAGTACCTCATGTTCACCATGGTCCTCGTCACCTTCTCAGTCATCCTTAGTGTTGTGGTCCTCAACTTGCACCATCGCTCACCCCACACCCACCAAATGCCCCTTTGGGTTCGTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.070 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293118=Neur_chan_LBD=PD(18.7=57.7),PF0293211=Neur_chan_memb=PU(81.5=31.0)
A:
NA
C2:
PF0293211=Neur_chan_memb=FE(31.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
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]
SPECIAL DATASETS
- Pre-implantation embryo development