BtaINT0038397 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003132 | CHRNB4
Description
Bos taurus cholinergic receptor, nicotinic, beta 4 (CHRNB4), mRNA. [Source:RefSeq mRNA;Acc:NM_174517]
Coordinates
chr21:31518370-31523780:-
Coord C1 exon
chr21:31523493-31523780
Coord A exon
chr21:31518511-31523492
Coord C2 exon
chr21:31518370-31518510
Length
4982 bp
Sequences
Splice sites
5' ss Seq
AGTGTAAGT
5' ss Score
8.46
3' ss Seq
GCCCCTCTGTCTGCCCACAGGTC
3' ss Score
14.1
Exon sequences
Seq C1 exon
TCTAGGGCCCCCCAGTCCAGCCTGGCTCGCCTGACCAAGTCTGAGGCTACCACCACCACCACCTTGGCCATGGGCCCCACCAGCTCGTCCAATCTCTATGGGAACTCCATGTACTTTGTGAACCCTGGCTTGGCAGCTCCCAAGTCTCCAGTGGCCTCAGACTCAGCGGGTATCCCCAGAGATTTCCGGCTGAGGTCTTCTGGGAGGTTCAGGCAGGATGTGCAGGAGGCTTTAGAGGGCGTCAGCTTCATTGCCCAGCACATGAAGAGTGATGATCTGGACCAGAGT
Seq A exon
GTAAGTTGCTAGCCCAGCCCCCAACAGCCCAATGGAAGAGCTTTGGACTCTACAGTCAGTTTCCCATTTCCCTTTCCCCTGAAGTTAATTCAGGAGACAAAGGCTCTCAGATTCTTTGCTTGAATAAGAAATCCAAGAGTAAAATGAGTTTTATTTTAGTTTTGTGCATCCAGGGAGAGGAAGGAAGTACCAATGATCCTTTTTAGTTTGTTTTGGGTTCCCCAAAAGCAGAGCTCTATATAAGGACCTAGGCAGAGGTAGTTTTTTTTCTGAGAAGTGATCCCACGAAGCACATTAAGAAGTGGAGAAAGTGAGACGGGGAAAGGAGGATTGCCAGTGTGGGTATCAGTGAGCAGGATGCTGCTATGGGGTCTGGGGCATCAGAGACTCCCTGCAGAAGTGTGGGAGCATGCCTCAGAATCATCCCCTGGGAGAGAAAAGGGCATTTGCCCATCACTCCCATCCCCCACTGCTCGAGTAGCCCTGGGGCACGAACTCCCCTGCACTTCCTGGTGACACCAGCTGGCTGTGGAGCAAGCAGCTTTGGTGCGGGAGGAAGCCTGGGGGCAGAGCAGAGAGGAGAAGCAGGCAGGAAGTGGGAGGCTGTCCGTGGGCTGGAAAATGATTTTGGAGCCTTTAAGGACACAGGTGGGCCAGGGCACCCAGGATCTCCACTCCCATGCTTGTCAGGCTTGTGAAGAAGCCACACAAACATTTATAGCTTTTAGGAGGGTAGAACTATCCATTCAAATATTATTGCTACCGGGGTAATAAATTATCAACTTGGATGACTACAATTACAGATTGCCAAAAAAGAGGTTAAGCTTACTTTCATAGGACAGAGCAATGAGTTCTAGAGCTCAGGCATCTCAATGATTCCACTGAACAAGTAATGCCTCAGAGAACAATTTTATGACAGCTAAACACAGAATGTAATGGTAACAATTAGAAATTTTCCAAACCCGGCAGGAGAACAAGTTTCAGAGTCTTGTGAATGTTCGCATCTTAACACCTTATCGGATAAGATTCTTTGAACAGATTTTTTTTTTTTAACACAACATGCAGCTTCCCCGGGGAAAAAGAGGGCATCTCCATGTTCTTACCTTCCTGCAATTCCTTTTCACCAGCCTTATTCTCAAGGGATGGTTCCGGGATTCCATTAGTTATTGCCGAGAGAAAAGAACAGGGTGGAAAAGCTCCAAAATTACCCTGTGAGAAAGCTTTGCTAACAAGCGGAATATAGGACACAAGCTCTTCTCCACCCTTGTCCTGGGAGTGTGGTCCTTGGACCAGCTGCACCAGCCTGGCCTGGGAGCTGGTTAGAGAGCCTGCGTCTCAACTGCCTGCCCCCAGTCTTCCCACCGCCACCCTAGACCTGGTGGCTTAGCAGCTGCATTTTCACCAGATCCCCAGTGGATCCCTAGGCTCAGTCCAGTTTGAGAATCACAAAGCTCTACAGAATGATCAGATTTCACTTTCTAAAAAGTAGATTGAATTACGCTTGCTTTAGTTCAGAACCATTCAGTAGCTCAGTTCAGTTCAGTTCAGTCGCTCAGTCGTGTCCGACTCTTTTCGACCCCATGAATCGCAGCACGCCAGGCCTCCCTGTCCATCACCACCTCCTGGAGTTCACTTAAACTCAAGTCCATCGAGTTGGTGATGCCATCCAGCCATCTCATCTTCTGTCGTCCCCTTCTCCTGCCCCCAATCCCTCCCAGCATCAGGGTTTTTTCCAATGAGTCAACTCTTCGCATGAGGTGGCCAAAGTACTGGAGATTCAGCTTCAGCATCAGTCCTTCCAAAGAACACCCAGGGCTGAACTCCTCTAGGATGGACTGGTTGGATCTCCTTGCAGTCCAAGGGACTCTCAAGAGTCTTCTCCAACACCACAGTTCAAAAGCATCAATTCTTCAGCGCTCAGCCTTCTTCACAGTCCAACTCTTACATCCATACATGACCACAGGAAAAACCATAGCCTTGACTAGATGGACCTTTGTTGGCAAAGTAATGTCTCTGCTTTTGAATATGCTATCTAGGTTGGTCATAACTTTCCTTCCAAGGAGTAAGCGTCTTTTAATTTCATGGCTGCAGTCACCATCTGCAGTGACTTTGGAGCCCCAAAAAATAGTCTGACACTGTTTCCACTGTTTCCCCATCTATTTCCCATGAAGTGATGGGACCAGATGCCATGATCTTCGTTTTCTGAATGTTGAGCTTTAAGCCAACTTTTTCACTCTCCTCTTTCACTTTCATCAAGAGGCTTTTTAGTCCCTCTTCACTTTTTGCCATAAGGGTGGTGTCATCTGCATATCTGAGGTTATTGATATTTCTCCCGGCAATCTTGATTCCAGCTTGTGCTTCTTCCAGCCCAGAGTTTCTCATGATGTACTCTGCATATAAGTTAAATAAGCAGGGTGACAATATACAGCCTTGATGTACTCCTTTTCCTATTTGGAACCAGTCTGTTGTTCCATGTCCAGTTCTAACTGTTGCTTCCTGACCTGCCTACAGGTTTCTCAAGAGGCAGGTCAGGTGGTCTGGTATTCCCATCGCTTTCAGAATTTTCCACAGTTTATTGTGATCCACACAGTCAAAGGCTTTGGCATAGTCAATAAAGCAGAAATAGATGTTTTTCTGGAACTCTCTTGGTTTTTCCATGATCCAGCAGATGTTGGCAATTTGATCTCTGGTTCCTCTGCCTTTTCTAAAACCAACTTGAACATCTGGAAGTTCATGTTTCCTGTATTGCTGAAGCCTGGCTTGGAGAATTTTGAGCATTACTTTACTAGCATGTGAGATGAGTGCAATTGTGCGGTAGTTTGAGCATTCTTTGGCATTGCCTTTCTTTGGGACTGGAATGAAACTGACCTATTTCAGTCCTGTGGCCCCTGCTGAGTTTTCCAAATTTGCTGGCATATTGAGTGTAGCACTTTCACAGCATCATCTTTCAGGATTTGAAATAGCTTAACTGGAATTCCATCACCTCCACTAGCTTTGTTCATAGTGATGCTTTCTAAGGCCCACTTGATTTCACATTCCAGGATGTCTGGCTCTAGGTGAGTGATCAGTAGCTGAGCATCACCTAATTCATTGACTCCCAAATGTTCATATGCAGCCTGGGGCCCTGCTGGCTAATTAGGAACCACTTGGGCAACTTTTCAAAATACAGCCTTTGGGGCCACCTGTTCTGACTGAGCCAGGACCGCTATGGGCGGCAGTCCAAGGGCCACATTTTTAACCAGATCCCTGCCAGTTCCTGTGCAGACGCAGGGTAAGAAGCTATTCTCCTGCACCCTTGGCTGAGCCGGACCCCTACCCTGAGCTCTCTCTTCTAAAGGTCTCACCACCCTCTAGCCCTTCCTGTAGACCTCCTCCAGTTTCTAACTCAATTAATTAAAAGCATCTTGTGGGAAGGAGCCAGGCATGACCCACGGTTACCATAATATAATGGCCTGTGTTCGTTGAGCTCCAACCACACATCAGGCGCTCTGCCAGGACCTGACAGACGTTACTGCTAACTCTCCCAGGAACCTATGATGTGGCATTTACTCAAACTCCCATTTTACAATAGAGAAAACTAGGTCCAGAGAGGCTCACTGACTTGCCCAAGGTCACACAGCTGGCATGGAGCAGAGCCCAGCTCCACACTCAGATCTTTCTGATGTCATTAACATTTCTTGCCCTTCCCAGTGCCTTACCCTGAACTGACACATGGTGGCCTTATTTGTTGATCAACTTTCTCGTGCCTAGCTGGAGAAAAGAGGCTTTCTTCCCTTCCAGAGCGTGCTCGCTTGCCCCTAAGCCAGCCCGGGCTGCTTCTCATCTTCAGCACTGTCACCCTCCCTGGTGATTAACGGGTCACTATAAATAGTGCAGAAATATAAAAAGAGGGGGAGAGGCATGTACACACACACAGAGTCGTTGGCAGTTAGGGCTGTCAAAAAGAAACCCAAGAGCCCCATGTGAAGAGTGTGAGGTTTCTGCAGCGGTTGTGTTTGGCTGGGGGTGTGGGACTGGGTGACCAGCTGTCCTCCTGGAGGGTAGATGCCCACTGCTGACCAGGGCTCTGAAAAATTGGGTCACTGACACCAGCCTGCCCATTGCTGCCCGAATTTCCAGCTCCAGAGCCTCTGCTGAATTTTGCTGATCCAGCCACTCTCCACCAGAGCAAGTTCACATGCAGAAGGATCCAGACAGGCTGGGCTGTGAAAGCGGAGGTGGGGGAGGAAGACCAGGAGGCTGGGGCTCTCTGGGGGCATCTCTCCCAGGCCAGGGAGGCAGGCACATCTGCAGTGGCACCTCAGGAGGCCAGCCAGGTTCTTGCCAATCCTTTATCCCACAGCTGACTCTGAGAAGAACCACATGGAGTATAGGGGTGGGGTCGGGGAGCTGGGGGAAGGGCAGCAGAGTGGAAGAGAGAAACCTAGATGATGTAGAAGAGTGGGTCTTGATTAGAGAACTAGCAGACAATCTGCTGTTAACAGAATTGAGCAAATTAAACAGCAGGATTTCCAGCTGTCCTGCAGGCCCCACTGCCCAGCCCCCATTCAGCTCGGTGTACCCCAAGTCTTCCTTTGGGTGAAGCCAGCTCAGATAGGGGGCTTGGGGTAGAAATGAGAGCAGGGGCCTTGTGATCCTCAGGTCCTGCCCCGCTTATGTGTAATCAAGTTTGGTTTTGAATCGCATATGTGGCATCAATAACCCCTTCCTCCTAACCTTTGTGTACAGCCCAGCTCCCAGTGGCTCCGTGATGCCATGGAGGAGGGGTGGATTGAGATAGGGGTGTGTAGGGGTGGGCTGAGGACCCGAGAGGCACACAGGTTCCCGGCTGAAAGACCGGCCCCAGACTCAGAACTTGCCCTCCAAGTACTAAGTGGCCTGCAGGGTCCCTGGCCAGAGAGTGGGGCCCCGACTCAGGGGGAAGAGGGAAAACAGGACCCCCCTCACTCGCGCCTGTAACCGGCCCCTCTGTCTGCCCACAG
Seq C2 exon
GTCATCGAGGACTGGAAGTACGTGGCCATGGTGGTGGACCGGCTGTTCCTGTGGGTGTTCGTGGTGGTGTGTGTGCTCGGCACTGTGGGGCTCTTCCTACCTCCCCTTTTCCAGACTCACACGCCTTCTGAAGAACCCTAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003132:ENSBTAT00000052576:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.135 A=NA C2=0.087
Domain overlap (PFAM):
C1:
PF103294=DUF2417=PD(13.6=21.9),PF0293211=Neur_chan_memb=FE(39.1=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(12.8=66.0)
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]