BtaINT0038373 @ bosTau6
Intron Retention
Gene
ENSBTAG00000019242 | CHRNB1
Description
Bos taurus cholinergic receptor, nicotinic, beta 1 (muscle) (CHRNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_174516]
Coordinates
chr19:27764384-27766382:+
Coord C1 exon
chr19:27764384-27764531
Coord A exon
chr19:27764532-27765281
Coord C2 exon
chr19:27765282-27766382
Length
750 bp
Sequences
Splice sites
5' ss Seq
GTGGTATGT
5' ss Score
7.64
3' ss Seq
TTTCCTCTGCCTAACCCCAGCTG
3' ss Score
7.89
Exon sequences
Seq C1 exon
GTTCCAGCCTGAACTGTCTGCTCCAGACCTGCGGCGATTTATCGATGGTCCAAACCGGGCTGTGGGTCTCCCTCCTGAGCTACGGGAGGTCGTTTCTTCGATCAGCTACATCGCTCGACAGCTGCAGGAACAGGAAGACCATGACGTG
Seq A exon
GTATGTCCACCAAGGGTGGACCAGGGCAAGGCCTGGGGGGCCTTGGCTCCACCCGCAAACAGGCTCCTCCCCCAGCACTCGGTGTTATTTTTATTTTTTTAATTATTTATTTGGCTACGTCGGGTCTTAGTTGTGGCATATCGGAGAAGGCAATGGCAACCCACTCCAGTACTCTTGCCTGGAAAATCGCATGGACCGAGGAGCCTGGCAGGCTGCAGTCCATGGGGTTGCTAAGAGTCGGACACGACTGAGTGACTTCACTTTCACTTTTCACTTTCCCGCATTGGAGAAGGAAATGGCAACCCACCCCAGTGTTCTTGCCTGGAGAATCCTAGGGACGGGGGAGCCTGGTGGGCTGCCGTCTATGGACTCGCACAGAGTCGGACACAACTGAAGCGACTTAGCAGCAGTTGTGGCATATGGGATCTTTGGTTGTGGCATGTGGGATTTAGTTCCCTGACCAGGGTTTGAACCCGGGCCCCTTGCATTGGGAGCGTGGTGTCCTAGCCACTGGACCACCAGGGAAGTCCCTTGGGTTTATTTCTGAGTGGAAGTTTGCCTCAATGGGTCCTGTCTTTACTTTCCTTCTTGTTCTTGATTCACATCCATCGCCTGTGGTGGCTCTCTGCTATACTGAGGCCGGCCCTTGTCTCAAAGCTGTGGTGGGAGGACCTGGATGGGGTACAGGGCCCTGGGGCAGCCGTTCCTGGGGGTCCGGACTCAGGAACAGTTTCCTCTGCCTAACCCCAG
Seq C2 exon
CTGAAGGAGGACTGGCAATTTGTGGCCATGGTAGTGGACCGCCTCTTCCTATGGACCTTCATCATCTTCACGAGCGTTGGGACCCTCGTCATCTTTCTGGATGCCACGTACCACTTGCCCCCCGCCGACCCTTTTCCTTGAGGCTGGGACGAAGGTGGAGATCCAGATCCTTGGCCAGGTGAATTGAGAGTTTGGCAGGGCTCTTAAGCCCTGTACCTTTCTGCATCTTAACTCCATCACTAGGAGTCCAGTTCTCTCATCATTTCATTTCTAAGGAGGGAGCCTAAATGGGACTAGGCATTTGGGGGACTTGGGCCCACCTGAAATGCACTAACAGTTTATTATTCTTTGGCTTCTTGAGGAAGCTCCGTTGGATGTTAACACCTATGCTGGCAATGAATGGAACAAACGACAAGAACTAGACTGTATGCCTTCTAAGGGCAGAAACTCTGTCTTGTTCACTGTAATATCCCGGGCACCTAGCACAGATCCTAACCTATATGGCAGTTACCTCTGGTTGAATTAATAGGGATTTTTTTTTTTTTCTGTGAGGAAATACACTAAGTAGTAGTGCTGAAGTTTGCATGTTGGTACTAGTGATCATTTTTTGTTTTTGCCTTTCTGCAGTTTATCATATTTTGTAATATGTAATATCTTTAGGATTAAAAAAGAAAAGGTTATTTCTAAAAAGATGCATTTGTAAAGAGGATAAAAAGCACACTTTTAAAACTTCAAGTTCCAGCTTTGGTGCTCAAACTTTGGACAAGCTACTAAACTGCTCTATGCCTCAGTTTCCCCATCTGTAAAATGAAGCTAATATTAACAGTATTTAGAATCTGGCCCCTAGACTGAGCATCATATAAGAAAACAAAAACATTATACATCAGAGTTACACACTGATATGTTTTGTTTGGCTCATGTTGTTGGCCAAAATTTTAAATCTGGTTTGCTACTTTTAAAATGTAAAACAAACAAAAAAAGACTCTCCTTTGGGGTCATCCTGCCTTCACACCTCAAGGGTGTACTATCCTTTGTTGACCGAATAAAACTCTGAGCTGTAAAAAAATTATAAATAAATTAAAATGTGGATATTTCACAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000019242:ENSBTAT00000025624:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0293211=Neur_chan_memb=FE(20.5=100)
A:
NA
C2:
PF0293211=Neur_chan_memb=PD(13.0=66.0)
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:
CGATCAGCTACATCGCTCGAC
R:
GTCCCATTTAGGCTCCCTCCT
Band lengths:
344-1094
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development