BtaINT0030552 @ bosTau6
Intron Retention
Gene
ENSBTAG00000021808 | CACNB3
Description
Bos taurus calcium channel, voltage-dependent, beta 3 subunit (CACNB3), mRNA. [Source:RefSeq mRNA;Acc:NM_174509]
Coordinates
chr5:31116984-31118923:-
Coord C1 exon
chr5:31118774-31118923
Coord A exon
chr5:31118324-31118773
Coord C2 exon
chr5:31116984-31118323
Length
450 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
AGCTGCTATCTTGTCCCCAGAAC
3' ss Score
8.52
Exon sequences
Seq C1 exon
GAGTCATTTGATGTGATTCTGGATGAAAACCAGCTGGAAGATGCCTGCGAGCACCTGGCTGAGTACCTGGAGGTTTACTGGAGGGCGACCCACCACCCAGCCCCCGGCCCTGGGCTTCTGGGCCCTCCCAGTGCCATCCCCGGACTTCAG
Seq A exon
GTAACCATTTCCAAGGGCACTGATGCTCAGGCTGAGCCAGCCAAAGCAATGCCCCCTCCCCACCTGGCGGATCATTCCTGACCTCCAATTTGAAGGCCAAAGGATCAGAGAGCAGAGCAAGGGGGTGTGGGTGAAGGCAGTTCCTGATGAGGGAAGAAAGCAATGAGACAGGTAATCAGAGGCCACTTTTCCTAGGATTCCAAAGAAACACGCTCTCCAAACTCTTCTCCTAGTCTGTCTTGAAGGCAGAGTTTGGATTTGGCAGGATTCAAAAGTTCCAGTTTTCCTTGTCTGAAGTGGAAGAATGCTCCGGGGTGCTTCTCCTTCTGGATCATTTCCTGTACGCAGGGAACAAGAGTTGAGGGCAGGAATCCTCACGCTGCCAGAGTGGGGAGGGAGACTGAGGCGAGGTCCGCATGGCCTCACTTAGAGCTGCTATCTTGTCCCCAG
Seq C2 exon
AACCAGCAGCTGCTAGGGGAGCGTGGCGAGGAGCACTCGCCCCTGGAGCGGGACAGCCTGATGCCCTCAGATGAGGCCAGCGAGAGCTCCCGCCAAGCCTGGACGGGATCTTCACAGCGCAGCTCCCGCCACCTGGAGGAGGACTATGCAGATGCCTATCACGACCTGTACCAGCCTCACCGCCAACACACCTCGGGGCTGCCTAGTGCAAACGGGCACGACCCCCAAGACCGCCTCCTGGCCCAGGACTCGGAGCACAACCACAATGAGCGGAACTGGCAACGTAACCGGCCCTGGCCCAAGGACAGCTACTGACACAGCCTCCTGCCGCCCTGCCCCGGCAGGCACAGGCTGGCTGGGGCCCCTGCGCCAGGCAGGTTGGAGTTAGACTGGCATGAGGCTGGCACTAGGCTCAGCCCCCGAAACCCCCTGCCCAGCCCCAGCTCCAGGCCTGCCTGCAGTCCCGAGGTTCTGGGAGAAGAGCAGGGGGCCCCCTCACCTCCTGGGCACAGTGACCCCTCCCCAGGCTCCCATTCCAGGAAATAGCTGTGTGTGCTGCACCCTGGCACCTTTCCTCTCCTCCTGCACAAGAAACTGCCCCACTGGGCAGTGCCCTCAGGCCAGGACCCCCTTAGCAGGGGCCTTCCCACCAGACTCAGGGAAGGAATGCCACTCAAAGTGACAAGAGGGTGGGGCGTGGGTAGCATGGCATAAGGAAGAAACAAGGTCCCTGAGCAGGTACGGTCCTGTCCTAACCTGAGGGACTCGGGTTGTGCTTTGGGGTCTGAGGGCCTCTACTCACCTCACTGCCACACATGAGACATGAGACAATCGAAGCCCAGCAAGGTGGCACTCCTGGCATCAGCTGGGGTGGGGCATCCACACAAAGGCTGGAGCACGGACGGCTGGGCTAGGGCCAGCTGAAGCTCCAGAAGGGAAGGGCTCTGCTCACCTGCCAGGAAGCAGCTTAACATCTGAAGGGACCAGGGACTAGGAACACGGTGGACTGCGGGCTGGGGAAGGGAGGGCGAGTGTAGCAGAGAATATATGGACGGCTTGCTTTGGGCGCCTCCTTGCCCCACTCATTCTTTTGCTCTTGCATCCTATCTTTTCTGTTCTTGGTCTTCATGCCTCCCATGCCCATGGGATATGGGCCTCAGACTTTATTCCCTGATCTATAGCTGCTGCTCGTTAAGTTAGGATTAGAGGGGGAGATAGGACCCAGCGGACAGCCCCCAGAGGCCCTGTCAGCCTGGCTACCCTTGTCTTAAGAGGCTCTCGTGTGTGACCTACAGAGCATGCTCCACAAGCCCCTGCCCCACCTGTCATCACTAATAAAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021808:ENSBTAT00000029069:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.360 A=NA C2=0.990
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(13.8=50.0)
A:
NA
C2:
NO
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:
CCTGGAGGTTTACTGGAGGGC
R:
ATTGTGGTTGTGCTCCGAGTC
Band lengths:
352-802
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]