BtaINT0030560 @ 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
chr5:31119325-31119889:-
Coord C1 exon
chr5:31119780-31119889
Coord A exon
chr5:31119477-31119779
Coord C2 exon
chr5:31119325-31119476
Length
303 bp
Sequences
Splice sites
5' ss Seq
TTGGTGAGA
5' ss Score
6.29
3' ss Seq
CCCTGTCCCTCCCTCCATAGCTG
3' ss Score
11.59
Exon sequences
Seq C1 exon
GATCTCTATCACCCGAGTCACCGCAGACCTCTCACTGGCAAAGCGATCCGTGCTCAACAATCCTGGCAAGAGGACCATCATCGAGCGCTCCTCTGCCCGCTCCAGCATTG
Seq A exon
GTGAGAAGTCACCAGTCCTGCTTCTTTGCCCACTCATGCATTAGTGAAAACCTTCCTCATACCTTCCTCTTTCCTGGCAACTTGCATTCCTGCCCAACCCCTTCTCCACCTCCCCCAGGATTGGCAAGAACCCACCCTAGTCTCAATGCCCCAGTGCCTCTGCCTGCCCAGGCCTTGATGAACATCCTCTCCCTCCACCATCCCTTCCCATCCACCATTTGGGAGACCCCAAAGCCCTGTTGGAGTCGGACGGGGGTGGAGACACCAGTGAGCATTGCGGCTCCCCTGTCCCTCCCTCCATAG
Seq C2 exon
CTGAAGTACAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAGTAGTGTTGGATGCCGACACCATCAACCACCCGGCACAGCTGGCCAAGACCTCGCTGGCCCCCATCATCGTCTTTGTCAAAGTGTCCTCACCGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021808:ENSBTAT00000029069:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.079 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(20.4=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(27.6=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:
GATCTCTATCACCCGAGTCACC
R:
CTTCGGTGAGGACACTTTGACA
Band lengths:
262-565
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]