BtaINT0030550 @ 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
chr5:31119022-31119476:-
Coord C1 exon
chr5:31119325-31119476
Coord A exon
chr5:31119118-31119324
Coord C2 exon
chr5:31119022-31119117
Length
207 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGG
5' ss Score
10.51
3' ss Seq
GCTCTGCCCTTGCCCCTCAGGTA
3' ss Score
10.14
Exon sequences
Seq C1 exon
CTGAAGTACAGAGTGAGATTGAGCGCATATTCGAGCTGGCCAAATCCCTGCAGCTAGTAGTGTTGGATGCCGACACCATCAACCACCCGGCACAGCTGGCCAAGACCTCGCTGGCCCCCATCATCGTCTTTGTCAAAGTGTCCTCACCGAAG
Seq A exon
GTAAGGCAGCTGTGGCGATAGAGGAGGCCTACAGGGCTGCCCTCTTAGAATGCGGTACAACTCTGCTTGGTCCCTGCCCAGGGGCTCCTCAGGCCACTTTTCCTGCTGCTGCTTAACACCGCTCTGAGTCCTCCTTGCCTGCTCCCATGCCATGAGTTGGGGACATGCCCAGTGCTTCCTGGGCCCAGCTCTGCCCTTGCCCCTCAG
Seq C2 exon
GTACTCCAGCGTCTCATCCGCTCCCGGGGGAAGTCGCAGATGAAGCACCTGACCGTACAGATGATGGCATACGATAAGCTGGTTCAGTGCCCACCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000021808:ENSBTAT00000029069:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(27.6=100)
A:
NA
C2:
PF0062516=Guanylate_kin=FE(17.1=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:
GAAGTACAGAGTGAGATTGAGCGC
R:
GTGGGCACTGAACCAGCTTAT
Band lengths:
244-451
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]