BtaINT0030529 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002036 | CACNB1
Description
Bos taurus calcium channel, voltage-dependent, beta 1 subunit (CACNB1), mRNA. [Source:RefSeq mRNA;Acc:NM_175819]
Coordinates
chr19:40301315-40302475:+
Coord C1 exon
chr19:40301315-40301434
Coord A exon
chr19:40301435-40302352
Coord C2 exon
chr19:40302353-40302475
Length
918 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
ACCCTGGGTGCCTCCTCTAGACC
3' ss Score
7.73
Exon sequences
Seq C1 exon
GGCTCAGCAGAGTCCTACACCAGCCGTCCGTCAGACTCTGATGTGTCTCTGGAGGAGGACCGGGAAGCCTTAAGGAAGGAGGCAGAGCGTCAGGCGTTAGCCCAGCTAGAGAAAGCCAAG
Seq A exon
GTGAGAAAGATGGGAGGGGCTGTGCTGGCATTGTTTCCCTTACCTCGTGCCTTGGAGACAGCCTGAACAGACCTGAGTCAAGTCTTGGCCCAGCCACTTCCCGGCAGATGTACGCCTCCTATGTGCCTCTGTCTTTCATCTGTAAAAGTGTAAGCTATAATACCTGCCTCCTTATAAAGTGCAATAAGTGCCTAAAACTCTTGCCACACGTAACAGGAGCTAAACATTTCCACTCTTTCTGGGTTGGCTCTTACTAGCTGTGAGATCTTAGGCCATTCACTTAACCTTTCTGAACTTCAGTTTTCCCATTCATTCAAGTGAATATGATAATAGCACTTTGTAGGATTTTTGTAATGAATAAATAAGATAATGGGTGTGAAACATATAACACAGTGCCTGGCACACTAAACAGTAGCTGCTATCATGATCACTACTATTATTATTATTACTGTGACTGTTCCTTCTTGGTGTCATTCTGGGGTCCCCCATAACCTATACTTATTCCCTGATGCCCCCCTCCATCCTGAGAGGACTGAGTTCTGTTTTTTGCTGTTTTTTTTTACTGTGAAATTTAATATGCACGTAAAAACCTGCATAAGCCATTCAGTGAATACTTTTGTTTTTTTAATAAAAATTTTTTTGATGTATAGTTGATTTACAGTGTTGTGTTAGTTTCAGGTGTGCAGCAACATGATTCAGTTATACATGCATTTTTCATTATTACAAGATTTTGAATATAGTTCTCTCTGCTATACAGTAGGACTGTGTTTACTTTGTGTATAGTAGCGTGTATAATGTGTATCTTAATGAAGAATTTACAAAACAAACCTCTCCATAATCACCACCCCAGTCAGGAAGTTGTACATCCCATTGTGATTTAACTCTCTGGTTGTCATCCACCCTGGGTGCCTCCTCTAG
Seq C2 exon
ACCAAGCCGGTGGCATTTGCTGTGCGGACAAATGTCGGCTACAACCCATCTCCAGGGGATGAGGTGCCTGTGCAGGGAGTGGCCATCACCTTCGAGCCTAAGGACTTCCTACACATCAAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.850 A=NA C2=0.488
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PU(92.9=97.5)
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTCAGCAGAGTCCTACACC
R:
TGATGTGTAGGAAGTCCTTAGGCT
Band lengths:
238-1156
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]