BtaINT0030526 @ 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
chr19:40298255-40301434:+
Coord C1 exon
chr19:40298255-40298344
Coord A exon
chr19:40298345-40301314
Coord C2 exon
chr19:40301315-40301434
Length
2970 bp
Sequences
Splice sites
5' ss Seq
CAGGTAATG
5' ss Score
9.43
3' ss Seq
CTGGCCCTGTCTGTTTTCAGGGC
3' ss Score
12.09
Exon sequences
Seq C1 exon
CAGGGCAAATACAGCAAGAGGAAAGGGCGGTTCAAAAGGTCGGATGGGAGCACATCCTCGGATACAACATCCAACAGCTTTGTCCGCCAG
Seq A exon
GTAATGGGGAGGCTGGGTTGAGAGGAGGGAGGTGGCTGGTTGGTGGAGACCAGGATTGGTGAGCTCCAGGCACCCTCCCCCACGTCATTTGTTACCTGCCTAGAACCACCCCATCACCCTTACACCCCATGACCTCCTCTGCATATACTGTCAGCTGTACCCACTCCCTCAGCCCCCGCCCAGCCCCTCCCCCAGCACCAGGCACCAGCCCCTGCTGCCTGCCTGCGTCATCTCATTCAGGGACAGCCTGGCCTGCCTCCTTCTAGCTTGCTTCAGGCTGTCACCCACTCCCCCTGCCGGCTGTCTTCTTCCATGTCCTCCCCCAGAATCTGTGACAGCATGGGGTAGAGGGAGGTCCTATGAAATGAGGAGCCAGGACATTTGGGTCCCTGGAGCCCTGATTAGGTATGGATCCGGGGAAACGCCCTCCTCACATCCAGTTGTGACTGTTGTTTAATATGCAGAGAGAATGTGTGTTGAGGAGGGTGGAGGAGAGGCAGCAGGAAGTTGATTTTAGAGAGGACTTCAGCCCAGCACCCCTGAATGAAAGGGCAGGGGTTATAACTGAATGGCCTTCTGGGGTCTTCTGTTCTCAGTCAGGAAGTTGCCATTCTCATCTCTGTTCTAACTCTCAACCCCAGGCCATCTCAGGCTCAGGGAGAAGCAGTGAGAGAGCCCTGTGGTTGCTATGACTACAGAGCATCTCAACAAAGCCTGGTACCCAAAAAAGGCGAGAGGGGCTTAGGATCAGACAAGGAAGGAGTACGTTGAAGAAAAAATGGGCAGGCACATGAGGACAGAGGACAGTAGGAAAGTCAGTCACCCCCAGGCCAAGAGAGAGAGGATGATGCCAGGCAGATCCACTACTGACTGGAGTGAGGCCCTTCTTTTTGATTCTTATGTCTCCACAACACTTGGCACTCAAAAGCCCAGGCCTGACTTGAGAGGATCAGGAAAGGGACCTTTCATCCCAGGATTCCTAAATACACATACAAATGGGAAGTCCTTTCCCTCATCCCCTGTGTGTATTGTAGGACTGGGGCAGGGCCAGGGCTAGGAAAAATGACACCGTGCTCAGTGGAGCCCCTCTTGACAGAAAAGGGCCTCATTCCTTCAGTGTTTGCCAACCCAGGGGATCAGACCCCAGTTTCCAATCCTTTCTCCTCTCAGCTCCCCAGCTCTGACCCCCAGTAGGTGGCAGGGAGTGGGGGGGCAGGCCTTGCCACATCTCTGAGCTAAATATACCCTAGCAGTTTGCACATGTAGCAACTCTGCTTGTAACCTGAGCCCCCTGGGGGAACGGGCAGTTTGGGCCACCCCCTAGGCCAGCAGGGCCAGGCACTGAGGGCGCCGGGATGGAGGCGCCCAACCAGACCCTCGTAGTGGTGAGCTGGGGATGGAGTGAAGGTGGGGGTGGGGGGCGGGAGCAGCCCCTCAGGAAAGCTGGTGGGAGGCCTTCACTCCAGCCTATTTCCTTGCCTTCTCACTGTTCCCTTGTCTCCCGCCATTTCTGGTATGCACGCACTTGTGTGTGTGTGTGTGTGCATGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTGGGGTCAGTAAGTGCTTGCCCCTCTCCATCTCTGGGTCTGTTCCTCTGGCTCTCCTGGTGGCTGTCTTCCTGACTCTGAGTGCTCAGGAGGGATAAAGAGTAGTTGATTCACTGGTTTTCACTCTTTCCTTTGTATCGCTTTTCCAGCTTCTATGAAAACCCCACCCCACCCCCTGGTTTTCCTCTCAGAGTCTCCCATTTTCCTGATTTGGCTGGGAAATGGATGGGCCGCTGCACTGGCTGATGACGAGGGCACTCTGGGGAGATGGGACCTGGTCTTCTTTCTTTCCGAGGTCCCCTCCATACCAGGCTAATGGGCATTCTTGGCCAAGTGATCCCTTCCTGTCTTCAGAAAGAAACCCTCCCACCCCTGCAGTCTTACCCTTTCGTCACATCCCCTCCGGCCCTTTGTAGCAATAAATCCACACTTCTGGCTCCCGTCCTCACGTTCCCTTGGGGACACAGACACTGAGGGCGCCCCCCTGCCCCTCCCCTGTACGCACACACAGGGACCTGTATGCATTCAGTCATGCACCAGGACATACCACAGAGCACACACTCCCGAACAGACTTGAAGTTGCACATCCAAATACACCCGTGAAAGAGCATGTTCATTCACCTCCTGGGCTATGTGTGCCTTACACGTGTGTCTGCATTGCTGAGGGAGTTCCTTATGTCCTGGGATGGTCCGTGTGGTCAAGGCCAGCATCCTGGCACACCCAGACTTCTGAACCTGTCTTAATGCTGGCAGTTGGCTGCCCTAATGCAAGGGAAAAGCCTGCTTGTGTTCTTCTCTTGATGTGTTTCTCCTGTCTGCCCCACCCCAGGAACTTTGGGTTCTTTTTTGTATCTTATAAGAGTCTAAGGGTTGGGGCTTTCCAGCTTCTGGCAGGGGAGGTAGGATTCTATTTTCCCTCGCCCTTGAGCAGAAGGTAGCAAATTTTTGTGTGGCCCTAGCACATGGAGCAGGCTGCCCATGGCCACCAGTGCAGAGGGCTCAGACCTAAGCTGGTGGCTGTGGCCCCTGGAAGGACTCACTGGGCCTGTGCTGGGTCTGTCTCAGCGGGTTCTGGGAGCAGGGGAGGGAAGGAGGAACAGGGAATGGAGACTGACCGTTGGCACTCTGCCTCTGCACTGCACCCTATCAGGTTCCCACCCCTCCCTGGGCCCCAAGCAGCTGTCCTTGGACCTGCCATAATTCCCTGCTTGTTGCTATCACCCTTTCTAGGGCCACACTCTTCCCAGGGGCCTGCAGACCTCATTCTCAGGCTCTTCCTGTCTAATGCCGCCACCTCCTAGCCCTTGTGGTCTCACACTGGTGCCTTCTGCGGCCCAGGAGCTGGGGAGGCGGCGTTGGCCCTGAGCTGGCCCTGTCTGTTTTCAG
Seq C2 exon
GGCTCAGCAGAGTCCTACACCAGCCGTCCGTCAGACTCTGATGTGTCTCTGGAGGAGGACCGGGAAGCCTTAAGGAAGGAGGCAGAGCGTCAGGCGTTAGCCCAGCTAGAGAAAGCCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.850
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF120523=VGCC_beta4Aa_N=PU(92.9=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]