BtaINT0030540 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022000 | CACNB2
Description
Bos taurus calcium channel, voltage-dependent, beta 2 subunit (CACNB2), mRNA. [Source:RefSeq mRNA;Acc:NM_175789]
Coordinates
chr13:33283515-33285264:+
Coord C1 exon
chr13:33283515-33283700
Coord A exon
chr13:33283701-33284611
Coord C2 exon
chr13:33284612-33285264
Length
911 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGC
5' ss Score
9.88
3' ss Seq
ATTTGCTCCTCCGTCTCCAGGGT
3' ss Score
10.45
Exon sequences
Seq C1 exon
GAGCTGTTTGATGTGATCCTGGATGAGAACCAGCTCGAGGACGCCTGTGAACACCTGGCCGACTACCTGGAGGCCTACTGGAAGGCCACCCACCCTCCCAGCAGCAGTCTCCCCAACCCCCTTCTCAGCCGCACTTTAGCCACCTCCACCCTGCCCGTCAGCCCCACGCTAGCCTCCAACTCACAG
Seq A exon
GTAAGCTGAGCCCTCGTCCACGCCCGGGGTGCCAACGCAGCGTTTGTTCCCATCAGGCAGCTCTCTCCTGAGAGAGCTGTGAGAAAAGCAATGTAAACAGCATCCTGTGAATGTAGATCCCCTCTCCCCATATTCTTTTTTTAATTGGTGTAGAGTTGCTTTACAAGGTTGTATGGGTTTCTTCCTACAAGGAAGTGGAACAGCTATATGTCTATCAGCTCTATCCCCTTCCTCTTGGACTGCCCTCCCATCATCCCCCGCTCTAGGTTACCACAGACCACTAACTCTATTAAGACAGGAAGAGAGGAGAAACTTTCCACAGGCCGGCAGCACAGACTCTGGACTCAAGACCACCTGGGTTCAAATCCCTCCTGGGCCCTGTGCCCCAGGCATCTAATGGCACCAACCTCATGGGGCCCAAGGGTTGCATCTTGTGACCCTTCATAGAGCAGCATGGAGGGTTGTATTAATAATTTGATACATGTGACTATCTTATGCTAGGGCTGGTCTCATTAAGTGCCATTTAAGTATCTGTTTATCTTTTTTTTTCCCTTAAAGCCCACATTCCCAGAATTTCTCTTCCTATCTGTATCTGAGCAGAGGTGTGGCTCAGTGTTCACCCAGGTGTAGACAGATCTCAGGAATTTGTATCTGTATTTGAACCACAAGAGAACGTATAAAAGAAATCCCTCCTTCCTTCATCTAAAAGTCATTGTTCAAAGTCTCTAAAAGGCTGAAATGAAATCTAACCCAGCTTGCTTGCTTAATTCTTTTGGTAACATCCAGTAGCATTTATATTATATTGGATTTGATGTTAATTTGTAAGCGCCAAGGACAGCGCAAAGGGACTGGACGTAAAAGGACTTGCCTTTGTGATGGGGGTTCTCCTGTATTTGCTCCTCCGTCTCCAG
Seq C2 exon
GGTTCTCAAGGGGATCAGAGGACAGATCGCGGGGCTCCGGGCCGCTCTGCTTCCCAAGCTGAAGAAGAACACTGCCCGGAACCGGTCAAGAAAGCCCAGCATCGTTCCTCCACCCAGCACCACAACCATCGCAGTGGCACCAGCCGAGGCCTCTCCAGGCAAGAGACCCTGGACTCGGAGACGCAGGAGAGTCGCGACTCCGCCTACGCGGAGCCCAAGGAAGAGTACTCGCACGAACACGCGGACCACTACGCCCCGCACCGTGACCACAACCACCGAGAGGAGCCCCACGGGGGCGGTGAGCACAGACACAGGGAGCCTCGGCACCGCTCCAGGGACCCGGACCGAGAGCAGGACCACAACGAGTCCAACAAACAGCGGAGCCGCCACAAATCCAAGGATCGCTACTGTGACAAGGACGGGGAAGGGCTGTCCCGGAGACGCAACGAGGCCGCGGACTGGAACAGGGATGTTTACATCCGCCAATGACTTTCCTGCCCTTTTGTGTTGTTGTTTTTTTAAGTCTTGTATACCCACCACCCACCCACATCGATCTTGGGGGGAAGGGGGTCTACACCGCAACCATGTGATTTGTCTTGTATATTTTGTACTGCTGTTGCTTGGATTGCAACAGCATGAAATAGAGTATTAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022000:ENSBTAT00000029344:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.516 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=PD(13.8=40.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GACTACCTGGAGGCCTACTGG
R:
AGTACTCTTCCTTGGGCTCCG
Band lengths:
355-1266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development