BtaINT0030528 @ 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
chr19:40309461-40310382:+
Coord C1 exon
chr19:40309461-40309556
Coord A exon
chr19:40309557-40309987
Coord C2 exon
chr19:40309988-40310382
Length
431 bp
Sequences
Splice sites
5' ss Seq
CCTGTGAGT
5' ss Score
7.21
3' ss Seq
CCTTAACCCCGCCTCCACAGGAG
3' ss Score
6.96
Exon sequences
Seq C1 exon
GTTCTTCAGAGGCTCATCAAGTCTCGAGGGAAGTCTCAGTCCAAACACCTCAACGTCCAAATAGCGGCCTCAGAGAAACTGGCGCAGTGTCCCCCT
Seq A exon
GTGAGTGCTCAAAGGGAAGGGAGGGCATTTGGGTTCTCCTGGTTTCCTCTGGCCTGCTGAGAGAATGACCAGGAACACCTGGGTCCAGTTCAGAGGTGCAGATGGATTGTCTGGGAAAAGAGGGCTGAACAGGCAGTTAGAGACTGTGTTCAAGTCCCAGCAGCACCACTTCTCTACGGAGAGTTAAGCCCCTCTCCACACCTTGGCTACCTTATATATAGAATGAGGAAGCTGTAATATCTAGGTGCTAAGACCTCCTTATATATATTTAATTTACATATCTGAGAGCCCTCCTCTTCCTGAACATCCAGAGGTTTCTTTTTAACTTTGTCCTTCAACCCCTTGACTCCACCCACTGCCCCCAGGCCACACCCTCACCCCTTGGTCACGCCCAGCTCATCCCAGCCCTGCCCTTAACCCCGCCTCCACAG
Seq C2 exon
GAGATGTTTGACATCATCCTGGATGAGAACCAATTGGAGGACGCCTGCGAGCACTTGGCAGAGTACTTGGAAGCCTATTGGAAGGCTACACACCCGCCCAGCAGCACTCCGCCCAATCCGCTGCTGAACCGCACCATGGCTACTGCAGCCCTGGCTGCCAGCCCTGCCCCTGTCTCCAACCTCCAGGTACAAGTGCTCACCTCACTCAGGAGAAATCTCAGCTTCTGGGGCGGGCTAGAGGCCTCGCAGCGAGCCAGGGCGGTGCCCCAGCAGCAGGAGCACACGGTGTAGGTGCCCCGCCCACCTCCCCTCCTGCCCAGGGCTCGGAACTGAGTGCAGGGAACTTGGGGAAGGAAGGGAAAAGTTTTATTTTGTAAAAAATGTGGTGAGTGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002036:ENSBTAT00000002640:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.334
Domain overlap (PFAM):
C1:
PF0062516=Guanylate_kin=FE(17.1=100)
A:
NA
C2:
PF0062516=Guanylate_kin=PD(13.8=25.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCCAAACACCTCAACGTCCA
R:
ACCTACACCGTGTGCTCCTG
Band lengths:
351-782
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]