BtaINT0030542 @ 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
chr13:33241757-33244400:+
Coord C1 exon
chr13:33241757-33241879
Coord A exon
chr13:33241880-33244263
Coord C2 exon
chr13:33244264-33244400
Length
2384 bp
Sequences
Splice sites
5' ss Seq
GAAGTAAGG
5' ss Score
6.38
3' ss Seq
AATTTTGATTTTCTGTTTAGAAA
3' ss Score
6.09
Exon sequences
Seq C1 exon
ACAAAGCCCGTTGCATTTGCAGTTCGGACAAATGTCAGCTACAGTGCAGCCCACGAAGACGATGTTCCCGTGCCAGGCATGGCCATCTCATTTGAAGCAAAAGATTTTCTGCATGTTAAGGAA
Seq A exon
GTAAGGAGAGTAACTGCAATTTCTAGCTGCATGATTTTTTTTTTACCTTGAAATATCACTTCTTCTCATTGCTATGAAATAGCACGTGTACAGCCATGATTATATAACATACACATGAAATCAGTGCCTCTCAACCTTTTCCAAAATAAATATAATCTTTTTAAAGAAGAAAAAAGTCACAGGCTTCTTGGAATAACCTCAAGGCTCCCCTGGGCTCTGTGACCCAGAAATCGAGAACCACTGGAGTAGATGATCCTTTTTTTATACTTAACCTGTACTTTTCCTTTTAATGTTTAACCTTGACCATGTGTCATTTGTCGCTCATGTCCCAAGTTTAAGCATCTGGGGAGAGTTTAATAATAGTATCTAGAATTCACGGTCTCTTCTCTGTGCTAACAAGGTCTAAACTCAGGCCGCTGGTGCACTTTCTCCTTCTTTGGTGGTGAAATGCTATAGGGGAAGGAGAAGTGGATGGAATTAGAGCCAATGAGACAAGAAATAGATATCAGGAACATCCCTTTTCCACCATGCCAAAAGCCTCCACTTTCCGTTAACAATGACTCAGTCTGTAAATTGGAAAAAATTCACTCTTAATTAAGGTTTATTTTGAGTCAACATTTATCAAAGCCTGCTCTGCCAGAGATTTCCCCTCCATAATGTTCTCAGGCTGTGAGCATGAGACTTTCTTGAACCTGTAGGAATTTACCATTGGAACACTTCCATCTAGGGAACAGTGTGTCCTAGGGAGCATATGTCAATGTAACTACTCAGGCACTAAAGGCTATGAGCGAAAGAGGTGATGACTGCCACTGAAAAAGCCTAGAGAATATAGAGCCTACCATTTCTTTAACTTTTCAAAAGAGCTGTTATTTCTATTCAGCTAGGAAAAATTAAAAGTTAAAGTGTCAGTCGCTCAGTCGTATCTGACTGTTACCCCATTGGACTGTAGCCCACCAGGCTCTTCTGTTCATGGGATTCTCCAGGCAGGAATACTGGAGTGAGTAGCCATTCCCTTCTCCAGGGGATCTTCCCAACCCAGGGATTGAACCTGGGTCTCCTGCATCGCAGGCAGATTCTTTACCATCTGAGCCACCAGGGAAGGAAGTCCCTTGGCTAGGAAGGAAAAACAGAAAAAATTCTCAGAAGTACAACAAGCCTTAACTTTGACTTTACAACAGAAAGTTAGGTGAATCCAGGCTCCCATCCCAAGGGCTGATACTTAGAGAAAGAAAAGAAAAACAGAATGGATTTTCTTCTTTGAAATGCTGACTTTAAAAAAGAAAAGAAAAAAAAAAGCACAACATAAGAGTTACGAATTAAGTTTTGATTGAGCCAAAATGAGGACTATAGCCCAGGAGACAGCACCTTGGATAGCTCTGAGAAACTGCTCCAAAGAGGCAGGGGAGAAGCCCAGTATCTATGTGATTTTGGTGAAGGAGGAGTACATGCAATCAAGCACAGATTTTTGCAGAAGGTTTCTGCTGGTCATGAGGAGCAGTCATCATCAGGAAGAGCTTTAGTGCTTTCCTAGATATGAGGAGATGTAAGAATTAGGCTCATAAAATCAGCTCCTGAAAATATCTATCTGAAGACCTGTTCTGCCAGTTTTTTCAAAGCACAGAGTGCCTCATTTCTGTCCTCCACCCTGAACTCCTTTCAGGGAGTGCTGAAGGTCAGTGGCTGCAACAGCACATGATTTAATCCTTGCAGAGGTAGATGACAAGTGCCCGTTGCCAGTTTGTAGTTGACAGAAACGTTCAAGAACGGGCTTGAAAAATACTATGCATTTGAGGGACATCAAACCAGATCCTAAAGGTATAGGGTAAATACTCCAGGCACAAGAGAGAAATTACCAACATTCACATAAGTCGAGAAATCACTTGTGAACACCAGATTGTGGTCATTATAAACCTGTTTGCAACAAAGACACATTTTGCTCTGACATCAGATATTTCAGGTGAATGTCAGTATTTTTCACTCATAATACTTCTAACTACTCTGATTATACAAGAGGAAGACATTCTGTAGCATTCCCTAGTTCCTAATGGTCTCTTGTCAGGAAGAGCTGTTAATCTTTGAATAGGAAGAGTTTACCCTCCTCGTGGTGCCAGCAGCTGCAATGGAATTCAGAAAATCTCACGGTGAGGAAAGTGAAGGCAGAGTCAAGCCAGAGACGGATTGTTGAGCATCCCGAAAATACTTCATTTTTAGCATACTCAACACCTGAACCTACAGGTTTCTTGACTTGTGGTATTTGAGCCAGAGTTCTCTGTAATTGCCATAATACTTCTCTCCCCTGAAAAATGTTAACCGGGAAGATAAAGGATGTGAAGATTCATTTAACTTCTGTGCACTGATCTGAACAATTTTGATTTTCTGTTTAG
Seq C2 exon
AAATTTAACAATGACTGGTGGATAGGGCGATTGGTTAAAGAAGGCTGTGAAATCGGATTCATTCCAAGTCCAGTCAAGCTAGAAAACATGAGGCTACAGCATGAACAGAGAGCCAAGCAAGGGAAATTCTACTCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022000:ENSBTAT00000029344:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.122 A=NA C2=0.413
Domain overlap (PFAM):
C1:
PF120523=VGCC_beta4Aa_N=PD(2.4=2.4),PF0001823=SH3_1=PU(44.2=46.3)
A:
NA
C2:
PF0001823=SH3_1=PD(51.2=47.8)
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:
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]
SPECIAL DATASETS
- Pre-implantation embryo development