BtaINT0030543 @ 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
chr13:33244264-33247478:+
Coord C1 exon
chr13:33244264-33244400
Coord A exon
chr13:33244401-33247401
Coord C2 exon
chr13:33247402-33247478
Length
3001 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
AAACTTTTGCTTTACTCCAGTAA
3' ss Score
5.23
Exon sequences
Seq C1 exon
AAATTTAACAATGACTGGTGGATAGGGCGATTGGTTAAAGAAGGCTGTGAAATCGGATTCATTCCAAGTCCAGTCAAGCTAGAAAACATGAGGCTACAGCATGAACAGAGAGCCAAGCAAGGGAAATTCTACTCCAG
Seq A exon
GTAGGAGACAAATATCAAGTGTTTGTGTCAGAGTTCAGACTGTATTATCATTCATGAACCATTGGTTGCTGTAATCTCCAATCTTTATTTTGTGTTAGAAAACTTACATTGTATTCGTTTCTATAATGATGCAAAATCCATTGTCAATGACCATATTTTAGTATCACCAAGAATCTCTTTTGAGCGCCCACAAATAAGTCAAATAGAAGATGCTTTGTGGTTTGGAACATCCATCTCCGTTCACTAGTATTTTATAACTCTCGGGCTCTTTTAGTTCAGACTGGTGATACGGTTTACTGACAGCATTACAAATCCTGTATTTTAAAAACATCACCCAGCCTTTCATTTTCATCCTCTTCAAGAGAGAATCAAATTAAGTGTTACCATGAAGGAAAGAAAAGAGCTAAGGTCATAGAGTATTAAATTCAGGCTTTAGTGCAGAGGAAATTCTGAAGCCCTAATCTTGCTGAAAATACTCTGGCATCAAGCAATCGTGGTGACTAATCCCAGTATCCGGAGCTGCCTGGCATGGTAGGAAGATGTTTTAGAAATGACAGTCTCAGAGACCAGCAAAGAGCAGCTCTTGTGGTCTCTGAGTTTCACTTTCACTTAAGAAACTCAATTTTCAGTTCTACCCACTGCTTAACACTTAAAGAGAAACTCGGTAAGAAAGCAGTTAAAATTGTCCTTGCAGATAGCAATTAGAAGAGTTATGTAATAAGCTGGGGCCAAACGATCTTTTTTCCTAGGAGTCTTAAGGCTGTTTGCCCCTCACCAGAATCTTTAGAAGGGCTCCTCGAATATGGAGTAAATGTGAAAATGACCCCCTTGCAGACAAGTACAGGAACACGATTTGCTTCTTCCAGTGAGAGGATATGATATAGGCAAGTCTTTTCTTTAATGCAAATCACTAAGCTTTTGTTTCCTGAAGTTTATGTTTTATCTGTTTCTATGAGGACAAAAAATCCTTTGTCAAAGACCATATTTTAGTGTCGGCAAGAATTTTTTTTGAGTGCCCACACACAGGTCAAATATAAGATGCTTTGTGGTTTGGAACATCCATCTTCATTCACTAGTATTTTTTTTTTCTCTTTTTTTGCCTAAGTAGGTGAAAATATTGTTTTCTTGTTTTCTTATTCAGAGGTTTTTACATTTGTCTCCAAACATTTTAAATATACTTTTGTTTTGAGGGCATAGCTAGAATTCAGCAGTATTATAAAACTCAGATTTGTAAGTGAAAAAAAAAAATCAGCAGAAATCAAAAGCAGTAGAATTGGAGCCTGGCTCAAGAACATGACATTTTTATGGAATTAAACGTGAAGGGCAAATTTGCATTCTGGACATTTTGACTCTCTGCACTGTTTGTCACAGTTTTACACAACTCAAATAATACTTTGTTAGGAAAATTCAAAGAGAATGTAAAATAAATTCAAAGACTTAATAGTTTAGGGGGAAAAAAAAAAACTTCTGGAAGAAAATGTTTTGATCTTGCTAATGGGTATTTTTAAATAACTGCCAGAAATGGCTTCTCTAAATACCACTTTTTTACTACTTTTACATGGTGTCTGGTGTCCTTGTTAAACATGCTGGGGTATCTTTTAAGAACCTTAAAAAGCCACAGAGGCCTTCTGGTGGTTGCTTAAAGCTTTTGATGTTTGTCTTTTTTACGCATTAAAATGCCAGGATGGTAGCAACGAAATTCAGCCTGTCACTGGAATTTTAGTGGAATTTATATTTTCTTCTGAATAGTCATAAAATATTAAACATATATAAATATTTACAAAATCTCACCCTTGGATACATAGACACTGTAGCAGATTATGTCCACTAGACCTGGGCTTTGCAATGATAATAAATGTTTGGCCATAGGATTGTCTTGCTGACATTCCATGTCACTCTTAAAATATTCCTTTCCATCCATCTCTGTGAGGGGGTCATGTAGTGTATCATTTTGCATGCAGGTCACTGGTAAAAACATCAATGCCACTGATCTTATATTAACTCCAAAGTTTTTAAGACACTAAAGCATGTCTCAGATCAAACTTTAGAATTTGGTAGTTCTGAAGTTCAGATCATTCCTAAATGAGCCAAGTTGAACCCTCCATGTTAGCCATGTTTGAGAAATGTTCGAGGTATACTCTGAGAGTTAAATCATGGAACACTGTCACGCTCTCTCAGGTGTCTTTTAGAGAAGGGATCCCCAACCCCCAGGCCATGAACCAGTACCAGTCCCTGGCCCGTCAGGAGCCAGGTCCCATAGCAGAAGGTGAGCTGCACACAAGTGAAATTTCACCTATATTTACAGCCACTCCCCATCACTTGAATTACCTCCTGAGCTCCACCTCCTGCTCAAAGAACTCAGTAAATGTAACACACTTGAATTATCCAAAACCAATCCACACCCTTTGTTCCTTGGAAAAATTGTCTTCCATGAAACTGGTCCCTGATGCCAAAAAGGTTGAGGACCACTGTTTTAGAGGTTGGCAAATTTTATTATTGCTGTGTTGTTGGGTTTTCTTTTTAATAGATTGCTCATGAACACTTGAATACTGTACATCTTGGTACACAAAAAGAAGCAAGCTGCTTCTGGTGTACAAGAAAAAGGAGCAGGAACCCAATGAAAAAGAAACAAGTTTGGGTGTTAGCCTACGGGTTCTATGCATTGCTTCCGAGAATCTTGAAAATGAGAAACAAAGGAAATCTTTGCTCTTAGTCTATTTGCGATCCTGGCAGAGTTTGACGGGTGCAGCAGGCACCCTAGTTTTCCTCAGTCTCTCAGGGCCTTTTCAAATTGAGCCTTGAATCTGAAACAAGAGACCTTGACACAGATGTTTCAAGCACTTCAGGAACCCACTGGGAAATTACTCTTTGCCTCCTTGGAGGCAAGGCAGATTTAAAGTTCAATAAAAACATAATGAGTAATCATGTTTATCGAGCAGTACAAATGTCTTCATCTCTGAAATAAGTGTCAGTTGTAATATAAACTTTTGCTTTACTCCAG
Seq C2 exon
TAAATCAGGAGGAAATTCATCATCCAGTTTGGGTGACATAGTACCTAGTTCCAGAAAATCTACACCTCCATCATCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022000:ENSBTAT00000029344:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.413 A=NA C2=0.840
Domain overlap (PFAM):
C1:
PF0001823=SH3_1=PD(51.2=47.8)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm10)
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]
SPECIAL DATASETS
- Pre-implantation embryo development