BtaINT0035024 @ bosTau6
Intron Retention
Gene
ENSBTAG00000022777 | CDC42BPA
Description
Bos taurus CDC42 binding protein kinase alpha (DMPK-like) (CDC42BPA), mRNA. [Source:RefSeq mRNA;Acc:NM_001192937]
Coordinates
chr16:30731038-30733420:-
Coord C1 exon
chr16:30733339-30733420
Coord A exon
chr16:30731255-30733338
Coord C2 exon
chr16:30731038-30731254
Length
2084 bp
Sequences
Splice sites
5' ss Seq
AGAGTAAGT
5' ss Score
9.35
3' ss Seq
TTTTGATTAAATTTTTCCAGGTC
3' ss Score
8.5
Exon sequences
Seq C1 exon
GGATGAAGAATTTTCTGTGAGTTCAGTCTTGGCTTCTGATGTTATTCATGCAAGTCGAAAAGATATACCCTGTATATTTAGA
Seq A exon
GTAAGTCTGTGTGTTATAATTTGATCACTGAATTATTTGCTTTTAAAAACTAAATGTTTTACCTCTCTCTATAGATCACAAACTTACTTGGAATATAACCAAATCTTACAGACAATTTGTGCAAAGTGAACACTGAATTAGTAGAAGACCAATAGAAGGCTTGAATATATGGCTTCTAAAATAGGTTTCATCTTGGATAATATTTTTGAATCACATTCAATTTTCAGATAAGTAGTACTACAAGAAGAATTGAATAAGTGTGAGATTTCTCAATTTTTTAAAAAAATAAAAGTTTCTTTAAGATCTTGTTTACAAGTTAGAATGTTTCAGTTCTATTGCTCTGTAATAACCACTCCAAAACTTACCAGCTTATTTATTTTTCACCATTATGTGGGTCAGTTCTGGTGTCAACTGGAGTCACTCATATGGCTGCATTCAGCTCATTTGGGGCTGAAATAGCCAAAACAGCCTTACTTTCACATCTGAGGCCTTGGTTCTGGCTGTTAACCCTGGTACTTGGCTGGTCTCTGGGCCACCTCAGTTCTCTTTGCAGACTCTCTCCATGTGGGCTCTAATCATTCACTAGTCTGGCTGAGTTCTCCGTGACTGGCTTCCAAGAGAGGAGAAGAAAAGCTGCCAGGCCTTTTAAGGACTAGGCTCAAAACAGGCACAATAACCCTTCTATATTCTGTTGGCCAAAGTAAGTCATGAGGTCATCCCAGACATAAAAGAAGGGGAAATAGACTGCATTTTTAGATAAGAAGAGTGAAATTCTGTAGGAAAAATTGTTGGTAGACATCTTTGGAGGCTGTCTAACACAGTGCAGTCTCAAACTGATGAGTTAAGTAAGATAATGGAGGTTTAAAAAAAAGGACTATTCTCTTGATGGTATGCCTATATACTTAGTACAAGTATGTATCTTGTATCTAAGACCATACTTAGTCTCTCAGTTCCCAGACCGAAAACTGTTCTCTCTCCAGCTACCAAGGGAAACTACACAGGTGCACTTATCTTACCTGATTCTAATTGTGGGATTTTATTGTCTCTGTTGCTTAAATTACTTTTAATAAAGGATCCATATATACATAAAGTAAGTATTCTGATTATGGGGTCATTGTAAAGTGATAAACCTTCATTTAAATATTAGTTCAAATGGTCTTCTCTAAGTTATTGTTATGAAGTAACAGAATCTAAGTATTTCTGAGCATTTTTTACTTTTTTAAAATGGGTTGAAAATCAGTATTGTGTAGTACTTATGAGCCTGGACACAGGATTCCAGTCTAGTTGTGTGCCCTTGGAGAAATTAATTTCTCTGCATTAATACCTATCTTGTAAAGATTTTGATGGACTTCCCAGGTGGCACAGTGGTAAAAAATTCACCTGCCAATTCAGGAGATGCAAGTTCAATCCCTGAGTCGGGAAGATCCGGTGGAATAGGAAATGGCCACCCACTCCAGTATTCTTGCCTGGAGAAAGATGTTGATAGAGTTAAATGAGTTAATACTTATAAAGCGCTTTGATCAGTGCCTAGTGCTCAGTTATTACTCAATAAATGTCAGTGGCTGTTGTTAAATGACTATGTGTAATGAGTTTTTTGTGATGTATTCTGGCACTCTGTAGCAAAGAAAATACAAATGACACTGCTGCTAAGCTGCTTCAGTCGTGTCCGACTCTGTGCAACCCCATAGACGGCAGCCCACCAGGCTCCCCCGTCCCTGGGATTCTCCAGGCAAGAACACTGGAGTGGGTTGCCATTTCCTTCTCCAATGCATGAAAGTGAAAAGTGAAAGTGAAGTCGCTCAGTTGTGTCCGACTCTTAGCGACCCCATGGACTGGAGCCTACCAGGCTCCTCCGTCCATGGGATTTTCCAGGCAAGAGTACTGGAGTAGGGTGCCATTGCCTTCTCCAAATGACACTAACGTTATGAATAAGTAAACTCTATTAAAGGTATGACTTAATGAGTGCTCATTTGCTGGCTAATGCAAAGCAAACTAGCATAAGCATAAAACTGGCTTAAAAGATGGCTGGCTGAAAAGATGTCAAGATGTTTCTAATATCATGAATTTTGATTAAATTTTTCCAG
Seq C2 exon
GTCACAGCTTCCCAGCTCTCAGCATCTAGTAACAAATGTTCCATCCTGATGCTAGCTGATAGTGAAAATGAGAAGAGTAAGTGGGTGGGAGTACTGAGTGAATTGCACAAGATTTTGAAGAAAAACAAATTCAGAGACCGCTCAGTCTATGTTCCCAAAGAGGCTTATGACAGCACTCTGCCCCTCATTAAAACAACCCAGGCAGCTGCAATCATAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022777:ENSBTAT00000029173:27
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0078017=CNH=PU(1.9=6.8)
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