BtaINT0035023 @ 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
chr16:30733339-30734860:-
Coord C1 exon
chr16:30734721-30734860
Coord A exon
chr16:30733421-30734720
Coord C2 exon
chr16:30733339-30733420
Length
1300 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGT
5' ss Score
11.08
3' ss Seq
ATGTTTCACTTTTCCTTCAGGGA
3' ss Score
10.56
Exon sequences
Seq C1 exon
ATCCCTAAGCCAGCTGGAGTGAAGAAAGGATGGCAAAGAGCACTGGCTGTAGTCTGTGACTTCAAGCTCTTTCTGTACGATATTGCCGAAGGAAAGGCATCTCAGCCCAGTGTTGTAGTCAGTCAAGTGATTGACATGAG
Seq A exon
GTAAGTTTCAGAGATGAAAATATGTGTATCTTTGCAACACAGAAATACAAACTGTGTGATTTTTCTTCTGATTATATTCCCATGTTTTTATTTAAATCTAATTTCACAGTAATTTTCTCATTTACTAATACTGTAATCACAACATAATTACAAACTGGAAGTATCGTATAGTTATAGAACAGGTTGATGTGCGTGTGTATGCATGTTGGGTCTGGGGGTCTGGGAAAAGAGGTTAATGCTTGAAAACCAAAAGACCAGTTAAAGGCTTCTGGGGTACTAGAGGCCTAATGTGTAATGTCTGTATCATCACCTAAAGCAAAGGCTTCAGTATAATTTCAATGTGAGGAAAGGAAATGAAAATCTCAAAATCAGACAGGCTCTTGGAATGTAAAATGAAGCCGTGAACATTTAAGTTAAGTACATCTCTTAAATGTTTCTGGTCTCATTTTCAGACTCTCTCCTCTACTCAACCCCTTCTCGAGACTCCAGGCATTCTCCCTCAGTGATCTTATTTACTCCTATAGCTTCAAGCATCATCTCCGCATTGAGATGACTCCCGAACATATGTCTCCAGACCCGTGCTCAAAACTAAAATTTCCCGTTCTGGCTCACATAAGCATTTCATACCAGCATCTAAAACACATTATCTTCCCCATACATGTGAAACATAAAGAAATACATTTCTTTATTTGCAAGAAACTTTAAAATATTAGCAAGGAAAATTTAACAGAACCTGCTAAGGACCAAATATAGAAAGATAGGGAGAAGAATCAAAGATAAAACTAAGATGTCAAATCTTCAAGATCAAGAGAATGATGGTACCAATAACCAAATTAAGGAAATCACAAGGAATAGATTATTGTGGAAGGGATCTGTCTTAGGATTTCCTAAGGAACAGTAGCACGTCAGATGAGCTGTGTTGAAGGAACAGTAAAATGTCAGATGAGCTGTGTTGAGGGCACTTGACATGTATTATCAGAGCAAAGAGGGGACAGTCTGCTGGAGACCTACTAGGATCCAAATCCACGTGTCCCGTACTTACTGGCATTGTGACACTGAGTAAGCCAGAAACCATTTCTAACTCTTGTGTCATGTGGCACTGTTAAATCACACCTGATACGTTACTTTTGGCACTATCAGTTACAAAGAAAGAAAATTCAAAAATTTTAAAAATTCAGTTTGGGTGTTCTGTGCAATTAAATTTTGAGGATTGCTTCATATGTGTTATTTAGATGCAAACCCAAAACCACACACACACCCCCCACATACGCTAACTTTTAATGTTTCACTTTTCCTTCAG
Seq C2 exon
GGATGAAGAATTTTCTGTGAGTTCAGTCTTGGCTTCTGATGTTATTCATGCAAGTCGAAAAGATATACCCTGTATATTTAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000022777:ENSBTAT00000029173:26
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:
NO
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:
ATCCCTAAGCCAGCTGGAGTG
R:
TACAGGGTATATCTTTTCGACTTGCA
Band lengths:
214-1514
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development