BtaINT0034906 @ bosTau6
Intron Retention
Gene
ENSBTAG00000009586 | CDC25A
Description
Bos taurus cell division cycle 25 homolog A (S. pombe) (CDC25A), mRNA. [Source:RefSeq mRNA;Acc:NM_001101100]
Coordinates
chr22:52263235-52264187:+
Coord C1 exon
chr22:52263235-52263346
Coord A exon
chr22:52263347-52263569
Coord C2 exon
chr22:52263570-52264187
Length
223 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTGTCCTGTCTTCCTGCCAGTCT
3' ss Score
8.51
Exon sequences
Seq C1 exon
GTGCCGATACGTGAGAGAGAGGGATCGGCTCGGTAACGAGTACCCCAAACTCCACTACCCAGAGCTGTATGTCCTGAAGGGCGGATACAAGGAGTTCTTCCTGAAATGCCAG
Seq A exon
GTGAGATGGACTCTCTGGAGGGCACAGGCCACCCGTCACCACCCCCTAGTTGGTGGTCATGGCTGTTTCCTACCCAGGGTCTGGGGGTTTGCCCTGAGCACAGAAGGGGCCTAGAACCACCCCCCACCCCACCCCAGCAGAGCCTTGTGGCTCCCGGCAGGGAGGGAGCAGGAGTGTGCGTGGGAGGCCACTGTTCCCAGATCTTGTCCTGTCTTCCTGCCAG
Seq C2 exon
TCTCACTGCGAGCCCCCCAGCTACCGGCCCATGCACCACGAGGACTTTAAAGAAGACCTGAAGAAATTCCGCACCAAGAGCCGGACCTGGGCCGGGGAGAAGAGCAAGAGGGAGATGTACAGCCGCCTGAAGAAGCTCTGAGGGCCTTGCGGCCAGGCGGCGGCAGCCTCCCCGCTCTCCCCACTCCCCTCTTTGCTGCAGAGAAACTTGAGCAAAGGGGCCAGCGGCGCGACACTTGGAGAGAAGGGCGGAGGCTTCCACGTCTTAAACCTACCTCCCACCCTCCCGAGGTTGGAGCCCAGAGTTTCCCACCGCCTCTCCGTCCTTGGAAGACGTCCTTCTTCAGCAGGGCGCTCAGCCAAGGCTGTCACGTGCCGCAGCAGGGTTCCGAGCAGCAGTCAGGGCTTTCTGCCTCCTCCTCCCCCATGGTTGGATGGGCCCCCTGCGGCCTCGCTGGGCACTGGCCTTGTCTCCTGAGGGGAGAGACGGAGAGAAGACTGCCAGACGCTGCTGGCCAGACACCAAAGACGGCCCGGGAAGCACAGGTCTTTGTGGGCTAGCCCACATCATTAATTTATTCAACTTCACCAATCACTTTCTTTTCTTTCTTTTTTTTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009586:ENSBTAT00000012611:14
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0058115=Rhodanese=PD(32.4=92.1)
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:
CCCCAAACTCCACTACCCAGA
R:
GGCCCCTTTGCTCAAGTTTCT
Band lengths:
292-515
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]