BtaINT0034904 @ 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
chr22:52261187-52262302:+
Coord C1 exon
chr22:52261187-52261285
Coord A exon
chr22:52261286-52262171
Coord C2 exon
chr22:52262172-52262302
Length
886 bp
Sequences
Splice sites
5' ss Seq
AAGGTATAG
5' ss Score
7.98
3' ss Seq
AGCCTCTGGTGTCTTCACAGGGT
3' ss Score
7.97
Exon sequences
Seq C1 exon
ATTACATCTGTTTTGAATGGCAAGTTTGCCAACCTCATTAAAGAGTTTGTCATCATCGACTGCCGATACCCATATGAATATGAGGGAGGCCACATCAAG
Seq A exon
GTATAGATTCTGGGGGCTTGTGGGTAAGCTCTGCTACTGTGGGAGGCATAGCAGGAGCCCTATAGACAGTATCTGTGATTTATTTTTATTTTTAAAGGAGGGGGTGATACCTGGCTGCTTGTTATAATGCTCACATGCTGCTTATGAGAATTGTAAAAAGAGGCAGTGGGTGTAAAAGGCATTTGATTCCTGGTGCACTGAAAGAATGCTCCCTGGTGTGCACTAATCATACAGCAAACCGCGCCCTGTTTTGTCCCCCACGCCATCACTGTCGGGGATTTCGAGGTGGTACCCACTGACTTCTATGCCTGGGCATGAACCTGTGAGGAGAAGCCAGTCTTTGGCAACATGGGCCAGGCCTAGTGATGCCTCTTACGTTTATAGTTGAGTTAAGTTGTCTGGTGAAGTGGGTGTTGGAACAGTTCATGTGTAACTTGCCCAGGAAGAAAGCCATTGGGTTGAAATACATTGTGTGTGTGTGTTAAGTTGCTTCATTGTGTCCGACTCTGTGACCTCTGCATGAGGGGAGCCTAGCCCGCCAGGCTCCTCTGTCCATGGAATTCTCCAGGCAAGAATACTGGAGTGGGTTGCCATGCCCTCCTTCAGGGGACCTTCCCAACCCAGGGATTGAACCCATGTTTCTTACGTCTCCTGCATTGGCAGGCGGGTTCTTTACTATTAGTGCCACCTGGGAAGCCCGTTGAAATACACTAAGAGGTAATTTAAAGACAGTGTTTGGGTCTGCCACTCTCTGAAAGTCCCTACATTGACAAATGCCACTCATACAGCGCACAGGCATAACAGAATCTTGAGGCACCCATATGAAGACCAGTCTCCAAGAATCATTAGCACCAGCGTGAGACCTAAGCCTCTGGTGTCTTCACAG
Seq C2 exon
GGTGCAGTGAACTTGCACATGGAAGAGGAGGTTGAAGAGTTCTTACTCAAGAAGCCTATCGTACCTACGGATGGCAAGCGTGTTATCGTGGTGTTCCACTGCGAGTTCTCTTCTGAGCGCGGCCCTCGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000009586:ENSBTAT00000012611:12
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:
PF0058115=Rhodanese=PU(25.9=84.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(39.8=100)
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:
ATTACATCTGTTTTGAATGGCAAGT
R:
GCCGCGCTCAGAAGAGAAC
Band lengths:
222-1108
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]