BtaINT0034917 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008436 | CDC25B
Description
cell division cycle 25B [Source:HGNC Symbol;Acc:HGNC:1726]
Coordinates
chr13:51856217-51856639:-
Coord C1 exon
chr13:51856541-51856639
Coord A exon
chr13:51856351-51856540
Coord C2 exon
chr13:51856217-51856350
Length
190 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
ACCCCTGGCTTCTCTGGCAGACT
3' ss Score
8.46
Exon sequences
Seq C1 exon
GTGGTGGCTCTGCTGACAGGCAAGTTCAGCCACATCGTGGAGAAGTTTGTGATTGTTGACTGCAGATACCCCTATGAGTATGAAGGCGGGCACATCAAG
Seq A exon
GTGAGGCAGGGTGACGGGAGAGGCCCTGAAGACTCATCCAGTTCTGTCCTTCCTCTGCCCAGAGGATGCACTCTCTCATGGGGTAGGATCTGCCCTTCAAGAGGTGGAGTCACTCATCTGAAAGATGGGGACCGCACAGGGCAGGGTCAGCCACGCACAGCTGCGGCCTGACCCCTGGCTTCTCTGGCAG
Seq C2 exon
ACTGCTGTGAACCTGCCTCTGGAACGGGATGCCGAGACCTTCCTGCTACAGAGCCCCATCACACCCTGCAGCCTGGATAAGAGAATCATCCTCATTTTCCACTGTGAATTTTCATCTGAGCGGGGCCCCCGCAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008436:ENSBTAT00000011100:12
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(25.0=81.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(40.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTGGTGGCTCTGCTGACAG
R:
GGCCCCGCTCAGATGAAAATT
Band lengths:
226-416
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development