BtaINT0034930 @ bosTau6
Intron Retention
Gene
ENSBTAG00000005293 | CDC25C
Description
Bos taurus cell division cycle 25 homolog C (S. pombe) (CDC25C), mRNA. [Source:RefSeq mRNA;Acc:NM_001097996]
Coordinates
chr7:51315129-51315895:-
Coord C1 exon
chr7:51315797-51315895
Coord A exon
chr7:51315263-51315796
Coord C2 exon
chr7:51315129-51315262
Length
534 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGG
5' ss Score
11.08
3' ss Seq
TTAATAAAATTATTTTACAGGGA
3' ss Score
8.24
Exon sequences
Seq C1 exon
GTGGCTGCCTTACTATCAGGGGAGTTCCAGGGTCTGATTGAGAAGTTTTATATCATCGATTGCCGCTATCCATATGAGTACCTGGGAGGACACATTCAG
Seq A exon
GTAAGGTTATATTGAGGACTTAGCAGGGGAGGAGCTAGAGATACCCCTTAAGAAGTCTAGGCAAAGGGTCCTGTGACCTCTGGAACCAGGGCAAACATTATACATTTGGAATACATTGGGGTTGTCAGTCCTCATTCCTGTTGTAATTCTGTGAACCTTGAGCAATTTACTTTCCCTTTCCCTCCTAGACCAATCTGCCTCTTTCCTATAGAAGCCAAAAGCTCCTACCTGGAAATAAAAACATTAATCCAGAGACTGAGCAGCACTTGGCAAACACTTAATGCTTACAGACATTTCTCACAATAATCCCTACACTTTAGGCAGTTCTGTTCTATAAATGTTTATTGAGCACCTAGTATATAACCAAGCTCCATGCCAGGCCCAGTGGGTAGATACAGGTAGATTTCCACTCTGAAAGTACTTAATAGTCTAGTCTTCCTGAACTAAATATTTCAAGATGGTATTCCAGTTATTTCTAAGTGTTGGCCCTGTTCTCTCGCCCTTAAGGAAATACTTAATAAAATTATTTTACAG
Seq C2 exon
GGAGCATTAAACTTGCACAGTCAAGAAGAACTATATAACTTCTTTCTGAAGAAACCCATTGTCCCTTGGGATAACCAGAAAAGAATAGTCATCGTGTTCCATTGTGAATTCTCCTCTGAGAGGGGTCCCCGAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000005293:ENSBTAT00000006968:11
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(25.7=84.8)
A:
NA
C2:
PF0058115=Rhodanese=FE(40.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCTGCCTTACTATCAGGGGA
R:
GGGGACCCCTCTCAGAGGAG
Band lengths:
227-761
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]