RnoINT0032516 @ rn6
Intron Retention
Gene
ENSRNOG00000021248 | Cdc25b
Description
cell division cycle 25B [Source:RGD Symbol;Acc:621500]
Coordinates
chr3:123731539-123732836:+
Coord C1 exon
chr3:123731539-123731971
Coord A exon
chr3:123731972-123732714
Coord C2 exon
chr3:123732715-123732836
Length
743 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
GCCTCTTTCTCCTTTCCTAGCGA
3' ss Score
9.53
Exon sequences
Seq C1 exon
GTTATTTTTCGAATATATAAGGAGGTGGAGGTGGCAGCTGCCCAGCTCGCGTCTTCCCCTCCCTTCCTCCCCACATCCCTCTCCTCACTCCCAGGCCCACTGCTCTTCCTCCCTCCCTCCCCTCCCTCCTTCCCCTTACCCCAGGCTCACTCTCGGAGCCTAGCCATCTGGGTCGGCGTCTGCTGGCCGCTGTACTTGTGGCCCTCTAGCTAGCCTTTGCCCGCCCCGCCACCATGGAGGTACCCCCGCAGAAGTCTGCGCCGGGCTCAGCTCTCAGTACTGCCCGCGTGCTGGGTGGCATTCAGCGGCCGCGCCACCTCTCAGGCTTTGGGTTTGGGTCTGATGGCTTGCTGGGGTCTCCAGAGCGTGCGGCTTCCTCCTCTCCGGTTACCACTCTTACCCAGACCATGTACAACCTCGCAGGGCTCGGCAG
Seq A exon
GTAGGATGCCCCAAGGGCACTGGGTGTGGTGGGATGGGAGGCCGGGACCAGGAGACACTAGGCACCAGAGCCACGGAGTGCAGCACACCGACGCCTTTAGCCTTGTTTCAGTGACATGGGACCAGTGTGCTGAGTCAGAAGCTATGCGACTTACACCCTCCAGATGACTGGCCGTCTAAGGATCATTTACCTCACTGCTCCTTCATTGTGCCTCCTGCACACTGTTCTTAGGCAGAGGATCATGAGGTTGGCCTAGAAGTGGGTCTTAAAAGGCTGCGCCCTGCTCTTTGAAAATATCTCACCTACTCCCCTAAGGCTTAAACTGAAAAAAGACGGGCCACCTCCTTAACCTGTGGGGTCCCAGCTGGGTGGTCGGTCCAGCTGCAGCAGAGAGCCGGGTCTTGCTTAGCCTTTGCCTCCTGGGAAATGCTGGCGAGGTGAGGATGTGCCCAGCAGGAGAAGGTTCTCCAGAGCTTCTGGGCTGTCTCCTGCCCATCCTTCTCACTCTTCCAGACACTTAGAAGGGTCTTTCCTGAACCAGTCAACGCAGAGAAGACCCTCTCGGGCCTCAGTAGAATGAAATGCTTTGACTTGAGATACAGGCTAGTTCTAGGATCACCTCTCAGTGACAGATAGATGGGCCCTTCATAGTTGGGGAATTCATGGGAGCATGGGCTGACCAGCTTCCAAATCCAACATTAATTTCTTTTTCTCCTCCTCTGTGCCTCTTTCTCCTTTCCTAG
Seq C2 exon
CGAGACCCCAAAAACTCAAGTAGGAAGCCTGTCGTTCCAGAACAGGCTGACAGACCTGTCCCTGTCCAGACGTACCTCTGAGTGCTCCCTGTCATCTGAGTCCTCAGAATCTTCTGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000021248:ENSRNOT00000051064:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.791 A=NA C2=0.690
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTACTTGTGGCCCTCTAGCT
R:
AGGACTCAGATGACAGGGAGC
Band lengths:
347-1090
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]