HsaINT0031559 @ hg19
Intron Retention
Gene
ENSG00000101224 | CDC25B
Description
cell division cycle 25 homolog B (S. pombe) [Source:HGNC Symbol;Acc:1726]
Coordinates
chr20:3776401-3778396:+
Coord C1 exon
chr20:3776401-3777378
Coord A exon
chr20:3777379-3778268
Coord C2 exon
chr20:3778269-3778396
Length
890 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGA
5' ss Score
9.79
3' ss Seq
GGTCCCTGTTCCCTTCCCAGCGA
3' ss Score
8.19
Exon sequences
Seq C1 exon
GCAGCCAGTCGCGGAGGCGGGGAGGCTGCGCGGTCAGAGGCGCCTGGAGCGAGCGAATCCTGGCCCACCGCCTGCCCAACCGCGTGACCTTGATTGAGTTAATGAACTTCACGCCTCAGCGTCCAGGTCTGTAAAATGGGGTGTCTAACGCAGACCGTACAGCCCAGCTGGGTTTAGCAAACTTCCGGGAGCCAGTTGGAGCCTCTCCCCATCCCTAGCGGTGATCCCAGGTGACGACATGCCGCGGGGGGTCCTGCGGAGGCCACCCTAGGGCGTTGCTGCTGCCTTTGGGAGTGTGGAGCTCCAAACCATGTCGCGAGAGGCGGATTTTGGGAGGCCGGGATCCTCGCGCCAGGGGGATGTGCGAGGGTGTGGGATAAATCTTAATTCCTCCGGCCCACCCAAAGCCTGGAAATCCAGCCTCCGCGCCTCTTGCCCTGCGGGCCCCGCCCTCAGTCCCGCCCTCATCTAACCCGCTACCCCATTGGTGGCGTCCGGCGGCGCGGCTGCTGTTATTTTTCGAATATATAAGGAGGTGGAAGTGGCAGCTGCAACTAGAGGCTTCCCTGGCTGGTGCCTGAGCCCGGCGTCCCTCGCCCCCCGCCCTCCCCGCATCCCTCTCCTCCCTCGCGCCTGGCCCTGTGGCTCTTCCTCCCTCCCTCCTTCCCCCCCCCCCCACCCCTCGCCCGCTGCCTCCCTCGGCCCAGCCAGCTGTGCCGGCGTTTGTTGGCTGCCCTGCGCCCGGCCCTCCAGCCAGCCTTCTGCCGGCCCCGCCGCGATGGAGGTGCCCCAGCCGGAGCCCGCGCCAGGCTCGGCTCTCAGTCCAGCAGGCGTGTGCGGTGGCGCCCAGCGTCCGGGCCACCTCCCGGGCCTCCTGCTGGGATCTCATGGCCTCCTGGGGTCCCCGGTGCGGGCGGCCGCTTCCTCGCCGGTCACCACCCTCACCCAGACCATGCACGACCTCGCCGGGCTCGGCAG
Seq A exon
GTAGGACACCCCAAGGAGGCTGCATATGGGGGTGAGAGGCTAGGTCTGGAGTCCTGGGCCTCCTGGAGAACTGGGCATGGTAGTCGAATCCAGGAGGTGGAGTCCGGGGAGGCATCCTGAGCAGTGGAGAGGTACGCCCTTGTTCCCTCCTAGGGGCCCAGGACATGGGAAGTGAGACCTGGGCTGTGCCCCCCACACCTCCAGGTGACCTGCTCTCAGTCTGCACAAGCCTCTCCAAATCTTCTTTCCCCTCACTCCCTCCTCCCTCATTGTGCCTCCACCACGCTGCCTCCGTAATCTCTGCCCGGATAGCCACCATTTTGCCCCAGGATGGGAATCTCAAGCCTGGAGAGGGAACTTAAGGGTGGCAGAGCCGTGGAGCACTCACACATCCATGCCCCTGCTCCCTCCACCCCAGTTCTGCCCCCAGAATTAAGACAATTAATTAAACACTGATCCTGCTCCCTAAGTCTGCAAGGGGAGAGCTGGGTTGTTCCAGTAGGAGAACCTGGTCTTGGTCCATCCTTCAGGAAGGGTCCTGGAAAGGTGGGGGTCTGACAGTTTAGGGGAAGGCTCTCTGGGGCGGCTCTGCTAGACCACCAACCCTTAGGCTGGCCTCCAGCCAGGCAGCCTTGCTCACACCCTGGGCTCACCTTGCCCTGCTCCTGAGAGGACCTTTCCTAAACCAGTCAACGAAGAGAAGACGCTTTAGGGCCTCTGTAGAATGAACCTTCCTTGACCTGAGAAGAGGGGGCCCTCAGGGCCATTGCTTTCCCGGTGTAGTGTTTCGCTCAGTTCTTTTCTCAGCAAGGGAGTGGGAACGTGGGCTAGCCAGGCCTTGAGCCCCACGTTTACCTTTCTCCTTTCCCGGGTCCCTGTTCCCTTCCCAG
Seq C2 exon
CGAAACCCCAAAGAGTCAGGTAGGGACCCTGCTCTTCCGCAGCCGCAGCCGCCTGACGCACCTATCCCTGTCTCGACGGGCATCCGAATCCTCCCTGTCGTCTGAATCCTCCGAATCTTCTGATGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000101224-CDC25B:NM_021872:1
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.893 A=NA C2=0.754
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTTCCTCCCTCCCTCCTTC
R:
CCCTACCTGACTCTTTGGGGT
Band lengths:
358-1248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)