DreINT0043801 @ danRer10
Intron Retention
Gene
ENSDARG00000019383 | cdc42bpb
Description
CDC42 binding protein kinase beta (DMPK-like) [Source:ZFIN;Acc:ZDB-GENE-030131-3647]
Coordinates
chr20:18519765-18520940:-
Coord C1 exon
chr20:18520804-18520940
Coord A exon
chr20:18519905-18520803
Coord C2 exon
chr20:18519765-18519904
Length
899 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGA
5' ss Score
6.65
3' ss Seq
GTTTGTTGCTCCTCTTTCAGATC
3' ss Score
10.44
Exon sequences
Seq C1 exon
TATGCTCTTTCATCTGCCACGTGTCCTGTAAAGACAACGCACCCCAGCTCTGCCCCATTCCTCCCGAGCAGACCAAGAGGCCTCTGGGTATTGATGTGCAGAGGGGCATTGGCACTGCGTACAAAGGTTTTGTCAGG
Seq A exon
GTGAGAGTCTGCTTTTGTCATGTTTTGTGCTGGCATAATGAATAATGAAAATGTCACATATGTTTAACTCACCTGAACACTTTCACTGATTTTCTGTTTCATGTTAATAGCTAGGGATGCATTCCACAGAATGTTTGAAACACAAAAAAGGCTTAAAAATACAAACTAAAAAATACATGCAATGTTTTTTTTCACTTGCAAGCACTCAAATTACAATCTTTCTCTATTATTATCATAGAGCTAAACATTCCAGATGCTTTTGATTGCTTTCATTTTCAAAATGTTATGATCACAGACTGTGTGAGAATGTTTTTACTGTGACATCACCTATTCTGTGTCTGTCCTAGGTGAGCACCCAGTTGAACTTGTTTGATCCTTTTTATTTTGGTAGAATGCAGTGTCAACTAAGCTAACACTATAAATTAAATATTGTGTGCACACATGTTTATAGTTTTTAAAACAACAAAAGTACACTATTTTGGCTTTTACATGTGATGGGAAGTCACTGGTTGTGTGAATGAACCTGAATCTTCCCAATAGAATTTCTATTATGCATTATTTTCAAGAAGCTATAATGGGTCTTGTTTTGTCTGTACTAATAGTTATTTGGATATTGGTAAAACCTGAATGAATAACAATTAACTTGTTGAATAGCATATTATATATGTTTGTTTTCTATTTTGTTGTGATACTTTTATAATTATTTATGAATTGTTATAAGTTATATTAATTGTTATAATACAGTTTAATATCAATATAAGCAATTATTCAAGAAACAAATTCAGGTTTTAGCCAAGTGCATTTTTGAGTTTTTAGTTTTGGACCAGAGTTTTCGTTTCGATGCATCCCTGCTAATTATCCATTAGCTTATACAGCCTTGTTTGTTGCTCCTCTTTCAG
Seq C2 exon
ATCCCGAAGCCCACCGGAGTGAAGAAGGGCTGGCAGAGAGCATATGCTGTAGTGTGTGACTGTAAACTCTTTCTCTACGAGGTGCCAGAAGGGAAGTCCACTCAACCTGTCGTGATGGCCAGTCAGGTCCTTGACTTGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000019383:ENSDART00000049437:24
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.109 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0013017=C1_1=PD(37.7=43.5),PF0016924=PH=PU(5.9=15.2)
A:
NA
C2:
PF0016924=PH=FE(38.7=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:
TGCTCTTTCATCTGCCACGTG
R:
CAAGTCAAGGACCTGACTGGC
Band lengths:
273-1172
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]