DreEX0063462 @ danRer10
Exon Skipping
Gene
ENSDARG00000042652 | rreb1b
Description
ras responsive element binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-070912-273]
Coordinates
chr2:21395360-21400006:+
Coord C1 exon
chr2:21395360-21397940
Coord A exon
chr2:21398459-21398620
Coord C2 exon
chr2:21399248-21400006
Length
162 bp
Sequences
Splice sites
3' ss Seq
TTTGTGCATTGATTTTGTAGGTC
3' ss Score
8.86
5' ss Seq
CAGGTATGA
5' ss Score
9.46
Exon sequences
Seq C1 exon
GCTTATCGAAACAGGAATGGATGCAAAAAACTGTATTAGTGCAGTGGATTTTAAAACACTAAGTGAAAACAAGAGTCCCATAGGCACCACTAAACTGGATTCCGTGCTGAATGGGTCTCCTGATAACTCAAAGAAAAGAGGCAAGAAGAGAGTGTTTCAGGAGGAGATCTGTGATTCGAGAATAGCTGTGGGCAGTGGGATTGACCTGGAGTCAAGTGGCGAGTTTCCCAGTGTAGAGAAAATGTTGGCTACTACTGATGCAAATAAGTTCAGTCCCTACCTGCAACCCAATCAGATGGAGCCAATGATGGAGGAAAAAGAGAAGCAGTCAGCTGACGAGGAGGTGAAGGAAATACGAGAAGACAAACCAAAGAAACCTCCACAGAACAAAGGAAAGAAAAATGCTTATTCCAATTCAGTGCAGAAAATGACCTGCCCCTACTGCCCTCGATTGTTCCCGTGGGCCAGCTCATTGCAAAGGCATATGCTAACACACACAG
Seq A exon
GTCAGAAGCCGTACCCTTGTCCTCAGTGTGACTCGTTCTTCTCCACCAAGTCAAACTGTGAGCGACACCTGCTTCGCAAACATGGAGTCTCGAATCGGGCACTTCAAAACAGTGGATCTCGACTCAAACCTAAGACAGATGAAGAATCCTTAGGAAGCACAG
Seq C2 exon
AAAGTGTATGCGACACTGAACATCCTGTAGCCGAAGGTACTATGGATCTGAGCTCTGTCAACACCAAACAAGAAGAATCTCCAGAAGCGCCAGAACGAACAGGACAATCAGCCCCTGAACAAGCAGACAGCAGCACGGATCCAAACCAAACTCAGCCAGCTGAGGAAAATCCTGAGATGGTGGAAAAAGATGATGATGATGATGATGATGATTCTCAAAGCAGCATGAGTCATGAAATGAGCCTTGTCAGCAATCTTGTTGTAGATGTCCAGCTTTCTGGAGAGGAGCAGCACCAGTCTAAATCAGCCCCTGAAGTGGTTTCCCCTCCAGATGAGTTCCCACACACATGTGCCTCCTGTAAGAAGACCTTTCGTCATGCAGCCACTCTGAGCCGACACCAGAAAACCCACCTTCAGGAGGTCCAGCCAGAGGATGGAGCCAAGAAGGGAAGACGCCAAGCTCCTCCACAAAATCCAATTCCAGTACCAAGTAAAGAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042652_MULTIEX1-2/3=1-3
Average complexity
S
Mappability confidence:
100%=100=100%
Protein Impact
Alternative protein isoforms (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.460 A=0.727 C2=0.945
Domain overlap (PFAM):
C1:
PF0009621=zf-C2H2=WD(100=2.7),PF134651=zf-H2C2_2=WD(100=2.9),PF134651=zf-H2C2_2=WD(100=3.0),PF134651=zf-H2C2_2=WD(100=3.3),PF134651=zf-H2C2_2=PU(38.5=1.2)
A:
PF134651=zf-H2C2_2=PD(57.7=27.3)
C2:
PF0009621=zf-C2H2=WD(100=9.1),PF134651=zf-H2C2_2=PU(40.0=3.9)
Main Skipping Isoform:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCAACCCAATCAGATGGAGC
R:
CGGCTACAGGATGTTCAGTGT
Band lengths:
252-414
Functional annotations
There are 1 annotated functions for this event
PMID: 21703425
In vitro proliferation studies using the UMUC-3 bladder cancer cell line after selective isoform-specific knockdown of expression indicate that RREB1alpha (all included) is not necessary for proliferation, but that RREB1beta (skipping exon 8, HsaEX0055741) may be required.
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]