DreINT0129319 @ danRer10
Intron Retention
Gene
ENSDARG00000042652 | rreb1b
Description
ras responsive element binding protein 1b [Source:ZFIN;Acc:ZDB-GENE-070912-273]
Coordinates
chr2:21394540-21394973:+
Coord C1 exon
chr2:21394540-21394684
Coord A exon
chr2:21394685-21394830
Coord C2 exon
chr2:21394831-21394973
Length
146 bp
Sequences
Splice sites
5' ss Seq
AAGGTACGT
5' ss Score
10.75
3' ss Seq
ACAAATCATGCTGTGTTTAGGTG
3' ss Score
6.75
Exon sequences
Seq C1 exon
GCACATGAAAATTCATGAAAAGGATTCAAGCGGTATTCCTACCCCCAGTTCTTCCCCACTAAACAAGCGCAGACGACTCTCCAGCAAGAGGAAACCCAGTGTGGAGGATGAAGGAGAGCAGGCTGAGGAGCCACCAGTTAAAAAG
Seq A exon
GTACGTTTCAGACTCACTTTTTCCTGATTATTTTTTAGTAAAAGCAGTCAAAGTGAACAAATGATTGAACTCGGACCGGGTTGGGTGGTATAGGACCGACGGGGTTACACCCACACTTACAAGCAAACAAATCATGCTGTGTTTAG
Seq C2 exon
GTGACTTTGATCCAGAAGCTTAAGGAGGATAATTCTGTGAAGAGTGAAGAAGAGGTATTTCACTGCCCCATCTGCTTTAAGACATTCATCTGTAAAAATGACCTGGAAGCACACATGGAGACACATCCTGACACTACGCTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000042652:ENSDART00000062563:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=0.146
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF138941=zf-C2H2_4=WD(100=50.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCAAGCGGTATTCCTACCCCC
R:
GTCTCCATGTGTGCTTCCAGG
Band lengths:
242-388
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]