DreINT0156473 @ danRer10
Intron Retention
Gene
ENSDARG00000044655 | st14b
Description
suppression of tumorigenicity 14 (colon carcinoma) b [Source:ZFIN;Acc:ZDB-GENE-061103-613]
Coordinates
chr21:25251216-25251500:-
Coord C1 exon
chr21:25251403-25251500
Coord A exon
chr21:25251323-25251402
Coord C2 exon
chr21:25251216-25251322
Length
80 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAAA
5' ss Score
2.91
3' ss Seq
TTTGATGCTCTGTCTCACAGGTT
3' ss Score
9.85
Exon sequences
Seq C1 exon
ACTGTGGAGGTCGTCTAACAGGTCTCCGTGGTGCCTTCACATCACCTGGATATCCCTCTCATTACCCACCTCAGATTGAGTGTGTCTGGAACATTGAG
Seq A exon
GTGAAAAAGATTCACTCTACTTTGCTCAATTTCTTACATTAGTCAATTATGTGTCAGTTATTTGATGCTCTGTCTCACAG
Seq C2 exon
GTTCCACCAGGAAAGCATATCAAGGTGAAGTTTGACAAGTTCTCCATACACAATCCTGAACAGAACATCATCAACTGCCCCACAGACTACCTGGAGCTCAACTACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044655:ENSDART00000147860:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0043115=CUB=PU(29.5=93.9)
A:
NA
C2:
PF0043115=CUB=FE(33.3=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:
AGGTCGTCTAACAGGTCTCCG
R:
CTGTGGGGCAGTTGATGATGT
Band lengths:
176-256
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]