DreINT0156459 @ danRer10
Intron Retention
Gene
ENSDARG00000044655 | st14b
Description
suppression of tumorigenicity 14 (colon carcinoma) b [Source:ZFIN;Acc:ZDB-GENE-061103-613]
Coordinates
chr21:25248156-25248468:-
Coord C1 exon
chr21:25248364-25248468
Coord A exon
chr21:25248264-25248363
Coord C2 exon
chr21:25248156-25248263
Length
100 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTCTTTACCCATGCATCCAGTGT
3' ss Score
4.42
Exon sequences
Seq C1 exon
CCTGTCCTGGAAGATTTGAGTGTGACAATGATCTGTGTATTTCATCTGACCAGCATTGTGATGGGTACAATGACTGTGGTGATATGAGTGATGAGAGAGGCTGCA
Seq A exon
GTAAGTTTATATCATCATTTCTTGAACACATGGACGTTTTAGTTAAGGTACTGAGCATATTAATGATGTTGCTTTTTTTTTTCTTTACCCATGCATCCAG
Seq C2 exon
TGTGTAATGAGACTCAAATCCAATGCAAGAATGGCTTCTGTAAGCCCAGCTTCTGGGGCTGTGATGGGGTGAATGACTGTGGAGATAACACTGATGAGGAAAACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044655:ENSDART00000147860:12
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:
PF0005713=Ldl_recept_a=PD(94.4=94.4),PF0005713=Ldl_recept_a=PU(0.1=0.0)
A:
NA
C2:
PF0005713=Ldl_recept_a=WD(100=97.3),PF0005713=Ldl_recept_a=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTGTCCTGGAAGATTTGAGTGT
R:
AGTTTTCCTCATCAGTGTTATCTCCA
Band lengths:
210-310
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]