DreINT0156465 @ danRer10
Intron Retention
Gene
ENSDARG00000044655 | st14b
Description
suppression of tumorigenicity 14 (colon carcinoma) b [Source:ZFIN;Acc:ZDB-GENE-061103-613]
Coordinates
chr21:25239091-25239652:-
Coord C1 exon
chr21:25239516-25239652
Coord A exon
chr21:25239419-25239515
Coord C2 exon
chr21:25239091-25239418
Length
97 bp
Sequences
Splice sites
5' ss Seq
CAGGTAACC
5' ss Score
8.66
3' ss Seq
ATTCTTCATCCCCCTGCCAGGGT
3' ss Score
7.91
Exon sequences
Seq C1 exon
ATGCAGTGCCGTCAGTGTTGCAGAAGGCTGAGGTGCGCATTATTAACAGCACTGTGTGCAGCAAGCTGATGGATGATGGGATTACTCCTCACATGATCTGTGCAGGTGTATTGAGCGGAGGTGTTGATGCCTGCCAG
Seq A exon
GTAACCAAAACATCTTCTGCTATTTTTACATTCAGATACCGTACACTGTCCTTATGTTTTGTCAGTAATACAGACATATTCTTCATCCCCCTGCCAG
Seq C2 exon
GGTGACTCCGGCGGTCCAATGTCGTCCATTGAGGGCAATGGGCGCATGTTTCTTGCGGGAGTGGTGAGTTGGGGAGATGGTTGCGGTCGCAGGAACAGACCCGGTGTCTACACACGGGTCACAGATTACCGCAGCTGGATCAGAGAGATCACAGGGATATAAAGCCACAATGGTGACAAGAAAAGGCCTATAGAACAGCTTTCTGTCTTAAGGGGATGATTTATTGTAAATGGAAAAGGTGCATTTACACAAAAATAAGCTTTTTTAAAAACATTGTTTAAAATTGTATTTGATGTTTTTTATTTACTGAAAATAAATTGACGCGTTT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044655:ENSDART00000147860:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.075
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(19.2=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.7=85.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTGTATTGAGCGGAGGTGT
R:
TCTCTGATCCAGCTGCGGTAA
Band lengths:
180-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]