DreINT0156463 @ danRer10
Intron Retention
Gene
ENSDARG00000044655 | st14b
Description
suppression of tumorigenicity 14 (colon carcinoma) b [Source:ZFIN;Acc:ZDB-GENE-061103-613]
Coordinates
chr21:25242937-25243469:-
Coord C1 exon
chr21:25243286-25243469
Coord A exon
chr21:25243209-25243285
Coord C2 exon
chr21:25242937-25243208
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTTTGTTTTTTTTTTGCTAGATA
3' ss Score
8.92
Exon sequences
Seq C1 exon
AATGTGGGAAGAAGCCTCACAAGTCCAGTCGTATTGTCGGTGGAAAAGACTCAGATGAGGGAGAATGGCCCTGGCAGGTCAGCCTCCACATGAAGACGCAAGGTCATGTGTGTGGTGCGTCTGTTATCAGTAACAGCTGGCTGGTCACTGCTGCTCACTGCGTGCAAGATAATGATCAATTCAG
Seq A exon
GTGAGTTCTAATCTGCTTTGGCTTTCTCCTTCCCTCCTGAGCTGATTCTGAATGGCTTTTTGTTTTTTTTTTGCTAG
Seq C2 exon
ATATTCACAGGCTGACCAGTGGGAGGTCTATCTAGGCCTACACAACCAGGGCGAGACTAGTAAATCTACACAAAGAAGTGTGTTGCGCATCATTCCTCACCCTCAGTATGATCACTCGAGCTACGACAATGACATCGCTCTAATGGAGCTGGACAGTCCTGTGACTCTGAATCAGAACATCTGGCCCATCTGCTTACCTGATCCCACACATTACTTCCCAGCCGGAAAATCTGTATGGATCACTGGCTGGGGCAAGTTAAGAGAGGGAAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000044655:ENSDART00000147860:16
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.145 A=NA C2=0.022
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(21.4=80.6)
A:
NA
C2:
PF0008921=Trypsin=FE(38.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGTCAGCCTCCACATGAAGA
R:
TAGTCTCGCCCTGGTTGTGTA
Band lengths:
168-245
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]