GgaINT0139175 @ galGal4
Intron Retention
Gene
ENSGALG00000001331 | ST14
Description
suppression of tumorigenicity 14 (colon carcinoma) [Source:HGNC Symbol;Acc:HGNC:11344]
Coordinates
chr24:1572006-1572727:+
Coord C1 exon
chr24:1572006-1572076
Coord A exon
chr24:1572077-1572566
Coord C2 exon
chr24:1572567-1572727
Length
490 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
ATAATCACCCTCCCTCGCAGCGA
3' ss Score
7.85
Exon sequences
Seq C1 exon
ATCGAGGATATCTACAGAAGTCAGCCAGATATTGGCCCTTACCATAAGGAGACAGTAATAACTGCATTCAG
Seq A exon
GTGAGTGTTAGGAGATGCTATCTGAGCTGAGATTGGGAGTGTAGGAAAGCAGTTCTGGGGTGTCATGTTGGCCATAAGACCCTCTTTGCTGGGCTGCTGTTGATGGAGGCACCTCAGTAGTCACCCCAAGTGAGGTAGTAAAGGTTGGGCAATGAAAAGCAACCTCACAGGCATTGTGCTGAGCCACAATATTGTTTCCTGCCAGTCTGTCTCATGATGTGCTGAGGGAGATGTCTTGGGAGAATTGGATATGGTGCAGTAAGCCCTATAAACCACAGCAGCTGGTGACTGGCAGCCTGGAAGGGGTCTTCACAGACTGACTGGGGCCTTTGCTGGACTTCAGTTTGCTCAGCTTGTTACTGAGGCTGTCCTTTTCCATCCTCCAACAACAGCTTATCATTTGACTGGCCCCCTCTCTTTTGATACATCAGCCCTCCCATGTCTGTCCTTGCTGTCCTTGCCCTCGCCCCATAATCACCCTCCCTCGCAG
Seq C2 exon
CGAAGGCAGTGTCATTGCCTACTACTTGTCAGAGTTCATCGTCCCCAAGTACCGTGAGGAGAAGCTTGACAGGGCCATGGCAGACAAGCAGAGCTTGGTCCAGAGGCTGAACCCACGGCTGCGAAACCCTACGCTGAAGGTGGAGTCGGTCGTTGCTTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001331:ENSGALT00000002027:3
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:
PF0139015=SEA=FE(21.9=100)
A:
NA
C2:
PF0139015=SEA=PD(40.0=76.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCGAGGATATCTACAGAAGTCAGCC
R:
GAAAGCAACGACCGACTCCAC
Band lengths:
230-720
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]