GgaINT1001663 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NWS8]
Coordinates
chr2:42167885-42168109:+
Coord C1 exon
chr2:42167885-42167920
Coord A exon
chr2:42167921-42168046
Coord C2 exon
chr2:42168047-42168109
Length
126 bp
Sequences
Splice sites
5' ss Seq
GAGGTATAA
5' ss Score
5.96
3' ss Seq
TGGATTTCGTTAATTTTCAGGGA
3' ss Score
7.91
Exon sequences
Seq C1 exon
GGGGAGTCTGGATTCATAGGGTATCCTGGTCCAGAG
Seq A exon
GTATAATTAAATGAGCATGTTTCCTTTCATTAGTTATTGTTTTACACTGGTCTTGTTTGGAAGGGGTTATCTGTCTTTGTCGGTATTCTTCTTTCCTACAAAGTTCTGGATTTCGTTAATTTTCAG
Seq C2 exon
GGAGAAGATGGAGACCCAGGTATTTCAGGAGCTAAAGGACCAAAAGGAATTAGGGGTAGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000011567:ENSGALT00000018866:39
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=FE(11.7=100),PF0139113=Collagen=PU(16.1=83.3)
A:
NA
C2:
PF0139113=Collagen=PD(17.0=76.2),PF0139113=Collagen=FE(32.3=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:
GGGGAGTCTGGATTCATAGGGT
R:
CCTTCTACCCCTAATTCCTTTTGGT
Band lengths:
99-225
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]