GgaINT0022767 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NNM9]
Coordinates
chr12:2654561-2654912:+
Coord C1 exon
chr12:2654561-2654689
Coord A exon
chr12:2654690-2654766
Coord C2 exon
chr12:2654767-2654912
Length
77 bp
Sequences
Splice sites
5' ss Seq
ACGGTATGT
5' ss Score
9.94
3' ss Seq
TGCCGTGCTGCTGCCCACAGAGC
3' ss Score
9.56
Exon sequences
Seq C1 exon
ATGGGCAGCTGTACTCGGGTACCTCCAGTGATTTCATGGGCAGCAGTGCCGCCTTCTTCCGCACCGAGGTCGGCGGGGCTGAGCGGGGCTACATCCGCACGGAGCAGCACCAGGACCACTGGCTGCACG
Seq A exon
GTATGTGGGCTCTGGGCCCGGCTGGCAGCCCCATGGGGAGCTGTGGGCATGGGGCAATGCCGTGCTGCTGCCCACAG
Seq C2 exon
AGCCCACGTTCGTCGGTGCCTTTGCCATCCCCGACACCCACAACCCACACGACGACAAGGTCTACGTCTTCTTCCGTGAGACGGCCCTGGAGGGCGGGCAGTGGGAGCGGCGACACATCCACGCCAGGGTGGCCCGGGTCTGCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000003203:ENSGALT00000005073:6
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.020
Domain overlap (PFAM):
C1:
PF0140314=Sema=FE(9.6=100)
A:
NA
C2:
PF0140314=Sema=FE(10.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCCAGTGATTTCATGGGCAGC
R:
CGTAGACCTTGTCGTCGTGTG
Band lengths:
172-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]