GgaINT0126494 @ galGal3
Intron Retention
Gene
ENSGALG00000000993 | GAPVD1
Description
NA
Coordinates
chr17:10337188-10337764:+
Coord C1 exon
chr17:10337188-10337307
Coord A exon
chr17:10337308-10337686
Coord C2 exon
chr17:10337687-10337764
Length
379 bp
Sequences
Splice sites
5' ss Seq
ATGGTAAGT
5' ss Score
11.01
3' ss Seq
TTTGTCTACCTGTATTTCAGGTG
3' ss Score
10.57
Exon sequences
Seq C1 exon
GCATTAGTGCAACATCTGAAGATATTCCCAATAAGATTGAGGATCTCAGGTCTGAATGTAGCTCTGACTTTGGAGGAAAAGATTCTGTGACAAGTCCTGACATGGATGAAGCAGCCCATG
Seq A exon
GTAAGTAAGATACCTGTAAATGAGTTCTCACAACATTAGTTAAAATTACAAGTTTAAAATCCTCGAATTTTAATTCCTAGTAGGAGCGCAGCAGCAGTGCTGAGAATGAAAGAAAAATTCCTCAATTTTTCCTGTTTCAAAGCTCTGCTGACCAAGAAGCTTAACATTTTCCTTATTTGTTAGCACTGTTTCTTTGACAAAGGGGCCACTTTTCTGTAGGACTAGAGACTGATCTTTCAATTTAAGATCACCTTTTGCTAATTCTGTTAATTTACACTGACTGTAATCTCTCTTGCGCATTGGGATTGGTCTGTTTTTTTCAGTGTTCCTTATGTGTGTGATTGTTTGCAGTGCTAACTTTTGTCTACCTGTATTTCAG
Seq C2 exon
GTGCCAGTCAGTTGACATCTCCTCCTTCTCAGACAGATTCTTTGCTTGCATTGTTTGACCCTCTGTCATCAAATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000993:ENSGALT00000001466:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.976 A=NA C2=0.815
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGTGCAACATCTGAAGATATTCCCA
R:
GACAGAGGGTCAAACAATGCA
Band lengths:
182-561
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]