GgaINT0126137 @ galGal3
Intron Retention
Gene
ENSGALG00000001910 | SNAPC4
Description
NA
Coordinates
chr17:8591882-8592303:+
Coord C1 exon
chr17:8591882-8592131
Coord A exon
chr17:8592132-8592232
Coord C2 exon
chr17:8592233-8592303
Length
101 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTG
5' ss Score
5.56
3' ss Seq
TGTTGGGCCTTCTTTTCTAGCTT
3' ss Score
8.32
Exon sequences
Seq C1 exon
GCGCAGCAGTCAAAGCTAATAATGTCTTCTGCTGCCACTTTAACAAAGACGTCTGGAGTTGGTGCATCTGCTGCTGAGAAGCACAGGGGGCTGTGGAGCACCATGGGGAAAAGTCGTCGTCAAGAGAGAGCACGTTGGAGAAAAATGAACCTTGACAGAAAACTCCTCATGGCAGTGACACCTTGGGTGGGCGACGTGCTATTGCCTTGCACTTTGCGAGCTGGGAAGATGGCTTTTGATCAAACAAAAG
Seq A exon
GTAGTGGTAACCCATCAGAGATAGTACTCCTTTGTCTCCGTTTTCTGGCACCTTACAAGTGACTATTCAGCTGGTTTTTGATGTTGGGCCTTCTTTTCTAG
Seq C2 exon
CTTATTCTATTCAACAGAAGCTCAAGTCGGTCAGTCTCTCCAGCACTCCCCTGTTCACACTCTTCATTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001910:ENSGALT00000002951:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.083 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion 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:
AAAGACGTCTGGAGTTGGTGC
R:
AGAGACTGACCGACTTGAGCT
Band lengths:
245-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]