GgaINT0126129 @ galGal4
Intron Retention
Gene
ENSGALG00000001910 | SNAPC4
Description
small nuclear RNA activating complex, polypeptide 4, 190kDa [Source:HGNC Symbol;Acc:HGNC:11137]
Coordinates
chr17:7898487-7898960:+
Coord C1 exon
chr17:7898487-7898593
Coord A exon
chr17:7898594-7898865
Coord C2 exon
chr17:7898866-7898960
Length
272 bp
Sequences
Splice sites
5' ss Seq
GCTGTGAGT
5' ss Score
7.39
3' ss Seq
CCTTCCTGTGATTAACACAGATG
3' ss Score
6.42
Exon sequences
Seq C1 exon
TTGCCTATTACATGGAAGGAAGAGACTCTGCCCAGCTGATTTATCGATGGACAAAGAGTGTGGATCCCAGTTTGAAGAAGGGGCCCTGGACACCGGAGGAGGATGCT
Seq A exon
GTGAGTTCTGCTCTCTAATTCTCTAGAACGACGGTGTGTGGAAGGTTAGATTTGCAGTGCTGCATGGTTACGTACACGTGAGCTTTAATGTTATACTAAGGAATGTAAAATGGTCTGAGGTGGGCAGTTTACAGGTTGGGACGTCTTAACTCCCAAACACCTCTGGACCGAGACTTATAATTCTGTGGAAACATACAGCTGCTGCTGTTTTAAGCTGTCTAGAACTATTACTGACAAAGAGTTTCAACTCTTCCTTCCTGTGATTAACACAG
Seq C2 exon
ATGCTGTTGGCTGCAGTTGAGAAGTATGGAGAGCGTGACTGGTATAAAATTCGGACAGAAGTGCCAGGGAGAAGTGATGCTCAGTGCAGTGACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001910:ENSGALT00000002951:12
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:
PF139211=Myb_DNA-bind_6=PU(9.8=16.7)
A:
NA
C2:
PF139211=Myb_DNA-bind_6=FE(50.8=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:
ATTACATGGAAGGAAGAGACTCTGC
R:
GCACTGAGCATCACTTCTCCC
Band lengths:
188-460
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]