GgaINT0126122 @ galGal3
Intron Retention
Gene
ENSGALG00000001910 | SNAPC4
Description
NA
Coordinates
chr17:8583272-8583940:+
Coord C1 exon
chr17:8583272-8583397
Coord A exon
chr17:8583398-8583861
Coord C2 exon
chr17:8583862-8583940
Length
464 bp
Sequences
Splice sites
5' ss Seq
ATTGTAAGT
5' ss Score
8.54
3' ss Seq
TCTGTTCTCATCTCTATTAGGGC
3' ss Score
9.24
Exon sequences
Seq C1 exon
AAGGAAATCTTGTGTGAGCTTGATGGCAGGAAAACAACAAGGACAGGAGACGGTAGAAATTTACCATCAAACATATTTCTGGGCCATTTTATGAAACCATACTTTAAGGACAAGACAACAGGAATT
Seq A exon
GTAAGTAAATAGAACTGACATTGATTTTTTTCAGTGATACGTTTAAGTTATAGCTGTACTACAGCTGTGTTCCATTCTGACTGTGAATGTCACTCCTGAGTTTACAGTCTCTTATGTTTTTCCTCACCTGTTGCTCGCTTACCCTCTTTTGGAAACATTTGTCCCACCTCTGTCTGGCTGTGACATCTGAGAGTTCTGAAGGGGGCATTTCAGCCATGTGGCAATTGAACATTTTCTTTTTATTTTCAACTTAATTTTGATTATGCTTCATCTCTACAATCCAATTCCACTTTGTTTAAAGTTCTTGTTGACTTAAAGTTTGTTTCCTGATGTAAAGGTGACTGAGCAGTTCTCGTGTGACAATCCACACACATTTGAGTTATCAGTCTTTTTGGTAGCAGCTCATGATGGAGTTCTAAGGAGAATAAGCAAGTTTTCCATGTATCTGTTCTCATCTCTATTAG
Seq C2 exon
GGCCCTCCTTCCAATGAAGATGCCAAGGAAAAGGCAGCTCAGGGCATAAAATCCTTTGAGCAACTGCTGTCAACAAAAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001910:ENSGALT00000002951:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.405 A=NA C2=0.444
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:
GAAATCTTGTGTGAGCTTGATGGC
R:
GCAGTTGCTCAAAGGATTTTATGC
Band lengths:
190-654
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]