GgaINT0030290 @ galGal3
Intron Retention
Gene
ENSGALG00000014116 | SCAMP5
Description
NA
Coordinates
chr10:1765098-1766157:-
Coord C1 exon
chr10:1766029-1766157
Coord A exon
chr10:1765255-1766028
Coord C2 exon
chr10:1765098-1765254
Length
774 bp
Sequences
Splice sites
5' ss Seq
TGCGTGAGT
5' ss Score
7.55
3' ss Seq
GTGTGTGTGTGTGTTTGCAGTGA
3' ss Score
8.85
Exon sequences
Seq C1 exon
AAAAAGCCAACAACTTCCCTCCGCTGCCCCGCTTCATCCCCCTGAAGCCATGTTTCTACCAGGACTTCGAGGCTGAGATCCCGCCGCAGCACCGCACCATGGCCAAGCGGCTCTACTACCTCTGGATGC
Seq A exon
GTGAGTCGGGGTTGGCCGTGTGCTCAGCACCAGCCAAACAGGGGTGGTGTGCCTCGTCCCCCTCCAGACCTTTGTGCCCAAACCCACTGGGGATGGGGTTGGGCTGCGGCAACCCCCGGATCTCGTAGAATTGCAGAATCATAGAATTTGGTTTGGAAGGGACCTTAAAGATCATCCAGTTCCAACCCCTTTGCGATGAGCAGGGTTGCCGACCGCTAAATCGGGCACTGGAACAGCTTTGGTGGAGGATTTGCCACCAGCGAAGGCTCTCTGAGTGTCTTTGACATCAAGGGGCTTTCCTCATGGACCTGAGCTCCTCACAGCCCCTTTGTTGGTTCCCAAACGCCCCACGTCCAAGCTGGTCACATGGGCTGGATCCCTCCTGGAGTTTTGCCTGTTCTTTGCATGCTTCTGCGTGCCGTGCTCCATGCTGAGAGCCACTGCTCTTCTCTAACCCCTTCAGCTGCCCTGATCTCTCTAACATCCTCCGCATGCCTCCTGTCACTTTTCCACAAAAGAGGAAAAAAATATACATCGTCGTGTTTCCCTGCAGGAGCTGTTTTGGGGCATTACGTTCCCAACGGCTGCTTGTTAGTTTCTGGGATACACTTCCGTGCAGCTCCATCTGGAGCGTTTTATCAGCACAGGATGAGTCCCCACGAGGGGCTTGGGGGGGAGTGGGGGTGTCAGACCTGCTGCAGGGTTTTGGGATCATGCCGCCCTCCTCGCGTGCGCTACTCCGCTCCCTCTGTGTGTGTGTGTGTGTGTTTGCAG
Seq C2 exon
TGAACAGCATCACCTTGGCGGTGAATCTCGTTGGCTGCCTCGCATGGCTGATTGGAGGCGGCGGAGCTGTTAATTTGGGACTGGCAATTCTCTGGCTCATTCTCTTTACGCCCTGCTCCTATGTCTGCTGGTTTAGACCTATTTACAAAGCTTTCAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000014116:ENSGALT00000022849:2
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:
PF041448=SCAMP=PU(23.7=95.5)
A:
NA
C2:
PF041448=SCAMP=FE(29.4=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:
AAAGCCAACAACTTCCCTCCG
R:
TAAACCAGCAGACATAGGAGCA
Band lengths:
262-1036
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]