GgaINT0030290 @ galGal4
Intron Retention
Gene
ENSGALG00000014116 | SCAMP5
Description
secretory carrier membrane protein 5 [Source:HGNC Symbol;Acc:HGNC:30386]
Coordinates
chr10:1882597-1883656:-
Coord C1 exon
chr10:1883528-1883656
Coord A exon
chr10:1882754-1883527
Coord C2 exon
chr10:1882597-1882753
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:ENSGALT00000022849:3
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]