GgaINT0029705 @ galGal3
Intron Retention
Gene
ENSGALG00000001689 | SCAMP2
Description
NA
Coordinates
chr10:1816674-1817591:+
Coord C1 exon
chr10:1816674-1816763
Coord A exon
chr10:1816764-1817473
Coord C2 exon
chr10:1817474-1817591
Length
710 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGG
5' ss Score
9.99
3' ss Seq
TTTTTTTCCACCTTCTTTAGGCT
3' ss Score
9.72
Exon sequences
Seq C1 exon
ACACATGCGGCGCGGACGGCGCCGGCCACGCAGCCCTCTGGGCCCTCACAGCCTGCTGTTCTGCAGACATCTGTGGAGCCCACCCCACAG
Seq A exon
GTATGGGAGAAGGAGCTCCTCTATGAGTTGGGGACATGTGGGGGTAGCTCTGCTGGGGCAGAATAACGCCATTGGGTTTTGTTCAGCTGTGCACGGTGAGATCAGAGGGTCTCCTGGGGAGCCACCCCATCTTCGAGAGATGGAAAAGGTAAGGGTGGGTCTGAAGCTTGCTAAAGTTGTATCTGGGAAAGTCCACGTTAGACCAGAAAAGCAACATGTAGTGAAAGGAGACCGAGGGAAGACTTTGATGGGAACCCATCTGCAGGGGGGTCTGCTGTCTTACAGGCATTGATAAGAGGGTGAGGAAGTATGCGGTTATGGGGGTAAGGCATGTGCCTTGAGGGAGAGGTATTGGATGGCACTCAGAGCTACAAAGCTAGCTGGAAAGTAGAAGCAGCTGCAAGGAAAGCATAGCTTTGCTGAAAGGAGATGGAATGGAGCCTCTTGAGGACTCCCCCCGCTCTGCTTTCCAGTAGGTTAGGATGGGAACATCTGTACTGAGTCCTGCATCACTTTTAATCCAGTCCTCCAGCACGTAAGGCAGGAAGCCAGCCTCACCATGTTCCTCGGGCACCCGGTTTTCAAACTGTCCTCCTTTGCTATTGAATTTGTGTTTCTCTTCCATCCATCTGATGTGCTGGCAGTTGGCACTGCCACTGTCTTGTGTGGGGAAGGACTGAAGGACTTACTTTTTTTTCCACCTTCTTTAG
Seq C2 exon
GCTGTGGCTGCAGCAGCACAGGCCGGGCTGCTTCAGCAGCAGGCAGAACTAGAGAGGAAAGCAGCTGAGCTGGAGAAGAAGGAAAGGGAATTGCAGAACAATGCAGCCAGCATTAATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001689:ENSGALT00000002583:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.900 A=NA C2=0.475
Domain overlap (PFAM):
C1:
PF117403=KfrA_N=FE(30.2=100)
A:
NA
C2:
PF117403=KfrA_N=FE(40.6=100),PF120723=DUF3552=PU(84.8=97.5)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]