GgaINT0124699 @ galGal3
Intron Retention
Gene
ENSGALG00000000906 | RALGPS1
Description
NA
Coordinates
chr17:11083848-11084699:+
Coord C1 exon
chr17:11083848-11083999
Coord A exon
chr17:11084000-11084647
Coord C2 exon
chr17:11084648-11084699
Length
648 bp
Sequences
Splice sites
5' ss Seq
TAGGTAGAG
5' ss Score
3.22
3' ss Seq
CTGTTCTCCACTTTTTCTAGATA
3' ss Score
9.21
Exon sequences
Seq C1 exon
CATGATGTGTCAGTTCAGTGTGGTGGAGAGCAAAAGCGCCACTTTCCCGACGGAGAGGCCGCGCCACCTCCTGGATGACAGCGTCCTGGAGTCACAGAGCCCGACCCGCAGCGACATGCTGAACTCACTTTTCACTAATGGCATCTCCATAG
Seq A exon
GTAGAGACTGAGCGGGGGACTGACTCACCTGGTTTTCCCTCCCAGTTCTCTAGTAAAGTAATAGAGATATCTAAAATCAAGGAATTGGGAAGCTTAGTAGCTCCTGGGCAAAGATTGTGCTACTGTATAGAAGAAAGGAGATCAGAGTTACTACTCAGTTACTTAATGGACTTTGTTTCAACTTTCTTGTATCACTCTTGGGCAAATGAAAATGGAGTTAAATAGCTATGTCAGGGAAGGACAGACAGACAGGTCAAAGGCTTATATGAGAAATAGGGGCTATTGTTGTGAATTCCATCTCATTGATTTGTTACGACTCCTAGTAGCAGCTGGCATACCCTCTGTTCCAGGTGTGCATGCTTGTTACAAACAGTGATATCGTGTCTAATAACTTCAGTTGACTTGCAGATGTTATGGTAGAAATATTGTCTTAAAGAGCAATTAGATTTTGTGTTTCTGAAGTATTCAGCTTTTAATGGGGAAACAGCATAATGAAAATAAAAGTAATGTGCAGGTTTCTGGTATTTAAACACATCAGCAACTGTGAATTTGTTCATCAGTGATGCATCAAAAATGAGAGGGCAGATATAAGTCTCTTCTGATTTTAGATGGTTTTCTTACTCCTTTTCTGTTCTCCACTTTTTCTAG
Seq C2 exon
ATAGCAGTGAAAGCTCGGAATTTAGTGAGGAGCAGTCATCAGGGCTTGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000906:ENSGALT00000001330:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.423 A=NA C2=0.556
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTGTCAGTTCAGTGTGGTGG
R:
TTTCAAGCCCTGATGACTGCT
Band lengths:
198-846
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]