GgaINT0124985 @ galGal3
Intron Retention
Gene
ENSGALG00000004052 | GPR107
Description
NA
Coordinates
chr17:6416074-6416478:+
Coord C1 exon
chr17:6416074-6416162
Coord A exon
chr17:6416163-6416311
Coord C2 exon
chr17:6416312-6416478
Length
149 bp
Sequences
Splice sites
5' ss Seq
TGTGTGAGT
5' ss Score
5.84
3' ss Seq
AATAAAATTTGTTTCCTCAGTGT
3' ss Score
7.35
Exon sequences
Seq C1 exon
GATGAAGAAGTGGATTACTGTATTTTGAATAAGAAACCTGAGCAAGGTGTTTCTGTTGTAATCTTACTTCTGGACTTCAAAAATGATGT
Seq A exon
GTGAGTAAATAGAATACTTTTTTTATGCTTATTGGCATATTTTGATAGGTTGATTTTTCCTCTATGATCAGATGTAGATTATGACAGCCTCTTTAGGAAAATTGGTTGGCTTAATTTTGTATTAAAAAAAATAAAATTTGTTTCCTCAG
Seq C2 exon
TGTGAAGGTACAGTTCTCTGCAGAAGCTTCTCACCTGCTGCCTAAAATTTCATTTGTGTCTGACGAAAATGCCACTGCCTTGATTACCAAGCCACCAAAATCTTCTGAAGATAAAAGTGATTCTGTTAAAAGTCCAACGGAGACTAACAAAAATACAGCTGGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004052:ENSGALT00000006449:4
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=0.526
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTATTTTGAATAAGAAACCTGAGCA
R:
GCCAGCTGTATTTTTGTTAGTCTCC
Band lengths:
234-383
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]