GgaINT0126086 @ galGal3
Intron Retention
Gene
ENSGALG00000008898 | Q6R6I2_CHICK
Description
NA
Coordinates
chr17:1407036-1407578:-
Coord C1 exon
chr17:1407460-1407578
Coord A exon
chr17:1407149-1407459
Coord C2 exon
chr17:1407036-1407148
Length
311 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
CTCTTGCTCTTGTTTTCCAGCCC
3' ss Score
9.52
Exon sequences
Seq C1 exon
GAAATCCCTCGCAGCACCCTGGATTCATTCATGCAGCCCTTCCAGAGTACACTGTGGCTGCTGGTGGGGCTGTCTGTGCATGTGGTGGCAGTGATGCTGTACCTTCTAGATCGATTCAG
Seq A exon
GTGAGTGCTCTGTGGGTCACCCAGGGGCTGCAGGTGAAGGAAAGGTGTCACACAGATGGTCTTTGTAGCCTGGAGACAAATGCGATGGGAGCAACACCAGCATGAGATAGACATGGTTGCAGGCCAGCAGAGGGGACATGAAAGGTCGTGTGAGGGACATATGGGCTGCGGAGCCAGCCAGAGGTGAAGAGCAGTGTGAGGTATAAGCGTGGTCTGCAGGGATCAGTGCTGTAGGGCTGCATCAGAGTGCTTAGGGCATGGCAGAAAGGTAGAGAAGCAGGGTAAGAAGATCTCTTGCTCTTGTTTTCCAG
Seq C2 exon
CCCATTTGGACGGTTCAAAGTGAACAGTGAGGAGGAGGAGGAAGATGCCTTGACACTCTCCTCAGCCATGTGGTTCTCCTGGGGAGTCCTGCTGAACTCCGGCATTGGAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008898:ENSGALT00000040370:12
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:
PF0049715=SBP_bac_3=FE(11.5=100),PF0006021=Lig_chan=PU(9.4=62.5)
A:
NA
C2:
PF0049715=SBP_bac_3=FE(11.2=100),PF0006021=Lig_chan=FE(14.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Cow
(bosTau6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCGCAGCACCCTGGATTCAT
R:
CTCCAATGCCGGAGTTCAGC
Band lengths:
222-533
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]