GgaINT0125099 @ galGal3
Intron Retention
Gene
ENSGALG00000001226 | E1C8X7_CHICK
Description
NA
Coordinates
chr17:802272-802816:-
Coord C1 exon
chr17:802679-802816
Coord A exon
chr17:802479-802678
Coord C2 exon
chr17:802272-802478
Length
200 bp
Sequences
Splice sites
5' ss Seq
AATGTGAGG
5' ss Score
4.51
3' ss Seq
TCACCCCTTTTTCCTTCCAGGTG
3' ss Score
13.13
Exon sequences
Seq C1 exon
GAGAGGCACCACACTAAGGCCCAGTACCAGCTCAAATCGGACCAGATCTCACTGGCACAGGTCTTCAGCAAGATGGAGCAGGTGGTGGATGTGCTGGGCATTGAGGACTACTCCGTCAGCCAGACCACGCTGGACAAT
Seq A exon
GTGAGGCTGGGGATGGCACAAGCAGCCAGTTGCTCATGCTGAGGGAGGCTGGCAGTGCCCACGTGCCTGCCAGAAGCCTTCAGGACAGGAGCGAGTGCTGGGCTGCGAATGTGGGGGCACACAGAGGCAGGGTCACAGCGGCAGAGATGCCAGGTGAGGGGCAACCCCAGGACGGGGCTCTCACCCCTTTTTCCTTCCAG
Seq C2 exon
GTGTTTGTGAATTTTGCCAAGAAGCAAAGCGACAACCTGGAGCAGCAAGAGACGAGCCCCAGCTGTGCCCTGCAGTCCCCCTGGGAGCGCGTGCTGAGCCTGCTGCGCCCACGGGCTGCGCCCACGGAGCTGAGGGCCCTGGTGGTGGAGGAGCAGGAGGACCTGGAGACTGATGATGAAGGCCTCATCAGCTTCGAGGAGGAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001226:ENSGALT00000040504:46
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=0.217
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGCACAGGTCTTCAGCAAGAT
R:
CCTCTCCTCCTCGAAGCTGAT
Band lengths:
292-492
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]