GgaINT0126149 @ galGal3
Intron Retention
Gene
ENSGALG00000008625 | F1NLT0_CHICK
Description
NA
Coordinates
chr17:2192310-2192768:+
Coord C1 exon
chr17:2192310-2192491
Coord A exon
chr17:2192492-2192626
Coord C2 exon
chr17:2192627-2192768
Length
135 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAAT
5' ss Score
6.6
3' ss Seq
TCTCTGCTGCATTTCAATAGGGA
3' ss Score
8.17
Exon sequences
Seq C1 exon
GACACGGGAGGACACCGTGCGGCAGATCGTGGCCGGTCTCACGGGGGATGCTGAGGGCTCCGGGGATCTGGCAAATGAGCTCTCGAAAGCTGACCCTGTGACACTGGAGAATGGCCAGGAGAGTGATGATGACATCTCAGAACCAGGGGACTGGGTACCTGACCCAGTTGATGCAGATCCAG
Seq A exon
GTGAATTAAGAGCAGGCATCGAGGCAGCCCGCTGTCTCCCCGTGGCTGGCTGTAGCCTTGAGTCACCCGTTTGGCTGTGCCGATCTGGGCTGGGGCTTTGCTCATCTCACGTTGCTCTCTGCTGCATTTCAATAG
Seq C2 exon
GGAAATCGAGTTCCAAGCGCCGGTCCTCAGACATCATCAGCCTGCTGGTGAGCATCTATGGCAGCAAGGACCTGTTTATCAACGAGTACCGCACGCTCCTGGCTGACCGGCTGCTGCATCAGTTCAACTACAGTGCTGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008625:ENSGALT00000014053:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.581 A=NA C2=0.104
Domain overlap (PFAM):
C1:
PF0088817=Cullin=PU(2.4=9.7)
A:
NA
C2:
PF0088817=Cullin=FE(18.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGGGATCTGGCAAATGAGCTC
R:
AGTTGAACTGATGCAGCAGCC
Band lengths:
250-385
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]