GgaINT0126150 @ galGal3
Intron Retention
Gene
ENSGALG00000008625 | F1NLT0_CHICK
Description
NA
Coordinates
chr17:2192627-2193216:+
Coord C1 exon
chr17:2192627-2192768
Coord A exon
chr17:2192769-2193140
Coord C2 exon
chr17:2193141-2193216
Length
372 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGA
5' ss Score
7.66
3' ss Seq
TCCTTTCTTTCTCTGACCAGGGA
3' ss Score
10.58
Exon sequences
Seq C1 exon
GGAAATCGAGTTCCAAGCGCCGGTCCTCAGACATCATCAGCCTGCTGGTGAGCATCTATGGCAGCAAGGACCTGTTTATCAACGAGTACCGCACGCTCCTGGCTGACCGGCTGCTGCATCAGTTCAACTACAGTGCTGAGAG
Seq A exon
GTGAGACCCAGCTGCTGCGCCGGGGCTTCCCAGCTGAAGTCACCTCGCAGGGGTCTGCTTCAGCCTTGGGCCTACAAAATGCCATTTCTGCAGACATCTCCTCTGCAGCTGTGGTGGCATCTAGAAGTTCAGGGCTCTCTAGCTGCCTGCTGCTCAGTCTTGCCTTTGGCTTGCACTATAGGGCAGCACATAGGGAAGTGGAAGCATGGACACCCTGAGCTCCATCCCCTGTTTTCTAGCAACCTGCAGGGGCTGCTGAGGGTCAACAGAAGGTGTCAAAGTACAAAAAAGGGATGAACCATCAGGAAACCTCAGCTGCAGCCCTGCTTTGTCTCTTGGAACCCGCATGTGATCCTTTCTTTCTCTGACCAG
Seq C2 exon
GGAAATCCGCAACGTGGAGCTGCTCAAGCTGCGGTTTGGCGAAGCTCAGATGCACTATTGTGAAGTCATGTTAAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000008625:ENSGALT00000014053:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.104 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0088817=Cullin=FE(18.7=100)
A:
NA
C2:
PF0088817=Cullin=FE(9.9=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:
GGAAATCGAGTTCCAAGCGCC
R:
AACATGACTTCACAATAGTGCATCTG
Band lengths:
214-586
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]