GgaINT0126010 @ galGal3
Intron Retention
Gene
ENSGALG00000002982 | F1NAR8_CHICK
Description
NA
Coordinates
chr17:7611377-7612256:-
Coord C1 exon
chr17:7612050-7612256
Coord A exon
chr17:7611477-7612049
Coord C2 exon
chr17:7611377-7611476
Length
573 bp
Sequences
Splice sites
5' ss Seq
CCGGTATGT
5' ss Score
9.2
3' ss Seq
CACGTGCTGTCCTGCTCCAGGTC
3' ss Score
10.37
Exon sequences
Seq C1 exon
TCTGTGTTCATGCTGGGGGCGGCGGCGGGGGGGCTCAGCACCATGCTTCTCAATGACCACCTGGGCCGCAAGCTCAGCATCATGTTCTCAGCCGTGCCCTCCGCCGTGGGATATGCGCTGATGGCCAGCGCCCAGGGCATCGAGATGCTGCTGCTGGGCCGCGTGCTTACGGGCTACGCCGGTGGCGTGACGTCTGCCTCCATCCCG
Seq A exon
GTATGTGTCCTAAGAGTTTGTTTGATGGGAGGTGAGGTGGAGCTCAGCTGGGGCCTCGTTCTGCTTTGGAGGCATCAGCAGAGCTTCAGGGCTGTGGCTGTGCCATAGGGGGTGGGGGTGCTAGATGGGCTGGGAAGGATACCCCAGGGTAGTGGTCTCGCAGCACATCTGTCCCCATTCTGCTGGGCTTTTCTGGACCACAAAAAGTGGAAGGCAGGCAGGTCCTTGTTCCTTGCTCTGTTCCTCCACAGAGTTGTTTCCTCTCTTATTCTACCAGACTCTGACCTCATGACACATACAGAGAGGAAGGCAAAGATTGAGCAACCCTCGGCTGTGTCTTCCCAGTCATTGGGGTCTGAGCACTCCTCCCACATCGGGGCAGGGATGGGTGCTGCAGGGCTTCCCTGTCCCACTGCCAGGAACAGCCCCTCCATAGGGGCTCTCTAAGGATACGTGTTCCAGCAGTTTGGGGTTCCCCAACTGGGCTGTGTGACGGCAAGATGCCTGCAGGGAGGTTCTGTTGGTTCTGGCTGTGTGCTGTAGATCAGCTAAGCACGTGCTGTCCTGCTCCAG
Seq C2 exon
GTCTACATCTCTGAGATCTCCCACCCTGGGGTGCGAGGCATGCTGGGCACGTGTCCTCAGATCATGGCAGTGCTGGGCTCCCTCATCCTCTACGTGCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002982:ENSGALT00000004719:3
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:
PF0008319=Sugar_tr=FE(16.5=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTGTTCATGCTGGGGGC
R:
CAGCACGTAGAGGATGAGGGA
Band lengths:
305-878
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]