GgaINT0126008 @ galGal3
Intron Retention
Gene
ENSGALG00000002982 | F1NAR8_CHICK
Description
NA
Coordinates
chr17:7612337-7612975:-
Coord C1 exon
chr17:7612887-7612975
Coord A exon
chr17:7612500-7612886
Coord C2 exon
chr17:7612337-7612499
Length
387 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGA
5' ss Score
4.95
3' ss Seq
CTTGCTCTGCCCACCTCCAGGAG
3' ss Score
9.84
Exon sequences
Seq C1 exon
GTGCGGGAGCCGTTGGTGAGGAGGTCAAGCTCCTCATACCACACCTTCCCTGAGAGCATCCGGAGGGGGCTGGACAAGGAGTACCTGCA
Seq A exon
GTAAGAGCCAGGCTGCGGCTGTGGGGCTGGATGTGGGGTGGCCGTGCACATCGACCTGGGGTTTGGGAGCTGGGAGTGGGCTGTGGCCCCGTGGTTGTTGTGAGAGGGGGCTCATCCTGAGCGGGGCTCGTGGTGCTGGGGTTTGTGTGAGAGCCGTGGGTGTGTGGGATGCGGGGCACGGGGCGCTGCTGTGGGGTGGCGGCAGGGAGCTCTCTGGGGCCGTGGTGCTGCCCGCTCCCAGCTTCTGCTTTTCCGTTTGTTGAACTGGCTGAGAAGCAGCTGGCTCAGCTGAAACTCATCCATGGGGGAAAGCTGCTAAAGAGCTGGAGTTTCCAGCGGGTGCCATAGAGGTGTCCGACACGTCCTTCTTGCTCTGCCCACCTCCAG
Seq C2 exon
GAGCCTCAACAACAAGCGGCTCTACATGGCAGTGTTTGCTGCCGTGCTGGGGAACTTCAGCTTTGGCTTTGCCCTGGTTTACCCCTCACCCGTGATCCCTGCCCTGGAGACTCACCCCAACCCCGCGCTGAGGCTGGACCGCTACAGAGCATCCTGGTTTGGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000002982:ENSGALT00000004719:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008319=Sugar_tr=PU(10.9=81.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAGCCGTTGGTGAGGAGGTC
R:
CCCAAACCAGGATGCTCTGTA
Band lengths:
246-633
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]