GgaINT0068412 @ galGal3
Intron Retention
Gene
ENSGALG00000013571 | F1NUN5_CHICK
Description
NA
Coordinates
chr4:63222803-63223832:+
Coord C1 exon
chr4:63222803-63222962
Coord A exon
chr4:63222963-63223722
Coord C2 exon
chr4:63223723-63223832
Length
760 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAAT
5' ss Score
6.38
3' ss Seq
TATTATTATTTTTATTATAGAAA
3' ss Score
6.65
Exon sequences
Seq C1 exon
ATTGTCAAATGGACATTTTTGAACACGAAGAATTTTCAGGAACGAATGTCACAAGTTTTTTCACTCCAGACACTTTTGCCTGCCAAACTATTTGTACTTATTTTCCAAACTGCTTGTTCTTTACATTCTTCACCAAGGAATGGCAAATAGAATCCCAAAG
Seq A exon
GTGAATTTGATAACTTTAAAGTCTCTGAAAGATATTTTAAAAAAACAACCAGACGAAACAAACAAACAAACAAAAAAGAACCCCAATCTTAGCCTTTTTGATCACCTTTTTATTATATTCTTGGAAATTATTGTTAAAGGTTTATTTTCTGTAAAACAGCTGTTTTTTGTTTTTGTTTTGTTTTGTGTTTTTGTTTTGTTTTTTTTTTTTACTGTGTTGCATCTGTACATTTATAATTTCCTATGGGTATTTCACTTGTCCTATGGTATGAGCAGGAATCTTGTACTTCAGCTGTATATCTGGTGTTAATCTGAAAAGAGATATGTTCGGCAAAGAGACAGCCTTTATGTTGTTTTGATAACTTAACGCTGAATTTTATAAAATTGTCAAGAGATGTCTAATTTCCTAGCAGGATTAAGTTATTTACTTGAAAAGCTTTTGAATCAAGCTACCGGATTTGAAAGTATTTCTTTTTAAAGACTGAAATTCTTTCTTTTATGATTAGCGGTGAGGAGTCAAAAAAGTTACAGTCCACAGAAAACAGAGGTGGAAAGAATAGTATTTCAATGAAACTGAAGCTTCTAAATTAACAGTGAATTCATTTTCGTATGAAATACTTCTACCGATACAAACTTTGGAAAAAAAAGCACATTTAAGAAAGAGCTCTCCCTTACCAGTATCTGAAACATAAATGTTAGAATATAAGAACAAATTCAATTACTTTTAATTTTTTTTATTATTATTATTATTTTTATTATAG
Seq C2 exon
AAATCTTTGCCTCCTGAAAACATCAAGAAGTGGAATACCAGAGGCACTTACGTTACGAGAAAATGCTATTTCAGGTTTTGGTCTCCTAAATTGCAGAAGACACTTTCCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000013571:ENSGALT00000037595:6
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:
PF0002421=PAN_1=PU(61.9=96.3)
A:
NA
C2:
PF0002421=PAN_1=PD(36.9=81.6)
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:
GTCAAATGGACATTTTTGAACACGA
R:
CAGGAAAGTGTCTTCTGCAATT
Band lengths:
267-1027
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]