GgaINT0016192 @ galGal3
Intron Retention
Gene
ENSGALG00000004050 | F1NWE0_CHICK
Description
NA
Coordinates
chr14:2272302-2273695:-
Coord C1 exon
chr14:2273483-2273695
Coord A exon
chr14:2272465-2273482
Coord C2 exon
chr14:2272302-2272464
Length
1018 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
GATCTTTTCTCTCCTTGCAGATT
3' ss Score
12.8
Exon sequences
Seq C1 exon
GAGTGCAGAAGGGCAGGCTCCACCAGCATGGCTGCCCTCGTGCCCCTGCTCACCTGTGGGCTCTGCATGGTGCTTTTCATCGCCGCACTCCTCTGTGCTGTAAAAGGTTTGAAACGATCAGCTTCAAATTTGCCTCCTGGTCCGTTTCCTCTCCCCATCATCGGCAACCTGCACCTGCTGGACATCAGGAGGCAGGACAGGTCTCTGATGAAG
Seq A exon
GTAGGAGCAAGCACCTGTGATGCATGGGGCCCTGGGGGAGGGAGGGATGGCTGCAGTTCTCCCTCCAATGGCAGTCCTGAGATAACTGCTCGGTNNNNNNNNNNGATTTACCTGTCGGTCCGTCGATTCAGAAAGCTGTGGCCAGGCCTTCCCTTCTGCTCGCTACTTGATAATTACCTGAAACTGCGGTGCGCAGCTTTTTGCCTAAATGTACTGCTTTGTAACCGAGAGTGCCTACCGCCGCGGTATGAATCCCTTCAAAACAATCAGGACGCGTTTGTGCCGGGTTACACGCACCTGCTACGCACCCAGCCGGTGACGTTCTCTCACTGATGCCTGCCCCTTTCTAAAACCAACTCTGCAGAGTTTGGTGGGCAGTCAATACATGAGAGCTGCCCACACGCTGAAGGCTGTGAATATCTGCATCGGTTTGGATGGATGAACCTAAACTTTGGCGTCTTTATGTTGTGAAATACTCTAAAACATTTGAGTGTCCACATGGTCAAATTGAAAGGCAGATGCTTAGTTGTAATTGCCAAAATAGCTTGTATGTCTTGCTCATGATGCTGGTTTTCTGGATGGGAGTTAGTGTAGCACAGCCCAGAGAAAAGATGTAGAGGAAATAGATTGAAACCGTGAGTGACTCGGACCTGGAACACCATGGGTAGGGCAGGGCAGGGTGTCCTGAGTTGGAAGAGACCCACAAGGATCACCAAGTCCAACTCCTGGCTCCACATGGCCTCAAGTTGCACCAGGGGAGGGTCAGGTTGGATAAGAGAAAAAATTTCTCCAAGGAGTGGTGCAGCGCTGGCACTGCTGCCCAGGGAACAGTGGGGCCACCAGCATGGAGGTGTTCCAGAGCCGCGGAGATGTGGCACTGAGGGACGTGGGTTGGTGTCACGGTGGGGATGGGCTGAGGTTGGGCTTGGTGATCATGGAGGTCTTCAACATCAATGACCTAACCAGCAGAGCAGGACGCAGTGCTACCGCTGACCACTGATCTTTTCTCTCCTTGCAG
Seq C2 exon
ATTTCCGAGAAATATGGGCCAGTGTTCACTGTCCACCTGGGGATGCAGCAAGTGGTGGTGCTGAGCGGCTACGAGGCAGTGAAGGATGCACTTCTGAACACAGCGGATGTGTTTGCAGACAGACCCCCTATCCCCATCTTCCATCAGATCCAGCATGGAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004050:ENSGALT00000006446:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0006717=p450=PU(15.7=72.2)
A:
NA
C2:
PF0006717=p450=FE(32.5=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:
GAGTGCAGAAGGGCAGGC
R:
TAGGGGGTCTGTCTGCAAACA
Band lengths:
343-1361
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]