GgaINT0008017 @ galGal3
Intron Retention
Gene
ENSGALG00000007758 | F1NRB3_CHICK
Description
NA
Coordinates
chr15:11038540-11039192:-
Coord C1 exon
chr15:11039097-11039192
Coord A exon
chr15:11038725-11039096
Coord C2 exon
chr15:11038540-11038724
Length
372 bp
Sequences
Splice sites
5' ss Seq
AAGGTATGT
5' ss Score
9.79
3' ss Seq
ACTGCTGTCTCTCCTGCCAGGTG
3' ss Score
13.04
Exon sequences
Seq C1 exon
TCTGGTGAAATAGAGATTGTTAACCATAAGTCAAAAGATAAATGCCAGCTGAAATTTACCCCCTACAGCTACTTCTCCAGGGATGTCCCCCGAAAG
Seq A exon
GTATGTAGCCAAAAATCTCCCTGCTTCTTCTTCTGGCCTGGCTCTGCCCTCCCAGCTGGGCTCATGGGGTCCTGGCACTGGGGTGGGATGCAGCCTGCATGGGGCTGCGGAGCTGCACCAGCACCTCAGTGTGCCACGGGTCTCTGCTGGGGGGGGCTGGGGACAGAGCTGACAGCTGGGACCTGTATATGGCACTGGGAAGGATGAGGGTGAGAGCAGAGGGGCTGTGTCAGGATGGGATCTTTCTGGGTTCTGTCCTTAGGTTTGAGGACCCAGGGCACCGCTTGAGTCACTGTATTTTGCTCCTAGAGGGCTCTGGGTGCTTTCAGAAGCCACCGGAGCCATCTCCTGCACTGCTGTCTCTCCTGCCAG
Seq C2 exon
GTGACAGGGGTGGTGAGTGATGCTGATGGCAAAGCCCATTATGTCATGTCAGGCACGTGGGACGAGAAGATGGAGTGCTCCAAGATCGTGCAGAGCAGCCATGGCAGCGCCGGCTCAGAGGGCAAACAGAAAACTGTCTACCAGACACTGTCCCCAAAGGTCTTGTGGAAGAAGTACCCCCTCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007758:ENSGALT00000012578:11
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=0.226
Domain overlap (PFAM):
C1:
PF0123713=Oxysterol_BP=FE(8.2=100)
A:
NA
C2:
PF0123713=Oxysterol_BP=FE(16.1=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:
TCTGGTGAAATAGAGATTGTTAACCA
R:
GGAGGGGGTACTTCTTCCACA
Band lengths:
280-652
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]