GgaINT0082263 @ galGal3
Intron Retention
Gene
ENSGALG00000016690 | F1NFF7_CHICK
Description
NA
Coordinates
chr3:111590234-111590710:+
Coord C1 exon
chr3:111590234-111590396
Coord A exon
chr3:111590397-111590560
Coord C2 exon
chr3:111590561-111590710
Length
164 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGT
5' ss Score
11
3' ss Seq
GTTTTAATTTTCCATTTCAGGTG
3' ss Score
12.38
Exon sequences
Seq C1 exon
CTGTCTGAAACGTATGGCCCAGTCTTCACAGTTCAGATGGGAATGAGGAAAGTTGTGGTGCTGTCAGGATATGACACAGTGAAGGAAGCTCTGGTGAATCATGCAGATGCATTTGTAGGGAGACCTAAAATACCAATCGTGGAAAAAGCAGGAAAAGGAAAAG
Seq A exon
GTAAGTGGGCTGTTCTCATATTTTCTGCCCCTGTTCTTTTCAGGAGGCGCATGTGAAAGAGAAGCATGATGAACCCCAGCAGTCCATCAGTGTGAAACCACCACAGAACAGATGAAGAATCTTTGCTTAAGTCGTTATGCATGTGTTTTAATTTTCCATTTCAG
Seq C2 exon
GTGTTGTATTTTCTAGTGGAGAAAACTGGAAAGTGATGAGAAGATTTACTCTTACAACCTTACGAGACTTTGGGATGGGAAAGAAGGCCATAGAAGACTATGTTGTAGAGGAGTATGGATACCTGGCAGACGTAATTGAGTCACAGAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016690:ENSGALT00000026937:2
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:
PF0006717=p450=FE(11.8=100)
A:
NA
C2:
PF0006717=p450=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTATGGCCCAGTCTTCACAG
R:
GGCCTTCTTTCCCATCCCAAA
Band lengths:
242-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]