GgaINT0082266 @ galGal4
Intron Retention
Description
Uncharacterized protein [Source:UniProtKB/TrEMBL;Acc:F1NFF7]
Coordinates
chr3:108404874-108405610:+
Coord C1 exon
chr3:108404874-108405047
Coord A exon
chr3:108405048-108405468
Coord C2 exon
chr3:108405469-108405610
Length
421 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGTT
5' ss Score
5.77
3' ss Seq
TTATTGTTTCATTTTTCCAGCAG
3' ss Score
8.29
Exon sequences
Seq C1 exon
CTGTACAATATGTTTCCCATCCTTGGACCCTTCCTGAAGGACAACAAAAGTTTTCTTGAGAATGTAAAAGAAGTCAATGATTTTATCAAGGTTACTTTCACAAAATATCTCCAAGTCCTGGACAAAAATGACCAGAGGAGCTTCATCGACGCTTTTCTTGTCAAACAACAAGAG
Seq A exon
GTAGTTGAATGCCAGCAGCCTCCTTGTATCACCTCACTTCTCTTTCAAGCTTTTTCACTGAATACACACATTCTTTTATATGCTCTGCTCCATGGCCCAGGGGATACAAAACTTGACTAAATCACTTGGGTTAAACCCAGTGACTGCTCCCTATATTTCAAAATATTCCTGTTGTCACTGAAATTAACCTTGCTGATTTGACTGTTTGTTCCCATGGGCAACAGAGTCAGTCCAAGCACTCAGTAATTCAAGATTCAGCTCATTACAGACTTCTGAAGGTGTTCCCTCCAAACTTCCTCCTCCTTTATGCTTTTAATCCCTCCCTGAGGTTTGTGTATGATTTCTTTCCCTGTTTTACAGTGATAGAAATGTGTTCTTGAATATTTATCAGGCTGACAACATTATTGTTTCATTTTTCCAG
Seq C2 exon
CAGAATGAAAAGGCCAATAAATTTTTCGACGATGAAAACTTAACTGAGGTTGTGAGAAATCTGTTTACAGCTGGCATGGATACCACAGCCACCACTTTACGCTGGGGCCTTCTACTTATGATGAAATACCCTGAAATTCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000016690:ENSGALT00000026937:5
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(12.5=100)
A:
NA
C2:
PF0006717=p450=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAATATGTTTCCCATCCTTGGACC
R:
AGGGTATTTCATCATAAGTAGAAGGC
Band lengths:
302-723
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]