GgaINT0078382 @ galGal3
Intron Retention
Gene
ENSGALG00000004293 | F1NWX6_CHICK
Description
NA
Coordinates
chr3:47270831-47271837:+
Coord C1 exon
chr3:47270831-47270945
Coord A exon
chr3:47270946-47271697
Coord C2 exon
chr3:47271698-47271837
Length
752 bp
Sequences
Splice sites
5' ss Seq
TAAGTATGA
5' ss Score
1.43
3' ss Seq
CCATGTTACTTCTGTTCCAGTTA
3' ss Score
7.27
Exon sequences
Seq C1 exon
TTTATCTTCTAGAATGCAAGAAAGGTAGAGGGAAGGATTACAGAGGAACAGAAGCCAAAACTCAGAAGGGTGTGGCATGCCAGAAGTGGGCTGATACTGCACCCCATAAACCTAA
Seq A exon
GTATGATCTTTTCATTATGTGCTCATGTTTTTCTGAAACTTTGCTAAGCCATTTGTATGTCCTGAGTAGTCTTATAAGCAAGTCATTTGATATTCAAATTCTTAATAAAAAATAATTTCTTACACTTATCCTTCTCTAATCCGAATTACAATTGGAGCTGCACAATCAAAGGGGCTTCTTCAGTCTTGGCAGTTGTGTTTAACTTTTTTGATCCTTATGTGAGCAGAATGCTGGACAGGGAAGCAGTTGGTTCTATTGAAACAGGAATTTTTCATCAGTCTCAGAACAAGAGTATCTTCTCTTGACTGAAAAATATAATATGTAGCCAATGAGACATCATTCTATCAGTGAATCCATAGGCAATAAACAAAGCAGTATTTATTGTATTTAGTGAAAAACACTCAGTTGGGTTTACTTAGTAACCTGCTATTGACATAGCATAGCATTCTGCTCACAGAGAACTCTCACATTTCAGTGAACCAAAGCACCTGGCTGAGTTAAAATTATTGGAAACCAAAAATCTAGAGTAAATGTTAGTATTAAATACATGACTGGCCATGAAGATGACAAATTTCCTGAAGTCTGCCGCTCTGACACTTCTAACCCTTGACTTACGGCACTCAGTAGCAATTAGGAGACTTCTAATGAATGACATCTTCAAAATGGTGCTCAGAGATTTCACTTCTAGGGTCCTCAACTGAACAACTATGACATTTCCTTTATTCCCTAATGCCATGTTACTTCTGTTCCAG
Seq C2 exon
TTACACACCTGAAAAACACCCCAGTGCAGGGCTGGAGGAAAATTACTGCAGAAATCCTGATAATGATGAAAAAGGACCCTGGTGTTACACAACAGATCCCAATACCAGATTTGATTACTGTAACATCCCAGAGTGTGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000004293:ENSGALT00000006829:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.051 A=NA C2=0.229
Domain overlap (PFAM):
C1:
PF0002421=PAN_1=PD(1.3=2.6),PF0005113=Kringle=PU(41.8=84.6)
A:
NA
C2:
PF0005113=Kringle=PD(57.0=93.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg19)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTAGAATGCAAGAAAGGTAGAGGGA
R:
TCACACTCTGGGATGTTACAGT
Band lengths:
246-998
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]