GgaINT0124777 @ galGal3
Intron Retention
Gene
ENSGALG00000000853 | F1NDA6_CHICK
Description
NA
Coordinates
chr17:11118524-11118991:+
Coord C1 exon
chr17:11118524-11118623
Coord A exon
chr17:11118624-11118779
Coord C2 exon
chr17:11118780-11118991
Length
156 bp
Sequences
Splice sites
5' ss Seq
CAGGTATTG
5' ss Score
8.35
3' ss Seq
TTTTCCTTTTTGTTGTGCAGGAT
3' ss Score
10.55
Exon sequences
Seq C1 exon
GTATATATATCGGAAATATCTCATACAGATGTTCGTGGTATGCTTGGCTCTTTTGTCCAGTTGATGGTGGTGACTGGCATACTTGGAGCCTACATTGCAG
Seq A exon
GTATTGGAGTTAGGTCTCTACAAAAAAGAATTAGTATACGTAACTACACTAAGGAATTGAAAGCAAATGTCAGTTCATTTATACAAACATTAATTTTGTTGTACAAACCTTAAATCTTTTGTAGCTGATGTTTTGGTTTTCCTTTTTGTTGTGCAG
Seq C2 exon
GATTGACACTAAAATGGCACTGGCTGGCAGTATTATGTTCTTTTCCACCATGCGTAATGCTTTTGTTTATGTTGTTCATGCCTGAAACACCGAGATTTCTGCTGGATCAGAAGAAACGTGCAGAAGCTATAGCTGCTTTACAGTTTCTGCGAGGACCATACGTGGACCATGAATGGGAATGCAGGCAAATTGAAGCTAATGTTGAGGAGGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000000853:ENSGALT00000001251:4
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:
PF0008319=Sugar_tr=FE(7.3=100)
A:
NA
C2:
PF0008319=Sugar_tr=FE(15.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTTCGTGGTATGCTTGGCTC
R:
GCCTGCATTCCCATTCATGGT
Band lengths:
257-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]