GgaINT0123708 @ galGal3
Intron Retention
Gene
ENSGALG00000024340 | F1NED2_CHICK
Description
NA
Coordinates
chr16:347285-347529:+
Coord C1 exon
chr16:347285-347386
Coord A exon
chr16:347387-347496
Coord C2 exon
chr16:347497-347529
Length
110 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
TCACTTCTTTCTGTCTGCAGGGA
3' ss Score
11.67
Exon sequences
Seq C1 exon
AACCGCAGCCCAACCTGATCCCCATTGTGGCCGGGGCGGTCGTTGCCATTGTGGCTGTCATCGCTGCTGTCGTTGGATTGGTGGTGTGGAAGAGCAAGTCAG
Seq A exon
GTAAAGGCAGAGGGCTGTGGGGGAATGCAGGGGCTGCAGGGCCCTGGACCCCCTTGGGAGTGCCTGTGCTCTGACATGAGCTCAATGCTGTCACTTCTTTCTGTCTGCAG
Seq C2 exon
GGAAAGAGAAGAAGGGTTATGAAGCAGCGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000024340:ENSGALT00000009998:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF049018=RAMP=FE(81.0=100)
A:
NA
C2:
PF049018=RAMP=PD(9.5=33.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCCCAACCTGATCCCCATT
R:
CTGGCGCTGCTTCATAACCC
Band lengths:
130-240
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]