GgaINT0138210 @ galGal3
Intron Retention
Gene
ENSGALG00000007340 | F1NC10_CHICK
Description
NA
Coordinates
chr24:5618400-5618752:-
Coord C1 exon
chr24:5618573-5618752
Coord A exon
chr24:5618502-5618572
Coord C2 exon
chr24:5618400-5618501
Length
71 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGT
5' ss Score
8.56
3' ss Seq
CGCCGCTGTTCCTTCTGCAGAGC
3' ss Score
10.92
Exon sequences
Seq C1 exon
GCCCTGCGTGAAGCGCTGCGGGGAGGTGAGGTCGGTGCTGTCAGTGTCTTTCAGGATCCAGGCGGGTGCCTCCCTGCTGGCGGTGCGGCCGCAGGACCGGTCCCGATGGCTGCTGGCCTGCTATGAGCACTGGCAGCCCACGCTGGGCACACGGCTGTGCCGGCACCTCGGGGCGCTCAG
Seq A exon
GTGGGTGCTGGTGGGGATGGGGGCGGGGCAGCCGCCCACCCCTCCCTGGGCCGCCGCTGTTCCTTCTGCAG
Seq C2 exon
AGCGGTACATCAGAAGGGGGTGAAGCTGACGGACGTGAGCATGGAGGACGGGCAGGAGTTTGCCCAGGTGGGGTCCAGCCTGGAGGACGCGTGGCAGATCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000007340:ENSGALT00000011874:3
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:
PF154941=SRCR_2=PU(41.5=63.9)
A:
NA
C2:
PF154941=SRCR_2=FE(36.2=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGGTGCTGTCAGTGTCTTT
R:
AGCTTCACCCCCTTCTGATGT
Band lengths:
177-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]