GgaINT0126350 @ galGal3
Intron Retention
Gene
ENSGALG00000009151 | FCN3
Description
NA
Coordinates
chr17:660935-661623:+
Coord C1 exon
chr17:660935-661059
Coord A exon
chr17:661060-661493
Coord C2 exon
chr17:661494-661623
Length
434 bp
Sequences
Splice sites
5' ss Seq
ATTGTGAGT
5' ss Score
7.35
3' ss Seq
GGAATTCTCATTTCCCACAGGTT
3' ss Score
8.38
Exon sequences
Seq C1 exon
CCAGGAACTGCCAAGAGCTGCTGGATAAAGGGAAGATCCTGAGCGGATGGTACACCATCCACCCCCAAGGCTGCAATGCTACCACTGTCTTCTGCGATATGGACACGGATGGTGGAGGATGGATT
Seq A exon
GTGAGTAGGATGAGGAGAGGGAAGCTTTTATTTCCCTACGGTGATTTTTATTGATACTCCAAATGATAGCACTAAGCAACAAAAAGGGAGGAAAGCATTAAAGAGAGGACAAACACACCACAAAGCTGGTGGAGAGGGCAGCTGAAGTTCCTTTGACCAAGCCTGGGTGAATGCAGGGGATTCTTTTGGGAGCTGTCTCTGGGAACAGGCTGAGAACCACAAACCCACCCATTCCTGCTCAGCCAGCAAACTCCCAAGCACAGATGAAGGGAATTTGCAAGAGAGAGATCTCCCCTCTGGTTCAGCACTCCCAGCTGCCCTCTGGAGTGGTGTATGCATTGGGGGTTAGCTGAGGCCGTGCCACCAGCAGGCAGGCAGTGGGGCTTCTTCTGGAGCAGAACGACTGCCGGGGATGGAATTCTCATTTCCCACAG
Seq C2 exon
GTTTTCCAGAGACGCTTGGATGGGTCAGTGAATTTTTTGCGAGATTGGAATTCATACAAACGAGGATTTGGCAACCAGCTGACGGAGTTCTGGCTGGGGAATGACAACCTCCACTTCCTCACCTCTCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009151:ENSGALT00000014902:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0139113=Collagen=PD(8.5=11.9),PF0014713=Fibrinogen_C=FE(19.2=100)
A:
NA
C2:
PF0014713=Fibrinogen_C=FE(20.2=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:
ACTGCCAAGAGCTGCTGGATA
R:
GAGAGGTGAGGAAGTGGAGGT
Band lengths:
246-680
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]