RnoINT0060917 @ rn6
Intron Retention
Gene
ENSRNOG00000025074 | Fgg
Description
fibrinogen gamma chain [Source:RGD Symbol;Acc:2613]
Coordinates
chr2:181987217-181987515:+
Coord C1 exon
chr2:181987217-181987334
Coord A exon
chr2:181987335-181987467
Coord C2 exon
chr2:181987468-181987515
Length
133 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
TTTTTGTTTTTCTCCCACAGCAG
3' ss Score
10.83
Exon sequences
Seq C1 exon
GTGCTGGCTGTAAGGGGCTGGGAGCACCGGTCACCCAGACACTATGAATTGGTCCTTGCAACTCCGGAGTTTCATTCTATGCTGGGCGCTTTTACTACTTTCTCCAACGGGCCTGGCA
Seq A exon
GTAAGTGCTCTTCAGAAGCCATATTGTTTGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAACCACTGGCAAATATATTTTTGTTTTTCTCCCACAG
Seq C2 exon
CAGTACACTGCTACTAGAGATAACTGTTGCATCCTAGATGAGAGATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000025074:ENSRNOT00000034521:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF087025=Fib_alpha=PU(8.3=75.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGCTGGCTGTAAGGGGCT
R:
TCTCTCATCTAGGATGCAACAGT
Band lengths:
162-295
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]