RnoINT0060213 @ rn6
Intron Retention
Gene
ENSRNOG00000020583 | Fcgrt
Description
Fc fragment of IgG receptor and transporter [Source:RGD Symbol;Acc:61811]
Coordinates
chr1:101094721-101095594:-
Coord C1 exon
chr1:101095323-101095594
Coord A exon
chr1:101094979-101095322
Coord C2 exon
chr1:101094721-101094978
Length
344 bp
Sequences
Splice sites
5' ss Seq
CGGGTAAGA
5' ss Score
9.84
3' ss Seq
TTCTCCTCTTTCCTCTGCAGAGC
3' ss Score
12.42
Exon sequences
Seq C1 exon
AGTTCTGTAATTAATTAACTAACGTGGATCAAATGAGAAGGTGAAAGTTCACACAGGAGCACTCCTGTCGTCTTGGACTGGGTCTCCATCCCACCATCCAGTGCCCTGGTCTACGAAGAGTCCACAGGGACCTTGTGAAGAATCAACAAGGCGGGGTCCAGAGGAGTCACGTGTGCCTTCCACTCCGGGTCGCCCTGTCAGGATGGGGATGTCCCAGCCCGGGGTCCTCCTCAGCCTCTTATTGGTCCTCCTGCCTCAGACCTGGGGAGCGG
Seq A exon
GTAAGAGGCCACCAGGACCTACCTGGAGCGGGTCAGAAAGGGGATAGGAAGAAGAGACAAGTAGTGGAGAAGAGACAATAAAAAGGCTTTTTTGGGATGTCCGGGCCTTCCTGGAAATCTCGCTGTGTGTAACTAACTACTCTGAGCATTGTGTCAAATACACTTGACAATCTCAGGGTCATCTCTGTGCCTGTCCATCTGTTTGTCTGTCTTCCTCCCCCTGGGTGTCTGTCCCCTTCTCTCTGTAGGATCGGGGCCCTTCAGGCTGAGCCCAGTCTTCACTCTGCGTTTCTGTGGGGCGGGGTGCAGCGCATGACCCGCTGATTCTCCTCTTTCCTCTGCAG
Seq C2 exon
AGCCCCGTCTCCCACTGATGTATCATCTTGCAGCTGTGTCTGACTTATCAACGGGGCTTCCCTCTTTCTGGGCCACGGGCTGGCTGGGTGCTCAGCAATATCTGACCTACAACAACCTGCGGCAGGAGGCTGACCCCTGTGGGGCCTGGATATGGGAAAACCAGGTGTCTTGGTATTGGGAGAAGGAGACCACGGATCTGAAAAGCAAAGAACAGCTCTTCTTGGAGGCCATCAGGACCCTGGAGAACCAAATAAATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020583:ENSRNOT00000027944:1
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:
PF0012913=MHC_I=PU(48.9=97.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TCTCCATCCCACCATCCAGTG
R:
TTTTCCCATATCCAGGCCCCA
Band lengths:
350-694
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]