RnoINT0060216 @ rn6
Intron Retention
Gene
ENSRNOG00000020583 | Fcgrt
Description
Fc fragment of IgG receptor and transporter [Source:RGD Symbol;Acc:61811]
Coordinates
chr1:101087423-101088851:-
Coord C1 exon
chr1:101088582-101088851
Coord A exon
chr1:101087540-101088581
Coord C2 exon
chr1:101087423-101087539
Length
1042 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGG
5' ss Score
7.65
3' ss Seq
ATGAGACTTTCTGGCTGCAGATT
3' ss Score
6.3
Exon sequences
Seq C1 exon
AGCCGCCATCTATGCGCCTGAAGGCCCGTCCTGGCAACTCTGGCTCCTCAGTACTGACCTGTGCTGCTTTCTCCTTCTACCCGCCGGAGCTCAAGTTTCGATTCCTGCGCAATGGGCTAGCCTCAGGCTCTGGGAATTGCAGCACTGGTCCCAATGGTGATGGATCTTTCCATGCATGGTCATTGCTAGAGGTCAAACGTGGAGATGAACACCATTACCAATGTCAAGTGGAGCATGAGGGGCTGGCCCAGCCTCTCACTGTGGACCTAG
Seq A exon
GTGAGGCTGTCCCTCTGGCCTCAGTGTCCTCTTTGTTTCTGCTCCTAGCTTCTGATTCTCCATTAACCCTGTGGCCAGTCCCCCTGAGTCTGACCACAAGTCTTGCTACTACTGGTCTTCATGGTGTTTGACCATTCACTTTTGCTCCTGACAGTTCTTGCCATGGCTTTGGTGAAGCACCAACTTTGCCATTTGTCCTGTGACTGCTCCTCCTCAATTAGGTCCTCATTGAGCTCCGTCACAGTGTGGCTGTGTTCTCTCAATATGGCCCTCTTCCTCCTCCTCCTCTTCCTCCTCCTCCTCCTCCTCTGCTTCTTCTCCTCCTCCTCTTCTTCTTCTTCAGATTTATATCTAAGAGTATGCATATATGTTTAATTTCCTTACGTTCTTTATGTGAGAAGGGAAGGCAGAGGTGAGCCTGTGTCGTGGGATACTTGAGAAGACAGAGGACAACTTGGGGATCAAACTCACTAGGCTTTAGGGCAAATGCCTTAACTCATTGAGCCTTCTCGCCAGCCTAGATTTATAGAGGGTTGGGCTCAGGTTGGAACCAAACTGATCCTCTGCAAGAGCAGCAAGTGCTCTTAACATTAACAGCTCTAGCCATCTCTCCAGCACAGTGGCAGGTTCTTTTTTTTCCGGAGCTGGGGACTGAACCCAGGGCCTTGCGCTTCCTAGGCAAGCGCTCTACCACTGAGCTAAATCCCCAACCCGGCAGGTTCTTTTTTTTTTTTTTTTTCTCTTTTTCTTTCTTTTTGTTTTTGAGACAGGGTTTCTCCGTATAGTTTTGGCTGTCCTAGAACTTGCGATGTAGACAAGCCTGGCCTCTAACCCACACATCTGTGTGCCTCGGCCTCCCAAATCCTGGGATTAAGAGGTGTGCCACCACTGTGTAGCTGGTTCTTACATTCAGGGTGGAAACACATGAGGCCCAGGGCCTTTTCTCTGCATACACCCACCCTCAGATATATGCTTCTGGGGCTCTCTGAGAGGAGTCACCGACTCCTTTCTTCCCTGTCTTCATGAGACTTTCTGGCTGCAG
Seq C2 exon
ATTCGCCCGCCAGATCTTCTGTGCCTGTGGTCGGAATCATTCTTGGTTTATTGCTGGTGGTAGTGGCCATCGCAGGGGGTGTGCTGCTATGGAACAGGATGCGAAGTGGGCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020583:ENSRNOT00000027944:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0765410=C1-set=WD(100=87.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
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:
GGCAACTCTGGCTCCTCAGTA
R:
CCACTTCGCATCCTGTTCCAT
Band lengths:
347-1389
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]