HsaINT0063212 @ hg19
Intron Retention
Gene
ENSG00000104870 | FCGRT
Description
Fc fragment of IgG, receptor, transporter, alpha [Source:HGNC Symbol;Acc:3621]
Coordinates
chr19:50027764-50028830:+
Coord C1 exon
chr19:50027764-50028033
Coord A exon
chr19:50028034-50028713
Coord C2 exon
chr19:50028714-50028830
Length
680 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGG
5' ss Score
6.74
3' ss Seq
ACAGCGTTCTCTGGCTGCAGAAT
3' ss Score
7.43
Exon sequences
Seq C1 exon
AGCCCCCCTCCATGCGCCTGAAGGCCCGACCCAGCAGCCCTGGCTTTTCCGTGCTTACCTGCAGCGCCTTCTCCTTCTACCCTCCGGAGCTGCAACTTCGGTTCCTGCGGAATGGGCTGGCCGCTGGCACCGGCCAGGGTGACTTCGGCCCCAACAGTGACGGATCCTTCCACGCCTCGTCGTCACTAACAGTCAAAAGTGGCGATGAGCACCACTACTGCTGCATTGTGCAGCACGCGGGGCTGGCGCAGCCCCTCAGGGTGGAGCTGG
Seq A exon
GTGAGGTCCCGCCAGGTGGTGATGCTCCTGGTTTCCCGTTGCCTTGTCTCACTGCTGCGCCGGTCCTTCCTGAGTCTGACCTTCCTCCCCACTGCTGCCACCTCCTTGAATCTGACTGCCTTGAACCTCACGCCTGTCAGTGCCCCCAAAACCTGATGGCTTGTCCTTCCCAAGGCCAACTGCCTTCCGTCTCCTGCTGCTTCTGGCCTCACTGAGTCTGAAGAGCTGTTAACTACCATGGCCAGTCCTCCCTGAGTCTGACCATCTTCCATCCTGCTGCTGCTGCTGCTGCTGCTGCGGGTCTTCCTGGAATCTGACCATTCGTTGTCTGCTATGCCCGTCCTCACCAAGACTGACTGCCTGCTGCTTTGCTACTGCCCGGGCCCATGAGACTGACTTCCCACTGCTCTGCCTGCCTCTCCCCACTGCACTGGCACAGCCCCGCCTTGCCGCTGCTGATCCATTGCCGGTGTGACCGCGGCCGCTCGTGCTGTAGCTGGTTCTTACGTCCAACCTGGGGGCAGTCTGCCCAGATCGCCTGCCTGGCCTCGCCTCTGCCCATCAGACACTTGGTGCTGGAATCTCCGAGGCTGGGAGGGACTGGGAGCGCCCCAGTTCTGTGTCCTGACTGGGTGGGGTGGAGGGGCTGCTCCACATCTCACAGCGTTCTCTGGCTGCAG
Seq C2 exon
AATCTCCAGCCAAGTCCTCCGTGCTCGTGGTGGGAATCGTCATCGGTGTCTTGCTACTCACGGCAGCGGCTGTAGGAGGAGCTCTGTTGTGGAGAAGGATGAGGAGTGGGCTGCCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000104870-FCGRT:NM_001136019:5
Average complexity
IR-C
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.185 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0012913=MHC_I=PD(3.4=3.3),PF0765410=C1-set=WD(100=87.9)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Mouse
(mm10)
No conservation detected
Rat
(rn6)
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:
CTGGCTTTTCCGTGCTTACCT
R:
AGCCCACTCCTCATCCTTCTC
Band lengths:
343-1023
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)