HsaINT0063212 @ hg38
Intron Retention
Gene
ENSG00000104870 | FCGRT
Description
Fc fragment of IgG receptor and transporter [Source:HGNC Symbol;Acc:HGNC:3621]
Coordinates
chr19:49524507-49525573:+
Coord C1 exon
chr19:49524507-49524776
Coord A exon
chr19:49524777-49525456
Coord C2 exon
chr19:49525457-49525573
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:ENST00000221466:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.158 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
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