HsaINT0063158 @ hg19
Intron Retention
Gene
ENSG00000090920 | FCGBP
Description
Fc fragment of IgG binding protein [Source:HGNC Symbol;Acc:13572]
Coordinates
chr19:40362718-40364435:-
Coord C1 exon
chr19:40363864-40364435
Coord A exon
chr19:40363292-40363863
Coord C2 exon
chr19:40362718-40363291
Length
572 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TACCCGACCCTTCCACCCAGGTC
3' ss Score
7.59
Exon sequences
Seq C1 exon
CCTTGCAGTGCCCTGCCCACAGCCACTATGAGCTCTGCGGTGACTCCTGCCCTGTGAGCTGCCCGAGCCTCTCAGCACCCGAGGGCTGTGAGTCGGCCTGCCGTGAAGGCTGTGTCTGCGATGCTGGCTTCGTACTCAGTGGTGACACCTGCGTACCCGTGGGCCAGTGTGGCTGCCTCCATGATGGCCGCTACTACCCACTGGGCGAGGTCTTCTACCCGGGCCCTGAGTGTGAGCGGCGCTGTGAGTGTGGGCCAGGTGGCCATGTCACCTGCCAGGAGGGCGCAGCCTGTGGGCCCCATGAGGAGTGCCGGTTAGAGGATGGTGTCCAGGCCTGTCATGCCACAGGCTGTGGCCGCTGCCTGGCCAACGGGGGCATCCACTACATCACCCTTGATGGCCGTGTCTACGACCTGCATGGCTCCTGCTCCTATGTCTTGGCCCAAGTCTGCCACCCAAAGCCTGGGGACGAGGACTTTTCCATCGTGCTTGAGAAGAATGCAGCTGGAGATCTCCAACGCCTCCTGGTTACTGTGGCTGGCCAGGTTGTGAGCCTAGCTCAGGGGCAGCAG
Seq A exon
GTGAGTCCATGTGAGCCTGCCCTGGGGGTCTGAAGGCAACACAGCCCCATCTAGGGGGTTCTGAGGGAGACACGACCCCACCCTGTAGGTATGAGAGGGACATTCCTCTAACATGGGAACTCTGGTACCTACCCTGGAAGGTTTGGTGAATGGTCCCACCGTGGGAGATTTTTGTGTTGTTTTGTGACAGGGTCTTGTTCTGTCACCCAGGCTGGAGTATATTGGCGTGATCACAGCTCACTGCAGGCTCAACCTGCTGGGCTCAAGCAATCCTCCCACCTCAGCCCCCCATGCCTAGCTAATTTTTTATTTTTGGTAGAGATGAGGTCTTGCTGTCACGGCCAGGCTGGTCTCGAACTCCTGGGCTCAAGTGATCCACCTGTCTGGGCCTCCCAAAGTGCTGGGATTATAGGTGTGAGTCACCACGCCAGGCCTGGGGCCCAAGAAGTTTAAGGGAAACATGACCTGACGTTAATGGGACTGAGGGAGATGCAGCTCTGGCCTGGGAGTGGGACAGGACAGCCTTGCCTGTGGTTCTGTGAGTTCCTGACCTACCCGACCCTTCCACCCAG
Seq C2 exon
GTCACCGTGGACGGCGAGGCTGTGGCCCTGCCTGTGGCTGTGGGCCGCGTGCGGGTGACCGCCGAGGGCCGAAACATGGTTCTGCAGACGACCAAGGGGCTGCGGCTTCTCTTTGATGGCGATGCCCACCTCCTCATGTCCATCCCCAGCCCCTTCCGTGGACGGCTCTGTGGCCTCTGTGGGAACTTCAATGGCAACTGGAGTGACGACTTTGTCCTGCCCAATGGCTCAGCAGCGTCCAGTGTGGAGACCTTCGGGGCTGCATGGCGGGCGCCCGGCTCCTCCAAGGGCTGTGGCGAGGGCTGCGGGCCCCAAGGCTGCCCAGTGTGCTTGGCAGAGGAGACTGCACCCTATGAGAGCAACGAGGCCTGCGGGCAGCTCCGGAACCCCCAGGGCCCCTTCGCGACCTGCCAGGCGGTGCTGAGTCCCTCTGAGTACTTCCGCCAATGCGTATACGACCTGTGCGCGCAAAAGGGTGACAAAGCCTTCCTGTGCCGCAGCCTGGCAGCCTACACGGCGGCCTGTCAGGCAGCTGGCGTGGCCGTGAAGCCCTGGAGGACAGACAGCTTCTGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000090920-FCGBP:NM_003890:31
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF087426=C8=PD(0.1=0.0),PF0182612=TIL=WD(100=28.3),PF127142=TILa=WD(100=29.8),PF0009420=VWD=PU(47.3=36.6)
A:
NA
C2:
PF0009420=VWD=PD(51.4=39.6),PF087426=C8=WD(100=39.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCTCCTATGTCTTGGCCCAAG
R:
GTCGTCACTCCAGTTGCCATT
Band lengths:
356-928
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- 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)