HsaINT0064006 @ hg19
Intron Retention
Gene
ENSG00000171557 | FGG
Description
fibrinogen gamma chain [Source:HGNC Symbol;Acc:3694]
Coordinates
chr4:155533543-155533902:-
Coord C1 exon
chr4:155533684-155533902
Coord A exon
chr4:155533588-155533683
Coord C2 exon
chr4:155533543-155533587
Length
96 bp
Sequences
Splice sites
5' ss Seq
GCAGTAAGT
5' ss Score
9.07
3' ss Seq
CTGTATTTTTTCTCTTTTAGTAT
3' ss Score
10.62
Exon sequences
Seq C1 exon
CTTCTGGTAAGGAGGCCCCGTGATCAGCTCCAGCCATTTGCAGTCCTGGCTATCCCAGGAGCTTACATAAAGGGACAATTGGAGCCTGAGAGGTGACAGTGCTGACACTACAAGGCTCGGAGCTCCGGGCACTCAGACATCATGAGTTGGTCCTTGCACCCCCGGAATTTAATTCTCTACTTCTATGCTCTTTTATTTCTCTCTTCAACATGTGTAGCA
Seq A exon
GTAAGTGTGCTCTTCACAAAACGTTGTTTAAAATGGAAAGCTGGAAAATAAAACAGATAATAAACTAGTGAAATTTCTGTATTTTTTCTCTTTTAG
Seq C2 exon
TATGTTGCTACCAGAGACAACTGCTGCATCTTAGATGAAAGATTC
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000171557-FGG:NM_021870:1
Average complexity
IR-S
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:
PF045827=Reo_sigmaC=PU(6.9=42.3)
A:
NA
C2:
PF045827=Reo_sigmaC=FE(8.8=100),PF087025=Fib_alpha=PU(8.3=80.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
AGGGACAATTGGAGCCTGAGA
R:
GCAGCAGTTGTCTCTGGTAGC
Band lengths:
176-272
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)