HsaINT0061962 @ hg19
Intron Retention
Gene
ENSG00000078098 | FAP
Description
fibroblast activation protein, alpha [Source:HGNC Symbol;Acc:3590]
Coordinates
chr2:163081993-163083131:-
Coord C1 exon
chr2:163083033-163083131
Coord A exon
chr2:163082088-163083032
Coord C2 exon
chr2:163081993-163082087
Length
945 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAGT
5' ss Score
10.86
3' ss Seq
GTTTTCTTTCTTGTTTAAAGGAC
3' ss Score
8.83
Exon sequences
Seq C1 exon
TTCATAACTCTGAAGAAAATACAATGAGAGCACTCACACTGAAGGATATTTTAAATGGAACATTTTCTTATAAAACATTTTTTCCAAACTGGATTTCAG
Seq A exon
GTAAGTGCATTATTTATCTTTAGGGGTTTTTTTTATGTATTTTGTTTGGTTTTTATTTTAGTGCCAATACATCTCTATAGTAACTGAAGCCGTATCAGTTGAAATGTACAAAAAGAACAATTATCTGAATGATTCAAGTGCTCAAAAAAGCGCTTTTGACAAAACCATTCATACTGGATTTGCGCCATAGTAATGAGGCCAATAGAGTTTTAAATAGAGAAGGAAAAGTTGAAAATGCATTGTTGAAATAATTTGAACTTCTGTAATCACTTTTGAGAATGGTAGATATATTCCTATTTAGGAGAAGTCACAAAAATTTTACCAAAAGAGAAATTCCATTATTAATCTGGATAATCTGGAAAACAGACAAATCTCAATCTGACAATGAACCCTTTAAGGGTCATGAAATCGGTATTTTCATACAGCTTTTCAAAATAGGATGTTATAAAGCAAATCTAATCAAATAAATAGTGAGATCAACTAAATAGTCTATGACATTTTAGTTGAGTATCTTAAGTGTCACTGAACAAAATGGAATATTTTAATTTTTTCTCTTTAGAAAATAAAATTAATACAAAGTGAGTTTTAAGTTGAACCAAACACAACTTAAATGTAATTTATGTTTATTACTGCAAAAGAAATATACACTTCAAACTAGTTTATCCCCTTTGTAACCCAGAGAAAACAAAATTGTGTTCCTAAGCACCCTGAATCGGCTAAAATAGGGCTGCTGTTTGCAAATGTGGCATCTTTGTGTGAAGTAGAACAAAGCATTCTACCTTCTTCCTCTACCACCAACTTACTATTTTACATATCACAAAGCAATATGTACTGGACAGAGAGGAAAAACAAAGTAGGTCTGTGAAATAGAGAGGTTTCTTTTGTTAGGAATGTATTTCATGTTAAGAGAGATCATTTACATTTTGTTTTCTTTCTTGTTTAAAG
Seq C2 exon
GACAAGAATATCTTCATCAATCTGCAGATAACAATATAGTACTTTATAATATTGAAACAGGACAATCATATACCATTTTGAGTAATAGAACCATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000078098-FAP:NM_004460:3
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:
NO
A:
NA
C2:
PF0093016=DPPIV_N=PU(3.5=40.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
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)