HsaINT0061945 @ hg19
Intron Retention
Gene
ENSG00000078098 | FAP
Description
fibroblast activation protein, alpha [Source:HGNC Symbol;Acc:3590]
Coordinates
chr2:163070448-163072511:-
Coord C1 exon
chr2:163072408-163072511
Coord A exon
chr2:163070584-163072407
Coord C2 exon
chr2:163070448-163070583
Length
1824 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGTT
5' ss Score
6.44
3' ss Seq
TGTTTCTATTTTATTTGCAGTGA
3' ss Score
8.35
Exon sequences
Seq C1 exon
GCTGGAGCTAAGAATCCCGTTGTTCGGATATTTATTATCGATACCACTTACCCTGCGTATGTAGGTCCCCAGGAAGTGCCTGTTCCAGCAATGATAGCCTCAAG
Seq A exon
GTAGTTCATCTCAGATCCCTCCCATCTTTCTATCCTATATTCTAGTGCATTTATGCTGTGCATGCTAGAAGCAAAAACAAATAAGTAGATAAGAGTTGCACACAAAGCTAAAGACATACAAAATTAAAATTGACAAATAAGTTTCCTTAATTGGTTTTTCAAAATTAGCCCTTTTACACATATAAACGTGACCTCGGTGATCAATCTCAGTGAAACTTGCCTCAGATGTACAGATGTGAACTTGGGACCAACAAGCAGACAGTAAAATTCATGTACGTCCTCACCCTGGCTTCTTTCAAGTTTGGCTGACTTTATCTCAAGCCAGGGTTTGTGGATCTATGTGGATCACATGTGTATGATAAATAAGAGAAGATAAGCTGACCCTCTCCAAAAATTAGCATTTTTCACAATGAAGCAGGCTATTCTCATTTATCTGGTTTTAGAATTGTCTAGAGATGAACTGTAGGCAGGCAGGGACGTGAAGGATTCTCACTTCCCCAGCATGATGCCCTATGTCTGATTGTCTGACTAGTCCAGAATACAGTGACCTTCAGTCAGTCCTCTGTGGTCTTTCTGGTTGAAGTGGCTAAGGGGAAGAGGTGCCCAGGCCCTGCCTGTTGGGCTTTCTTAACAGTTCCCCATGCCTAGCGGGCCAATCTTGGGTCTTCCCCTTCTGCTTCACGAAGAAGAGCCAAGCTCAAATGACTGATCACTAATAGGGAAAAGAACCCCATGAGAGGCTTCTACTGGGCCTTGCTGAGTCCACTCTTGTATAATCAAACATGACTTTATATTTTTGAATTATCTGCTATTCCCCACCCTGATCGAGTCGATGAAAACTTGACTCAATACATCATTTTTTTTTAAAGTGTCATTCTCCACAGGTGGCAGATGAAATGAGCATAACACAAGGAGTCCAGAGGCTTGTTTGAACAGCTGTAAAATACTAACAATAAAATAGTAGTAGCAAACGTATTCTGAACACTCATCATGTAGCAGACATAGTTCTTAAGCGGTTTAAGCACGCGGCCAATCTTTACAGCACTCTTTAAAATAGGTAATATTATTATTCTGATTTTATATAAAAATAGAAGAGTTAAGTAACTGGCCTAAAGGTATATAACTATTAGGACATAAAGCCAGGATTTGAGCCTGAGGTCCCTTCCAGCTTTGTGATTTCCTTTACATTAATTTTCCAGAAGTTTGTGATTCATTTTATGTTGATGTTCTCTACCTACTAGTTCATGCTCAGAGTCATGGAATCATCGTTGCCATTCACTGACATCTAGTATGTGCCAAACATTATTTGAGTTATTTCGCATACATCATCTGTGATTTATTCCACAAGTCTGAATTTCAATACCTGACCACAGTCACAGCTAAAACTTAGCTTCCAACATGAATCTGCTGAGAGACAAAGATTATCCTTTTATCACACTTGTCTCTCTCTCAACTAATTATAAGGTGAAAAATTGAGTTTACTTGTGCAAAATGCAAGTTTAATGCTTTTTTTCCCCTCTAGATTGATCAGTAGCTTTGACATTATGTTTTAAATTCTTTTCTAAAATGTTAAAATCCAGAAACGGGGAGAAAACTCACATATGAAATGATTTCATTAGATGAAGAAACTCTCATAGATATTTTTTTAAGTAAGTAGAGATATTTAAACTTTCTCTCCAGAGAAAGGAATGTTTTGTCTTGCTTACCTATTAAATAAGTAATGTATAATAATGACATATATCCTTTAGAAAACAAAAATTAAGAAATTATTTGTGTGTGAAACTGGTTTATGGTTGTGACTACCTGTTTCTATTTTATTTGCAG
Seq C2 exon
TGATTATTATTTCAGTTGGCTCACGTGGGTTACTGATGAACGAGTATGTTTGCAGTGGCTAAAAAGAGTCCAGAATGTTTCGGTCCTGTCTATATGTGACTTCAGGGAAGACTGGCAGACATGGGATTGTCCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000078098-FAP:NM_004460:10
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:
PF0093016=DPPIV_N=FE(9.2=100)
A:
NA
C2:
PF0093016=DPPIV_N=FE(12.2=100)
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:
GCTGGAGCTAAGAATCCCGTT
R:
ACAATCCCATGTCTGCCAGTC
Band lengths:
234-2058
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)