RnoINT0059123 @ rn6
Intron Retention
Gene
ENSRNOG00000005679 | Fap
Description
fibroblast activation protein, alpha [Source:RGD Symbol;Acc:621253]
Coordinates
chr3:48469717-48470354:-
Coord C1 exon
chr3:48470290-48470354
Coord A exon
chr3:48469790-48470289
Coord C2 exon
chr3:48469717-48469789
Length
500 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TAATTTTTCTCCTTTTCCAGAAT
3' ss Score
9.73
Exon sequences
Seq C1 exon
CCTCTATCTACACGGAGAGATTCATGGGCCTCCCAACAAAGGATGATAATCTTGAACACTATAAA
Seq A exon
GTAAGCATTTCCCATGGTATCTAGGTCACTAATTTATTTCGAACGTGTTAAGTAATTTTAAAACAGTGATTCAGAGTTTGCAAATTCAGTTCTGGATCCCCAGGCAAAAATTATGATCTTTTGTTAACTGGAAAGCATCACTAGAAAGAGAGTTTACTCTTTGGGGATTCTATTCTCTCTCCTATCTCCTCTCCCCTAACCTCCCTTTTCTCATCTCTCCTCCCCACCCCCAACGCCTACACAGCTTGAGTGGGTATCATTTATGCCTAAGGTCTCACTCATATGTAACATATGACACATAAACTTTCAGCTTCTCAAAGTAAGAATCAGATGGGAGTAATGCAAATGCCGATGAAAATGTGTTGCTCTGACTCTTAAATATTTATCAACCAAAGCAATACATAATTTCAGTATTGGTGCGAAGTCCATTGCACAATGATTTAGCTAGTTTTCTATTAGAACTTGCAGCAACTAAAATGTTAATTTTTCTCCTTTTCCAG
Seq C2 exon
AATTCAACTGTGATGGCAAGAGCAGAATATTTCAGAAATGTAGACTATCTTCTCATCCACGGAACAGCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005679:ENSRNOT00000008148:23
Average complexity
IR
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:
PF0032616=Peptidase_S9=FE(10.1=100)
A:
NA
C2:
PF0032616=Peptidase_S9=FE(11.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
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]