RnoINT0059130 @ rn6
Intron Retention
Gene
ENSRNOG00000005679 | Fap
Description
fibroblast activation protein, alpha [Source:RGD Symbol;Acc:621253]
Coordinates
chr3:48512022-48512935:-
Coord C1 exon
chr3:48512863-48512935
Coord A exon
chr3:48512143-48512862
Coord C2 exon
chr3:48512022-48512142
Length
720 bp
Sequences
Splice sites
5' ss Seq
TTAGTAAGT
5' ss Score
7.79
3' ss Seq
TAATTTTCTATCATTTCTAGGCA
3' ss Score
8.71
Exon sequences
Seq C1 exon
GGAATTTGTAAGAGGATACGAGCTCCCTCGTCCAATTCAGTATCTGTGCTGGTCTCCCGTTGGGAGTAAATTA
Seq A exon
GTAAGTGTTTAGATTATAGAAGTGTTTAATCATTTAAATCAAAGAGGAGCCATTTGTTTTGGCCTTTGTTAAATTTCCCTGCCTAAAAAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGACATTATGACTATTTCAGTGGCTAAAAACGGGAAGAGTTTGGATAAATTGAAACCCGTTTGAGAATTCCGCAAAATCTCAAGCTCATGGATAGACTTCTTTAAATATCGCAGTCAAAAACTTTATCCTTATACTCAGCCAGAATGCGTTGTGCCAGAAAACTCAGGAAAAATATGGTTTTCACAAGTTTCCCAGACTAGCTTCAGACAACATGAAATTTTGTCCAAGCTCTTATTTAAGGACTCTAAATAAAGATTAGATCTGGCTAGCTATTAATATTCAGGGGTTTATTTGACTACCTGTCAATATGCACAATTACTTATTGAATAATAAAATAGCTATATTGTAATAGAATTTACTTCTTACTTGATGCAGATTTTTAAATCATAATTAATGTTAATGTAAATTATGTAAATTTTTAACCTATTAAATTGTTTTAGTTGTGAATCCTTTTGCATCTGAATTACCAGTCCTTAAAAAGATAGTAGGTAAATAATTAAATATACATTGTTACTGTATTCATTAGGAAAATTTCCCTTATTGAGTAATTTTCTATCATTTCTAG
Seq C2 exon
GCATATGTCTATCAAAACAATATTTATTTAAAACAAAGACCAGGAGATCCACCTTTTCAAATAACTTACACTGGAAGAGAAAATAGAATATTTAATGGAATTCCAGACTGGGTTTATGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005679:ENSRNOT00000008148:7
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:
PF0093016=DPPIV_N=FE(6.5=100)
A:
NA
C2:
PF0093016=DPPIV_N=FE(10.9=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTTGTAAGAGGATACGAGCTCCCT
R:
CTTCATAAACCCAGTCTGGAATTCCA
Band lengths:
190-910
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]