RnoINT0059111 @ rn6
Intron Retention
Gene
ENSRNOG00000005679 | Fap
Description
fibroblast activation protein, alpha [Source:RGD Symbol;Acc:621253]
Coordinates
chr3:48499515-48503575:-
Coord C1 exon
chr3:48503531-48503575
Coord A exon
chr3:48499620-48503530
Coord C2 exon
chr3:48499515-48499619
Length
3911 bp
Sequences
Splice sites
5' ss Seq
GGAGTATGA
5' ss Score
0.37
3' ss Seq
CCTCTGTTCATTTCTTTCAGTTC
3' ss Score
10.45
Exon sequences
Seq C1 exon
AACCAGGAGCATATTGAAGAAAGCAGAACAGGATGGGCTGGTGGA
Seq A exon
GTATGATTTTTCTATCTTTTCGTTTATTTTAATGGCACCCAGCATATTCAGTGAACTGACTTTCAGTGTGTGCATTCCACCTTGCGTGCCGTGCCTAGGTATCAAACAGGGAAATGAATACAAACCACATTATGATTTGTGATTAATTGTGTCTGGAATCTTTAATTGGAGTTATTTAGTGATATATGAGGTTCGTTTCCTATAAAAATGATATTGTTTAAGGGAACCAATTTTATCTTGTCTCCTGTATTGATTATTACAAGAGAAGTTTGAGAATAAGTGAACGTTGTCCGGAAAATACCACATGTCTCAAAGTACATCAAGCAAGCATTTGCATCAGGGTGGCTGCTGGGCTGAGATTTAGACACACTGTACAAAAGGGACACATGGGTATTAATTTTAATCTTTGGAGATGTATTTAGTAACGAAACTTCTAAATCTTAGAAAAAAGAATATAATGTATACTTCGTAGTGAAAACTTCTGGGAATCATTCCTCATCCTCTGAAGGTACCTGCTTTATTAGACAGCTCTCCTGACTAATGGCAATGAAATTAGCTCGAGAAAACATAGACTTATGTATATGATTAATAAACCCATTCAGGTAATTGTGTGGGTGCGTGCATGTGCATGCACACGCATGTGTGTAGTTCTTGGGATCAACAAAGGCCACACATGCTAGACAAGTATCATAAGCTACATTCCCAGTCCTTGTTTAGTTTTTGGGTCTTTAGACAAATTTAAAAAGCTGGTCATAATAGTATATATTAAATGGTAGTTTGTTTTTGTTTTTTTAAAGTGGTTTCCTTAGAATACATCCAAGATGTTTAAACTGCAAAAGACACAAGAAATAAACTGGAAATATTTTCCGGTGAATAATATACAAACCAAAAGAACCCAAATTTTAGTTCTTTACGTTTAGAAATCAGCTCTGAAGTCATAATGCTTAGACTACAGTTATAGCAAAACGCTCATCAGCTGTTTGAGCAATGCTGCGGACCTCCTTGGCCTGCGCTAAAACCTTTGATTAAAAACAGAACATGAGTTTTATGGGTCGGAGTCTGAAAGCCTGTGCTTCTGTCTAATCATTAGCTCAGGTCAGGAACCATCTTTTGACATTTAGTGAGGATGGTAAAAATCAAAAACTGTGAGAAGTAACCTTGCTTCCTAGGTGAGATTATTTTAAATGGCTTTGCACTTCACTCGGAGATAAGCAATTTATCAGAAAAATCTAAGCGTGATAAGGAAGCCAGGGCAGGGCCCTGTTCCAACTGAGGTCACTGCAGCTGAATGTCTTATCTAGTGTCCAGGTGTGACTTGCTGCAAGGAGCACTTAACTCAGAATGCATTATGGCCCCAGCTCTGACAACACCATCACGGAAATATTTCACACCCTCTTTACCTGACCTAAGTTACCTGCTCATTGGCAGCAACTGTCTTCCATGTGCGCGGAGAAAGGGAAGGAGATAACAGCCTTTGGCCAGCACAAAGATCCTTCCTGTTCGCCTGGCCCTAGTAGCTTAAAACAGAACAGTCTGTCCTGTTAATTTTTTAGTTTCAGTGTAGATTAAATTGTAAGCTTTACTCGGAATACTATCTTTTTAGAAGTCCTTTAATTAATTCACTTAGGTATGCGAGGAATAACTGTTGTTGTTGCTGCTACTGTTGTTGTTGTTGTTGTTGTTGTTGTTAAAGGCAGGCTTATTGGGAAGCTGCTCTCAGGTGGGTGAGTTTACTGGCCCCAAGGACCAAGGCCAGAGAAGACACCATGGGGAAAGAGGAGGTAGGGGAGGGACAGAGAAAGAGAGAAAGGGGTCTGCGCACAGACGACAGTGAAGAGAAGAAGCGAGGAATAACTCTTCACTGTATTACATTAAAATGGTCTGTGGCCTGGGTTCCATTGAGTGACTAAATCATGCAGAACTAATTGTTTTTCACAGTACACAGTATGAGGGAGTAAAGAGGGTTCTTGTGGTAAGGCTGCTATACCTTGCTTGAGAGCAAACCTTTCTGAAATGAAGAAGCAGCTTTGACAAAGGCCCACACTAGTGCAGTGCATCTACCAAATACCCAGTCTGAAGATGCCAAGTCATCTGGAGTAGCTCCTATGACGAGCGATGGTGATGGACACACAGCAGTCTCACCTCACTCAATTTCCCACTCTGTTACAATGTATTAACACACACACACACACACACACACACATTCATATTCTTGAGCAAAGATTATTCGTGGATCAGGCAGTGTCCAGGATATAGAATCCTTTCCTATGTCTCTCCATGCTGCCTTTTGTCTTTTCTTTTATTAGAACTGTGGTCCTTGGATCTAGAGTTAACGCTAATCTAGTAGGACCACACCTTCCATTTTTATCACAATTACATCTTTAAATTTTCCATCCAGGTGGAAATAAATTTGGAGAAAAATTAGTTGCCCAGTAAAAATATAAGAGATACATTGCATTTTAACAACACATGATCACAACATAAGAGAAAAAATTTTTATCAAAAAAATTTCCAGCTTTAGATCACGCTCAGATTTGATCATTAAATAATTCTATAGCAATTCTCCCTACAACCTGTTTGCTCAAAAATTGATCTCAGAAAAGATATTAAAAGGAACAATGTTTGTAGCTAGAAAATACTGGTGGGGGTGGGTGTTTATTGTTTGCTTCAGTTGTGAAATAACAGAACAGATTGGCCTACTGTTCCATGGGACGTAAACCAGATAGAGAGACCTGGTTTTAAGTTACTCCTGCATGATATAAAGGAGCTCTACTCTCATGAGATTTTCCTCAGGAAGGTGTCATCATTTCATCAGAGGACAACCTGTAAGAATAGCCATAAAGGTAGAGCAAGTCTTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTTTACAATGGAGACAAATTACAATATGGATGAAAATTTGGTATGAGGCATTTTCAGAATTTCAGTTGTCTGCTAGTTAGGATATTGAGTTGCCACTAGTTCTGTTCCAGGACACTGGAGTGACTGGTAGTTGAATGTAATTAGATGGTTCCCAGCAGAGAGTACCGAATTCCTCAAACTGAGGTTACAAGGCCTTTCTGTTTCCTGAGCTCAGAGCTAAGATCACCCTACTCCCTAACCGTGCCTCACTGTTCCTCTCAAGCATGCTACCAAAATCTGTGGCTTCCAGACCATCATATTTGAATCGTTCAAATGTCTTTATTAAGCTGTTGCCATTAGGAACTTAGCGTTAGACAATTCAAAAATCTAACATGCTTCTGGGGCTGGAGGGATGACTCAGTGGTTCAAAGAACTGGCTGCTCTTTTAGAGAACTGGGTTTAATCCCCACCATACACATGGTGGTCTACAACTGTCTGTAACTCCAGTTCCAGGGGACCTGACCACCTCACCCAGACGTACATACAGGCAAAAGACCAGTGCATAAAAAAATAATAATTAATAAATTATTTTTTTAAAAAGAATTATACTTTGATCAAATGCCCCATTTTAAAGTTTGGTTTGATTAAATGTCAACATTTGTTTATTAGTCCTGGAACTCAATTCCAAACCATATTACCTTAGGGCAGAAATTTATTAAATTAGATGTGGTAAAGCTTGGTCTCCAGGGTTGATAGGGTAGAGGTGTGAGATAGCAAACACCAGTCGGCACCTGTGAGCTCCTATTAGAGTCACTGGAACAGCCATCCTTTGAAAACCTGGAATTTCAGGAGTCGGTGACAGGTGATAGGAGAGGAGACTCACCATGAGTCTCCAAGCATCATATGTGACTTGCAAAAATACCTGTGGCTTTCATTCAGTTTGTCCTTTAGATATAACCTCTGTTCATTTCTTTCAG
Seq C2 exon
TTCTTTGTTTCCACACCAGCTTTTAGCCAGGATGCCGCTTCATACTACAAAATATTTAGCGACAAGGATGGTTACAAACATATTCACTACATCAAAGACACTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005679:ENSRNOT00000008148:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.016 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0093016=DPPIV_N=FE(3.8=100)
A:
NA
C2:
PF0093016=DPPIV_N=FE(9.2=100)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
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]