RnoINT0059115 @ rn6
Intron Retention
Gene
ENSRNOG00000005679 | Fap
Description
fibroblast activation protein, alpha [Source:RGD Symbol;Acc:621253]
Coordinates
chr3:48490543-48494551:-
Coord C1 exon
chr3:48494427-48494551
Coord A exon
chr3:48490591-48494426
Coord C2 exon
chr3:48490543-48490590
Length
3836 bp
Sequences
Splice sites
5' ss Seq
ACGGTAGGT
5' ss Score
10.15
3' ss Seq
TGTTTCTGTTCTGCCCACAGGCC
3' ss Score
13
Exon sequences
Seq C1 exon
AATTAGCATTGGAAACTCTCCTCCGAGTAAGAAGTGTGTTACTTGCCATCTAAGGAAAGAAAGGTGCCAATATTACACAGCAAGTTTCAGCTACAAAGCCAAATACTATGCACTCATCTGCTACG
Seq A exon
GTAGGTGATGGACCTGACGTAAGCATGGCCATCCCCGTTGCCTCTGTCATCAGCCTTGTCACTCCATCAAATTACTTACAGTCTTTTCCTTTTCTGGGAACTTGTTATATATAAGAGTCTTATTGAATGCCCAAGACTTGTGGAAGGAAAAGAATAGGAAGGTGTTAGTCTCTCTTTTGCATTTGAGGAAACTGAGTGATCAGCTAAGGTGTATGCCTCTGTTAGGCGAGAGCTAGGGCTGCAGCAGAGCTGTCTGTCTCTAGTCCGCATCACTGAGGTGTTACATACAGACACTATCTACCAGATTAGCACAGAAGGAGAGATATCAAAACAGAATTGTTCTCTCTGAAAACGTTGTTGTTCTGCTTTGACCTTATTCGTGGGGAAAACATCAAGAGCCATGGCCAGAGACCTGAAGTCTATGCAATGAAGACAGATTATTCATCCAAACCTAGTTTCAATGAACGCAAAAAACAAATCTTTGTCATCCAATCCTTCCTTAAAAATCGGAAGATATTTTGAGTAACTCATTCAAATATTAACAAAGGAACCACGGTGGCACGACCCAGTAAGAATTTTCTGGTTGTTTAGACCGTGGTTTTATTCACAAATGATCTGCTATGCAGATTAGTTCATTTCGTGCACACGTTATCTTGAATAAATAATGAGGAATACAGGTTAAAATAAGGCTACAAACCAATGAAATCAGTGACACCTGGGGGGTCAGTAGAATCTCCAGTTCTATAATTATTGCCTTCTCACCCTAGTTAGCCCCAGTTAGAGTATGGGTAGCATACTGGGCAGGAAATTTAACAAAGTGTGCACCACCCTCCTATTTCTGATATCAACGACTCTGGCTCAGGTAGGTGACTTAGACAACAATGGAGCCGTTCATCCTTTGACCTCTCTACTCAGATGCAGAGGCCTCCTGTGGGTTTCCCATGACATGAACAAAGATTAAGGCCATCATGATATCACTTCCCTTAGTCCAGCAACCCGTCTCTAGAACTACGGCCACAACTCATTTGACTGTGTAGACATGAATAAGCATTTTAACCCGAATGCTCCCATCAATATGGCATAAGATGTCAGTTTGAAACAACACTTTCGTAAAATGTTTGGTCAGTGAAATCTTTGAAATGTCATGAGATTGTTGTTCGTGGCCATATGTGCTGACTGTGGTTATGGCATTTAAAGGTAAACATTAAATGTCCCTCCCAAGTTATATGCAACATTTCCCAACCCAAACTCTATATTTACGTAACATGTATCAAAAGCTTACATGTCAGGCATACAGCATCCTTGAACTAAGGATGCCTAGGCATCTGTTTATCTCTTTCTCTCCCCTGGAAGGCTGGGCGGGGCTGTTCTTTTTAGTCATTCTATTTGTGACTGTAAGAAGAGTGTCTAATAGAGTACACAGAGGCATTGCGAAGCTTCGAAAGAATTGCTGGCATCTAAAAGCTCTACCAAGATAGTTGTTTCTTGCTGTTCCATTGGCTGATAAAGGCACTAGGGTCACATTAACATACATGCATTTCTACTGCTACATACTCTATGTTTGAGTAATGCTATAGCTCTCTGGAAAAGCATGCTAACACATTTCATATCGCCTCGCTCTAGTGTCTACTTGAGGCTAAATGTTCCCTGAAGTATAGATAAGGAACCAAAGACTAAGCCCTCATCAAAAGTTGGTGGGAGAGTCCTTTCTAGAACTGGAATCGCCTGACTTTTCTACCACTCACCCTTCCTCGGCAGTATGGTAATTTCCCATTTAGCAAAAAATACACTGTGTGGGAAGCATCACATCGTCTGGTGTTTTTGAAGCTCCAGTAAAATGAGTCACTCCGCCATCATAGGAAAAACCTTGAAATCTTTCCCTTTAGGGGTAAGAGTAACGCCTCGTTATGTAACTTTCAAACTCTCCAAAGGACTGTTGAGCCCTGGAAGACAAGAATGCAGGTAAAAATCATATCCGTAACACAGATAGAACAAAAACAGTACAGAAATGAGAATTTTAGGGACCGATGCTGCATCTCTAGGGCCATGTCCTCATCCTGCTGTGTCATGGGCACTCTGTCGTTACTTTGTTTCTTAATTTAAGATAAGAAGAGATGCAGGTTTCCACTACTAAGAACATTTACCTATGAAAGCCCATATGGTGGATGTTAATAGATTAAAGCCTAGAGACTTAAACAGCCTTGTCTCCTTAGATTCTGGCCCCAAATGTGAAATGCATGTGTGCCCCTTTTGAAAACTTTGAGGAAACATTGACTCTGAGGAAAAGCTTTTCACTTGCAGTCTCTAAACACTCTCAAGTGTCCCAGACGGGCTGCTGGTTTCTGAGAAAGCCAAAGAAGGATCACTTTCTTCTATCCCCAGGTCATAATAAGAAGTAAGGCAGGAAATAAAAATATTAGCTTTATTATTTATAAAGGCTAGTTGGAAAATGTGGTGAAGGGAAGTTGTGTGCCTTCCAACATTGCAGCCCACAAGGACGTTTTTACAAACGTGGGTACCCTTATACTTGCAGGATTTGCCCATGGGGCTTGGCACTTAAAGCTCTAAGGAATAAATCAGAAGAATGTTTTCCACAGGGAGAAGGCTGCCAGGAGCAAGCCAGAAAGCCCCATTCATAAGCAGTTCTCCTTAGAACGCTGAGAAGTCCTTCTTCTGCTTTATTTGGGTCCAATGGCACAATTCTTGCAGGGCTCCCTGGAGGTAGAAGAAAATATTAGGAATGGCAAAAGCATCTATCCCAACCTCTATACATGTTGCCTTTTACTGCACTGAGTCCCTTGGTCAATGTACTCTTTAAAAGTAGTCTGGGTATTAGATTATTCTGTATTTTAGACGAGTAATGGCATTTGTTTATCTATGGACACCTCATCAAAACAGCCAGTTTCTGAACGTTGTGATACATTGTAGGCAGTGCCCTTCTGGATAGAGAGCAGCCATCTTGAGGACTAATTTATCAATCACTCATTACAAAAGGTGGTGGTAGCTGCCGACAGTTTACGTCCCAAGTCCTCAAGTCTGTGGAGGTTGATGTAGTAACAGACAGCACTGTGCTCCATGCTGGAGGATAAAATCCTATCTGTTGCCCCACTGTGACAATTCTTCAGACTCTCTAGCTTCTTAGCTAGAATCTCTGTGACAAACCCTACACCCCACCAGCCCTCATGACCCCATCCTTCCTTCTTTAATCCCTCAAGTAACATCTCAGTACCACCTTCCTCCTACCATAACTTACTAACCCCCGAAACATGACTTAAAATAGTGTATTGGAAAAGGAAGCCTTAGATAAAAATTTATCTGAGCATGTCATTGGATAAAAGATGTTAGCTTTTATCCACCAAAACAAACCGAACATTCGACAAATGAGACACAATCTAGGTACTGGTGAAGGTTACTTAAAAATAAACATACAGCTAGAACTTGTCCAGTGAGTGTGAGAACTTCCTAGAAGGCAGCCTGCAGCTTCTGAGGCCTTTGTGCATGGCTAATTAGGTTCTAACCATGAAGGTTCACTCCTGGAAAAGCTACGGTGCAGGTAAGGCTTCTCGCACTTCTGTTCTTTCATTGGGCTTTGACCTGATATGTGTGGTTTAAATGGAACTTAAAAGGCCTGCTTCTCTAAGGTAAAACAAAACAAAACAAAACAAAACAAAACAAAAACAAAAACAAAAACAAAAAAAAACAATAGTACATAAGGACAGCAAAGAGTTAAAAGATGTGTTTTTTGGCATGAGTCATAGATACTACACACAGTCCTGGCTGACAGTGAACTGTTATTCCTAACCGTAGTCACTTTCTTGTTTCTGTTCTGCCCACAG
Seq C2 exon
GCCCTGGCCTCCCGATTTCCACCCTCCATGATGGCCGCACAGACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000005679:ENSRNOT00000008148:16
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(11.4=100)
A:
NA
C2:
PF0093016=DPPIV_N=PD(1.4=29.4)
Main Inclusion Isoform:
NA
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]