BtaINT0060656 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008140 | FAP
Description
Bos taurus fibroblast activation protein, alpha (FAP), mRNA. [Source:RefSeq mRNA;Acc:NM_001098001]
Coordinates
chr2:34374042-34374661:+
Coord C1 exon
chr2:34374042-34374106
Coord A exon
chr2:34374107-34374588
Coord C2 exon
chr2:34374589-34374661
Length
482 bp
Sequences
Splice sites
5' ss Seq
AAAGTAAGC
5' ss Score
7.31
3' ss Seq
TAATTTTTCCCCTTTTCCAGAAT
3' ss Score
9.37
Exon sequences
Seq C1 exon
CATCTATCTACACAGAGCGATTCATGGGCCTCCCAACAAAGGATGATAATCTCAAGCACTATAAA
Seq A exon
GTAAGCATTTTCTGTTTTATATATATATGAAGTATATATAATAATATATTTCATATGTGCTAAATAATTGTAAAGCAGTCATTCAGAGTTTACACTGCTGCTGGGTCCACAAGCAAATATGATGATCTTTTGTCAGCTGTAAAACACCTTACTAGAAGGAATTAACTCCCTTTGGATTCTACTTTTTCTTTCCTCATCCTCCTCCCCACCCCCAACCCCTACACAGCTTGAGCGGGCATCATTTATGCCTAAGGTCTCACTCATATGTAACATATGACACATAAACTTTCAGTTTTTCAAACTAAGAATCAGATGGAAGTAATGCAAATGATGATGAAAATGTGTTGCTCTGACTCTTAAATATTTATCAACCAAAGCAATACATAATTTCAGTATTGGTGCTAAGTCCATTGCACAATGATTTAGCTAGTTTTCTATTAGAACTTGCAGCAACTAAAATGTTAATTTTTCCCCTTTTCCAG
Seq C2 exon
AATTCAACTGTGATGGCAAGAGCAGAATATTTCAGAAATGTAGACTATCTTCTCATCCACGGAACAGCAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008140:ENSBTAT00000010702:24
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(11.6=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]