BtaINT0060662 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008140 | FAP
Description
Bos taurus fibroblast activation protein, alpha (FAP), mRNA. [Source:RefSeq mRNA;Acc:NM_001098001]
Coordinates
chr2:34319319-34321913:+
Coord C1 exon
chr2:34319319-34319393
Coord A exon
chr2:34319394-34321860
Coord C2 exon
chr2:34321861-34321913
Length
2467 bp
Sequences
Splice sites
5' ss Seq
AAGGTATTG
5' ss Score
7.76
3' ss Seq
GCCTCTTTTCTTCCTGACAGCTT
3' ss Score
11.15
Exon sequences
Seq C1 exon
AAAAGTGTGAATGCTTCAAATTATGGTTTATCACCTGATCGGCAATTTGCATACCTAGAAAGTGATTATTCAAAG
Seq A exon
GTATTGGCAATTTAATTTGGATTTGTCTGATTACATCTCCTATTAACCCACAGACTGGTCTATAAAAGAGGAAACAAAAGTCTCTTTATCTCTAAATATTTGAGAAATTAATGCAATTCTAGTTGAATCCCCAAAGCATAACAGTAACATACAAGTAATTCAGAATTTGGTATTCTTGTCTGGCTATCATCAAGTATTAAAAATTACTTTCATGCTGAGGGAAAAATTTATTTTGGGGGCACTGATATTCATCATAAAAATGTTATTTGCCATCATAAATCACTAGTCAATTCTCACTTATTTTAACCTTTTAAATATTTATTATTATTGAAAATGGAACTATCACAGTGTATCTTATTTAACTCACTTGCTCAAGCACAATAATATACAGTCAGTGGTTAGACCACAGTTTAATCTGTGTCTTTGAAAGCCTAGTGTAGTGTAGCAGTATCCATAGCTGGACTGTTTAGCCTTACTTAATTTCCCCTTCCTGGATGAGGTTGTGGAGGGAAGATAATCAACTTATTTTTTTCTACTTTTACTGGCAAAAGAATTTATTTCAAATTCAACTTCTAATAATTACTTTGAGATCAAGAACCTTTTGTTTTAACTGCCATTTTTCAAATTTAGTTGAGATGCAAAACTCCCTCAGTGCAGAGAATGAAAAGTCAAGCTTGCCCCTCCTCCACTGTTCTGACAGCTGATTATTTTCCAGTGGACCAGGTCTTGGTCACCTGCAATCTTCAGAAAGACATGTTTCAACATGCTGGAGTTTCTTTGCCAAAAGGTTGAAAACCCTTTAAGAAATAAAATCCAAAATAATACTTGATTTGTTCACTTAACTACAGTACAGATGCATGTCAGGAAGCAACAGTTAGAACTGGACATGGAACAACAGACTGGTTCCAAATAGGAAAAGGAATACGTCAAGGCTGTATATTGTCACCCTGCTCATTTAACTTACATGCAGAGTTCATCATGAGAAACACTGGGCTGGAAGAAGCACAAGCTGGAATCAAGAGTGCTGGGAGAAATATCAATAACCTCAGATATGCATATGATATGACCCTTATGGCAGGAGGCAAAAAACTAAAAAACCTCTTGATGAAAGTGAAAGAGGAGAATGAAAAAGTTGGCTTAAAACTCAACATTCAAAAAACTAAGATCGTGGCATCTGGTCCCATCACTTCATGGCAAATAGATGGGGAAACAATGGAAACAGTGACAGACTCCAAAATCACTGCAGATGGTGATTGCAGCCATGAAATTAAAAGATGCTTGCTCCTTGGAAGAAAAGTTATGACCAATCTAGATAGCATATTAAAAAGCAGAGACATTATTTCGCCAACAAGGTCCATGTAGTCAAAGCTATAGTTTTTCCAGTCATCATGTATGGATGTGAGAGTTAAACTATAAAGAAAGTTGAGTGCCGAAGAATTGATGCTTTTGAACTGTGGTGTTGGAGAAGACTCTTGAGAGTCCCTTGGACTACAAGGAGATCCAACCAGTCATTCCTAAAGGAAATCAGTCCTGAATATTCATAGGAAGGACTGATGCTGAAGCTGAAACTCCAATACTTTGGCCACCTGATATGAAGAACTGACTCATTTGAAAGGACACTGATGCTGGAAAAGACTGAAGGTGGCAGGAGAAGAGGACCACAGAGGATGAGATGGTTGGCTGGCATCACTGACTCAATGGACATGAGTTTGAGTAAACTCTGGGAGTTGGTGGTGGCCAGGAAGGCCTGGTGTGCTGCAGTCCATGGGGTCAGACACGACTGAGAAACTGAACTGAACAGTACAGATAAACAATGAAAAAAGAGCAGTTTTCTTTTTTTCCCGGAGGAATTACAGCTGTATATCTTTTATTTATTTTTTCAATATCTATTATTAAAAAAAAAACTATGCTCAAAAAAGCAAGCATTTTACAAGAAACTATATGATGTTTAAAAATAAAATAAAATTTAAAAAGAATAAATAAATAAAGTGAGTTTGATACATTGATGACAAAAAAAAAAAAGAAACTATATGATGGAGAAAATTAGCTTTACCCAGTTTTATGGGATATTATAATTATTACTCAGGTACAGGGTAATCCTTACAGGACTTGGGAATTGTAGTGATTTTACTTCAATCAAGGTTAAGTAGAAAGGGAACAAATTTAGAATACAGAGTGTTAGAGAAAAGCTTTTTATATTAAGAAATGTCTTTGGATATACTTTTTATGGAGTAAGGGTTGAATCACTGCTGAGATTAGTTCTGGAATTTGGATGAACAGCACAGAAGTCTACAGTAAAACTCTTTAAATGACACTCATTTGGAATTGAAACATCTCTTTCCTAGTGCTTTGTGAAAACAGTTCTTTTATAATTCTGAACCTTGAACTGAGTGATCTATGATTCTACCTTATTGACCTGAGCCTCTTGTGAATCATAATTTGTCTTTGCCTCTTTTCTTCCTGACAG
Seq C2 exon
CTTTGGAGATACTCTTACACAGCAACATATCACATCTACGACCTTACAAACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008140:ENSBTAT00000010702:6
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=PU(31.8=56.0)
A:
NA
C2:
PF0093016=DPPIV_N=FE(38.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
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]