BtaINT0109837 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13990166-13991296:-
Coord C1 exon
chr3:13991171-13991296
Coord A exon
chr3:13990295-13991170
Coord C2 exon
chr3:13990166-13990294
Length
876 bp
Sequences
Splice sites
5' ss Seq
AACGTACGT
5' ss Score
9.51
3' ss Seq
TCCAACCTTGTCTCCTGCAGCAT
3' ss Score
9.8
Exon sequences
Seq C1 exon
CCTGTCAGCCTGGCCGCTACGGCAAACGCTGTGTGCCCTGCAAGTGTGCCAACCATTCCTCCTGTCACCCTTCGAATGGGACCTGCTACTGCCTGGCTGGCTGGACCGGCCCTGACTGCTCTCAAC
Seq A exon
GTACGTGGTGGCCCGTGTGTCTGAGTGCATGCCGAGGGGGTGGGCTGAGGACCGAGAGGCTTCCATTCCCCTGATCTGGACCCGCCTTGATTCAGCCGTTGATGTAAACACAATAAGCAAATATGTATAGGGCATCACCTACATGCTGGGTATTGTCCTAGATGCTCAGGATGCAGCAGTGAACGGGTCAGGGAAAAAAGTTCCCTGCCCTTCTGCATGGGAAAAATGGGAAAACCATAAACTCAGTTATGGACTTTTTTTTTTTGCATCGCCAATTTATTTTTTATTTATTTATAATGGCCTCTTTCCCACATAAACATACGAAGAACATCATGGAAAAGATTAGTCCAAAAAACTGAATAAAGCAAATTTTGAAAAGGGAAAATGAGAAGCAGTTACCATGAAAAAGACGGGCAGGGTAGAGGGAAGTGATCTTGGAGATGACTTTTTCCATAGAATTTGGTAACTACTATTAGATTACCTGCTAGTATCATATACACAAAAATTATGCCTTGAATAGTGTGAGCATTTACTTCTCTTTTATATTAAAAAAAAAAAAAAAAAGAAGAAGCCCAGAGCTAAGTGATGTAGGGTAGTTTGGAAGCCTTTGGTTGTCTGGCCCTGATCACATTATTTTGAAAGGCTGTTAGACAGGCAGGTGCAGAGGTTAGGCAGGCAGCTGGGCACGTGGATCTGAAATTCAGGCTAGAGACACGGCTGCAGATGAGTCATCAGTGTGTAGATACCGTTCGAAGCCTTGGTGTCTCTGGGGAGACCAAAGCTGAGTGGAAGGCTTCAGCGACGCTGGGGACTGAGAATTCACCCAGGAGACGCTGGCCTTGCCCGCCAGACAGGCTCCAACCTTGTCTCCTGCAG
Seq C2 exon
CATGCCCTTTGGGACACTGGGGAGCCAACTGTGCCCAGCTCTGCCAGTGTCGCCATGGTGGGACCTGCCACCCCCAGGATGGGAGCTGTTTCTGTCCCCCAGGCTGGACCGGACATCTCTGCTTGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:16
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:
PF0005319=Laminin_EGF=PU(67.4=67.4)
A:
NA
C2:
PF0005319=Laminin_EGF=PD(30.2=29.5)
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:
CTGTCAGCCTGGCCGCTA
R:
CTTCCAAGCAGAGATGTCCGG
Band lengths:
254-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]