BtaINT0109845 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13986478-13988612:-
Coord C1 exon
chr3:13988364-13988612
Coord A exon
chr3:13987681-13988363
Coord C2 exon
chr3:13986478-13987680
Length
683 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGC
5' ss Score
8.27
3' ss Seq
TCTCCCCTCTCTGTCTCCAGACC
3' ss Score
12.71
Exon sequences
Seq C1 exon
GACCCATCTCTGAAGAGGGGCTGGGGGCCAGCATGGCTTCCCTGAGCAGTGAAAACCCCTATGCCACCATCCGGGACCTGCCCAGCCTGCTAGGGAGCCCCCGGGAGAGCAGCTACGTGGAGATGAAAGGCCCTTCCTCAGGGTCTCCCCCCAGGCAGCTTCCTCAGCTCCCGGACAGCCAGAGGCGGCGACACCCCCAGCCACAGAGAGACAGTGGTACCTATGAGCAGCCCAGCCCTCTGGTCCATG
Seq A exon
GTGAGCCCTCCTTTTCCACTGGAGCAGAGAGAACAGGGACGAGGGCAAAGAAAAGGGACGGGACAAGAGTGTAGAGGTGGCATGAAGTGGCAGCAAGAGCAAGGTCTTTGGCATCAGTTGTTGTTTAGTCGCTAAGTCGTGTCCGACTCTGCAAGCATGTGGACTGTAGCCACCAGGCTCCTCTGTCCATGGGATTTCCCAGGGAAGAATACTGGAGTGGGTTGTCATTTCCTTCTCTAGGGGATCTTCCCCACCCAGGGATAGAACCCACATCTCCTGCATTGGCAGGTAGATTCTTTACCACTGAGCTATTAGGAAAGCCTTCTTTGGGGCTCAGACTTACGCTCAAACCAAGGGTGATGTTTGGGAAGTCATACTGCCTCTTAGAGCCTGTAGGTGGCGGCACCCACCTCACAGCGCTAAGGATTTGAAATGGTGGTTTTGCATCACCTGAGTTGTAAACTTGATACCCAGAAAAGCTGGGAACAAGGCAGGTGACAGAGTGTCTTCCTATCTTGTGAGGTGGGCAGGTTGAGGTGGCCTCCCCGACTGGCAGCTGAGGAGCTGCGGATAGCCAGGCACCATTCATCGGCTTTGGGCAGGAGCTGCTGGAGAGGGGAGGAGGGTGGTGGGAGGGGAGGAGTCACCTCCGCCTCTCTGTCGTCTCCCCTCTCTGTCTCCAG
Seq C2 exon
ACCGAGACTCTGTGGGGTCCCAGCCCCCACTGCCCCCGGGCCTGCCTCCTGGACACTATGACTCCCCCAAGAACAGCCACATCCCTGTACACTACGACTTGCCTCCAGTTCGGCACCCCCCCTCACCCCCAGTTCGGCGCCAGGACCGCTGAGGAGCCGAGAGGGTTTGCAGAAGTCAGCGTACCTGTTCTTTGCTGCTTGAGGCTGAGGACAGAGCCCACTGTACCCTGCCAGGAGCAGGGAGGGGACTGGCCAGCCGTGAATATGAACATATTTAATAGAAGAAGTGAATGGAGAGGAGATGGGAGCCTGGCTCCCAGGTTCTATCATGGGAACACAGTCAGCAAGAAGTCTGTGTTCCTTTTCCCCAACCCAGTGCTTCCCAAGGCCCCCAGGGCCCTGTGTACATAAACTGCTGGGTTCAGTGTTGCTGGATAACTGATTTCAAATCAATGTAAAAAATGTATATTGGGTAACTTTTCTGTGCACTCCTGGCCTAGGCTCTGTGCGCGTGTGTGTGTAGGGGTGTGTGTTTGTATGTGTGTGTGTGTGTGGTTTCAGAGGGGTACCAGGCACTGATCCTGACTTGGGGCACTCACTATAATGGAGAGGCAGCCCAAACCCAGTTAACTCTAGAAATAGCCTGACTGGCATCCCTGCATTCATCTGGTCCTCCCTCCAGTCAGCTGCTCAAAATACAAGCTGGTTAGGTTACCTCTGTCTGAAAGTCTCCATTGGTGGCCCATGGCTCTTGGGCTACAGTCAAAATTGTCCAAGGCCTCAAAGGCTTTGCTGGCCTGGCCTGTCTGTCTCTTCAGCCTTACTCTGAACTGTGTTCCCTGTCTCTCTGTTCCAGTTACATTGGCCTCTGTGTTCTTCTCTCAGCCACATGGCTTCCTATGACAGGGACTTAGCACATCTGGAATGCTCTTCCTCCCCCACTCACCTGTTAACTCCTGCTTGTACACCACATCCCGTTTTCTCTTTCATAGCATTGAAGACAGATGTATTTATGCACCGGATACCAGCAAAAGGCCAACAGGGTGCCAGGCTCTTCTCTAATGTGTTGGTTTTTAATGTGATTATTTGACTATTCTCTGCCTTCCCCACCAGACTGTAAGCTCCCTGAAAACAGGAATCCCATGTTTATATTCAACATTGGTTCCCCTTGGCACATAGTAGGCACTCAATAAATGTTCCCCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGTACCTATGAGCAGCCCAG
R:
GGCTCCCATCTCCTCTCCATT
Band lengths:
345-1028
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]