BtaINT0109833 @ bosTau6
Intron Retention
Gene
ENSBTAG00000012405 | PEAR1
Description
Bos taurus platelet endothelial aggregation receptor 1 (PEAR1), mRNA. [Source:RefSeq mRNA;Acc:NM_001101300]
Coordinates
chr3:13991962-13992973:-
Coord C1 exon
chr3:13992853-13992973
Coord A exon
chr3:13992126-13992852
Coord C2 exon
chr3:13991962-13992125
Length
727 bp
Sequences
Splice sites
5' ss Seq
AAGGTACTG
5' ss Score
8.56
3' ss Seq
CCTACAAGTCCCTCTTCCAGGTT
3' ss Score
6.38
Exon sequences
Seq C1 exon
GGACCGCACTGCGCTAGCCTCTGCCCCCCTGACACCTACGGAGTCAACTGCTCGCAACGCTGCTCCTGCGAAAATGCCATTGCCTGCTCGCCCATCGATGGCACCTGCGTCTGCAAGGAAG
Seq A exon
GTACTGGGTTGAGGTCTCCTGGAAGGACGATTTGGGGGCGGGGCCATGGGAAGAAGGGAGAGTCCAAGTGCAGGGGCAGGCCAAGGGTAGGGGAGAGGCTGCAGGATAGGGGCGGAATCACTGGGCAGCAGCTGGACGGCGGGAAAGTAGCCAGGCTACTTCCTTCCTGGAATATCCACTTTGCTTTTGTTTCAACCACAAAAATCCCAATTGTCCTTAAAGGCCCAGGCCAGAGGCATCTCTTTGCTGAACATTCCTCATCCTCAGTCATCCAGAATCACAGAATGCCGGTGCCAGGAGATCTACCAGGGGTGGCCCGTTGGCAGTCTTTAGGGCTAGTTAAACACGTTTTGTTTCACTAGCTCTCCATCATATTTAACAAATGTCCCAGTCTCCAGTCCCCACTCCTCCCTATTGTCTTATACATGACGTGGATAACACATTTAGTTACTTAATGGGGCCTCAGTAAGCATTTGGGTTTGCTGCCAATCCCCTTCTTTTGGCAGAATAGGCAACCAAGACCCAGAAGGGGGTGGTGCATCCCCGACGGTCATTCAGCCTTCTGTCCAACATCCAACGATTCACATGCTGGTCTCCTATGGGGCCGTGAGCACCCCCATCCCCACCCCATGCTGGTAGCTCAGAGTCTGGCACAGTCATTGCCCAGTGTGTGCTTGCTCAGGAGGGCAGCTGGGTCCCCATGCCTACCTACAAGTCCCTCTTCCAG
Seq C2 exon
GTTGGCAGCGTGGTAACTGCTCTGTGCCCTGCCCGCCTGGAACTTGGGGCTTCGGTTGCAATGCCAGCTGCCAGTGTGCCCATGAGGCAGCCTGCAGTCCCCAGACTGGAGCCTGTACCTGTACCCCTGGGTGGCATGGGACCAACTGCCAGCTCCCCTGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000012405:ENSBTAT00000033952:12
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:
PF126612=hEGF=PD(23.1=7.3)
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACTGCGCTAGCCTCTGC
R:
GAGCTGGCAGTTGGTCCCAT
Band lengths:
270-997
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]