BtaINT0130660 @ bosTau6
Intron Retention
Gene
ENSBTAG00000020755 | SELP
Description
Bos taurus selectin P (granule membrane protein 140kDa, antigen CD62) (SELP), mRNA. [Source:RefSeq mRNA;Acc:NM_174183]
Coordinates
chr16:38074509-38075612:-
Coord C1 exon
chr16:38075427-38075612
Coord A exon
chr16:38074695-38075426
Coord C2 exon
chr16:38074509-38074694
Length
732 bp
Sequences
Splice sites
5' ss Seq
TAGGTATGT
5' ss Score
7.76
3' ss Seq
TGCTCTGTGGTTGTTTTTAGCTG
3' ss Score
9.07
Exon sequences
Seq C1 exon
TCAGAGAGTGCGGCGAGTTTGATCTTCCTCAACATGTGCACATGAACTGCAGCCACCCTCTTGGAAACTTCTCTTTCAACTCACACTGCAGCTTCCACTGTGCTGAAGGCTATGCGCTGAACGGACCCAGTGAGCTGGAGTGTTTGGCTTCTGGAATCTGGACGAATTCACCCCCACAGTGTGTAG
Seq A exon
GTATGTACACCCAATTCTTTTCCATTCTCATTGACAACTAGAATTTCAGAGGGGACAAGAGGCTTTCTCCATTTGAAAACCAAGAAGATCTACACTAAATGGGACATTGTGCTTATTACTACTGCCCATCAACCAGAGTAACACTAGTTTTCATTTTCATCTGAGGAGTGAGGGAGTTTAATTCTTGATCCTCATGCAAAAGCATTACAAAAAGGTCCCTCTCCCTTTGTTCATTGCAAAGTGAACAGAGTGCGATAATGACTCGGGGGTTGGGTATTATTAATTTGAGAATTTCACCTTGCTTCTTTAAAAAGGAAACAAAGCAAGGATGTTTGGGTCTTTCCGAACAGCTACTGAAAGTACCATTTTACCAACCAAGTTCAGCACCTTACCTAATGCTTTGGGAAGATGTAGCACCTATTGCTGGCTTCCCAGGTGGTACTGTGGTTAAAGAACCTGCCTGCCAATGCGGAAGATGAAAAAGACACAACAGTTTCGACCCCTGGGTTGGGAAGGTCTCTTGGCATAGGAAATGGCATCCTGCTCCAGTATTCTTGCCTGGAAAATTCCTTGGACAGAGGAGCATCCATGGGGTCACAAAGAGTTGGACATGACTGAGTGCATGCACACAGACACACAGACACACACACACAGCTGTTGCAGCATCCTAAGGTTTCCAAGGTGCTGGGCATGACACCAGGCCTCATGCTATTGCTCTGTGGTTGTTTTTAG
Seq C2 exon
CTGTCCAGTGCCCGGCTCTGAAGTCTCCGGAGCAAGGAAGCATGAGCTGTGTCCAGTCCGCGGAAGCATTCCAGCACCAGTCCAGCTGCAGCTTCAGCTGCGAAGAGGGATTCGAATTAGTTGGGCCAGAGGTAGTGCACTGCACAGCCTTGGGGGTGTGGACAGCCCCAACTCCGGTGTGTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020755:ENSBTAT00000027661:4
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:
PF0008415=Sushi=PD(93.8=95.2)
A:
NA
C2:
PF0008415=Sushi=WD(100=92.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGATCTTCCTCAACATGTGCACA
R:
CTTTACACACCGGAGTTGGGG
Band lengths:
353-1085
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development