BtaINT0130658 @ 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
chr16:38076299-38078359:-
Coord C1 exon
chr16:38077973-38078359
Coord A exon
chr16:38076407-38077972
Coord C2 exon
chr16:38076299-38076406
Length
1566 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGG
5' ss Score
7.81
3' ss Seq
ACCCTTCTGTATCCATGCAGCCT
3' ss Score
8.73
Exon sequences
Seq C1 exon
AGGTAATAAACCAGAAAGAAGTATCAGCATGGACCTACCACTACAGCAATAAAACATATTCATGGAATTATTCCCGGGCATTCTGTCAGAAGTACTACACGGATTTAGTGGCCATCCAGAATAAAAACGAGATTGCTTATCTCAACGAGACCATACCTTACTACAACTCTTACTACTGGATTGGTATTCGAAAGATCAACAATAAATGGACCTGGGTGGGAACCAACAAGACTCTCACTGAGGAGGCTGAGAACTGGGCTGACAATGAGCCTAACAACAAGAGGAACAACCAGGACTGTGTGGAGATCTACATCAAGAGTCTGTCAGCCCCTGGCAAGTGGAATGATGAGCCCTGCTGGAAAAGAAAGCGAGCACTCTGCTATAGAG
Seq A exon
GTAGGGGCTTCTCGACTCTAAAATCTACCTGTTTTTTAAAAAAATGCTTTCCCTGGTTCATTAATATAGCCCCTGAGTCAATAACATTGAGTCTCAAAGTCAGGGACATGGAAACAAAGAGTGAACTGTCAGTCAAGCAGCATTATTGAGCATCTTGAAGAATATAAGATCAGGATTAGAAAAAACTGGCCTTTTGAAGCCCGAAGGAAATTTTAATATCATTCAGTCCACCCTTATAATTTATAATGGCCAAAATAGATGCTCAGGAAGTTTTGGTGTCCTAAAATTTATGTCCATAGCTTTTCATTATCACTGGGCCCTAGAATAAGAGAATGTATAGTTTGAGAGAGAATTTGGCCTTGTCTCTAGGAGACAGCTATGACCTCATCAACACAGACACTCATTGCTTTTGTAGTATCGTTTCTAATACGAATCCACCACAGGTGCGCAGTGCCTACGCCCTCAAAGAGTCTCTTGCAGGAAGGAAACTCTGTCCTTCTCTATTCTGTCATCCAAGTGGCATAGACTTAGGGAGGAGGGCCTGGCAGGCCAGTCATGCTCTGTACCACCTAAATCTCATATATTCAGACCTATGACACAGCTCCCTACAAGGTCATTTGTCTTTGATCATGAGTAGGTCTTAAACATCTCATTCAACTCCTCTGCCATGTGGTCCTGGGCATAGACTTAACACAGGCAAAAAGTGGAAAGGCTTTGGCCCTAACTTCAGACAGGTTGGACTCAAAGAAGGAACTTGCTTGAGGTCACATAATAGAAGGGGGTGATTATGTAAGTGTGACCCCTGCCACCCCTCATCTAGTTCCTAACCTCCATGCTGTGATATCTGTCATAGGAGCTTCCATAATAATACAACTTTATGAATGTGATTGGTTAAGAGCCACAGCCTATTTTGTACCACACAGAGGAGCTTCTCTGACTACCCATGTACTGGTAGCTCCATTTGTCCCTCTGTGTCCCCAGATGGCAACCCCTCTTTAGGCCACATTAAATACAGCCTAAAACAGAAGTCAGGCAGTACTGATGAACCAGTAAGGGCAGGAATAAAGACGCAGACTTGTGGATACAGTGGGGGTGGGGGGACACAAATTGAGAGAGTAGCACTGAAACATATACATTACCATATGTAAAATAGATAGCTGGTGGGAAGTTGCTGTATAACACAGGGAGCTCAGCCCAGTGCTCTATAACAACCTAGAGGAGTGGGATGGGGTGGGGTGGTGGGGCATGGGAGGGAGGCTCAGGAGGGAGGCGACACATGTATACGTATGGCTCATTCACACTGCTGTATGGCAGAAACCAACACAACATTGTAAAGCAACTATCCTCTAATCAAAAATTTTAAAAATAGAAGCCAAGCAATGCTCCAGCAGGCTCCTACGGCACACTTCACAGGGAACAGGCTGGCTCTCCAGGGGACACTGTGGTTTTCTGTTGTCTGGCTAGCTCGAGGTTACTCAAGTGGGGCTAAGACTTGGAATAAGAAACCAGCTTTTCTTTGTACCTCTTAAGAATGCCTGTGATTCTGACCCTTCTGTATCCATGCAG
Seq C2 exon
CCTCCTGCCAGGACATGTCCTGCAGCAAGCAAGGAGAGTGCATTGAGACCATTGGGAACTACACCTGCTCCTGTTACCCTGGATTCTATGGACCGGAGTGTGAATATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000020755:ENSBTAT00000027661:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.062 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0005916=Lectin_C=WD(100=86.2)
A:
NA
C2:
PF0000822=EGF=WD(100=81.1),PF0008415=Sushi=PU(4.7=8.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCGGGCATTCTGTCAGAAGTAC
R:
ATGCACTCTCCTTGCTTGCTG
Band lengths:
357-1923
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development