BtaINT0141450 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113462130-113463124:+
Coord C1 exon
chr4:113462130-113462273
Coord A exon
chr4:113462274-113462944
Coord C2 exon
chr4:113462945-113463124
Length
671 bp
Sequences
Splice sites
5' ss Seq
GCGGTGAGC
5' ss Score
8.02
3' ss Seq
CTTGCCCTTCCCCACCCCAGCAT
3' ss Score
6.81
Exon sequences
Seq C1 exon
GACGGAGCACCACGCCGGGGCCCTTCCCGCATGTGCAGTGCAGCCCAGGCCAGGTGCCCTGCGAGGTCCTGGGCTGCGTGGAGCTGGAGCAGCTGTGTGACGGGAGAGAGGACTGTCTGGACGGCTCTGATGAGAGGCCCTGCG
Seq A exon
GTGAGCACCCTGGAGAGTCTGGTGCCATGTGGGTGGTAACAGCAAGATGGCTGTAGGTTTGTGGAGGTGCCTACCTCTGTTTTTAGCATATATGAGAAGGTCCTGGGAAAGTCCTGGCCACGGGGAGTGGAAGGAAACCGACTGGGTTAAAACAACCAGCAGTGTGTGTTTTGGCTGGTAGTGAAGGGGCGGCATGGGATAGGTGTTTTATAAAACCTCTCTGACCTTGGAGGTTGTTCATCCATCCATCCATCCATCCATTATCAACCCATCTATCCATCCATCAAAGTAGACCAATATGCTCAAAGCCTAGTTTTCAATCAAGAGAAGAACAATCAAGTATAAGCCAATAAGGGGAAGGATGGAGTGTTAGCCAGTTACTCTGGGGAAATCCATCAGGAAGGGATACCTGGGGAGTGAACTGTTCTGGCTTCTCTTGGGACATTCAAAGAGCTGTTGACAGAGAGACTGAGATGGTGTGTGGATGGAAGACCACCCCACTCATAGCAGAGGGAGGCCTGGGTGCTGGGCTGGGTGGGTGTGGGAGGAATCAGGAGGAAGGGAAGGCCAGGCCAGGGTCAGCAGGTTAAGTTCTGCGCTGGGCCTGGGGTTGAAGGGGTCAGTTTATCACCGGCCGGAATGACCTGTGCCCTTGCCCTTCCCCACCCCAG
Seq C2 exon
CATGGGCAGCGGGCACCGTGCCCTTCACCGTGCCCACCACCACCCTGCCGGGGTTGCCGGCCTCCAGGGACCTCTGCTCCCCGAGCCAGCTGACCTGCGGCAGTGGGGAGTGTCTGCCTGCCGAGCGGCGCTGCGACCTGCAGCTGGACTGCCAGGACGGCTCGGACGAGAATGGCTGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:55
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.265 A=NA C2=0.066
Domain overlap (PFAM):
C1:
PF0005713=Ldl_recept_a=WD(100=75.5)
A:
NA
C2:
PF0005713=Ldl_recept_a=PU(92.5=60.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCTTCCCGCATGTGCAGTG
R:
CACAGCCATTCTCGTCCGAG
Band lengths:
303-974
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]