BtaINT0141441 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113457069-113457673:+
Coord C1 exon
chr4:113457069-113457173
Coord A exon
chr4:113457174-113457463
Coord C2 exon
chr4:113457464-113457673
Length
290 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAG
5' ss Score
8.27
3' ss Seq
CCCCTCTCTTGTGCACCCAGATC
3' ss Score
9.11
Exon sequences
Seq C1 exon
GAGAGAACCAGACGGTCCACCCCATGGCCACTCCCGTGCCCGCTCCGACCCCCAGCCCTCAGATCGGAGCCCCTCTGATCACCTACCTTCTGCCTCCCCCCGGAG
Seq A exon
GTAAAGGCCACGGGCTGTTGGGCCGAAGGGGGATGTTGCTGAGGGGTTGTCCAGCCTGGGAGGGGAGACCGGATCACTGGACTGTACCTCTTGCCTCCCATGGGGAGGACGGTTATCCTAAGGATCTAGAACCTCAGCCCAACCTGTTTCCTCCCTACCCCTGCCCTCCCTGGACCAGCCTCCAGTGACCCTACAAGGTCAACCAGGTGGGCTCTCAACCCTCCACAGCACCCCTTGTGCCTTCCTAACTATGGCCCCGGCAGGCTCCAGCCCCTCTCTTGTGCACCCAG
Seq C2 exon
ATCCTTGCTATTCACCCCTGGGCCTGGCCCGACTCCCCGAAGGGAGCCTGCCTGCTTCGTCCCAGCAGCTGGAGCACCCCGCCTGGGCTGCCATCCTGAGGCCTGCCCCGGGGGCGCCAGGCTGGAGCCCCGTGGAGCACGCTGATACTCAGGGGCACACCCCGCCTCCCTACCTGCAGCTCGACCTGCTCCAGCCCAGGAACCTCACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:47
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.500 A=NA C2=0.437
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0075420=F5_F8_type_C=PU(38.7=77.5)
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
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCAGACGGTCCACCCCAT
R:
TGAGGTTCCTGGGCTGGAG
Band lengths:
305-595
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]