BtaINT0141405 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113489823-113490743:+
Coord C1 exon
chr4:113489823-113489973
Coord A exon
chr4:113489974-113490610
Coord C2 exon
chr4:113490611-113490743
Length
637 bp
Sequences
Splice sites
5' ss Seq
AGGGTGGGT
5' ss Score
5.37
3' ss Seq
CCCTTTTATTTGTCCTCCAGGAG
3' ss Score
10.8
Exon sequences
Seq C1 exon
GAGCCGTACCTGCAGAGTCAGTGTGACTGCTGTAGCTACCGCCTAGACCCTGAGAACCCGGTGCGCATCCTGAACCTGCGCTGCCCTGGCGGCCGCACAGAGCTGGTGGTGCTGCCGGTCATTCACAGCTGCCAGTGCAGCGCCTGCCAGG
Seq A exon
GTGGGTGTGGGCGGGGTTCCCGGAGGGGCGGGGTTCTTTGTGGGCGGGGTCTTGGGTGGGGCAGGGGCGGGGCCGGGGCTTAGGCCGGGGTCTGGGGTCACCTGAGGCCAGGAGCTGGCCAGGCCGGGCGCGTTACCCGACAGCCCCTCGCGGGAATTTCCTCCTCCGAGTCCTTCTGCTCTGCTCCATTCCCCTTCTTAGCATTCTTGTTGGTTTGTTCTCTAATCACACTTAAGCCCAGATGTTCGGGGTCAGGCACATCAGGTTCGAATCCCAGCTCATCCATTTCCTTCCTTGTTGAGGTTCCATGACCTCGTCTTTACACCCAGGTGACGATCTGCACAGGCTTGTTGGGAGGACTTGGTGAGAGGCTGTATGCGAAGTGCCAGGTTCTCTATAAACACCTGGTACACGTTAACCCGAGGCCACCACACAGTGTGGGGGGTGAGAAAGAGATGGAAGGGCGCTGAGAACGCCTGGGGCAGAAGCTCACCGTGACTGCGGTCTTCCTCCTGGCGGCTCTCCCTTCCTCTCCTGCCAGTTTGCTCAGCACCCTCCCTCTCTCCAGCCCCATCCCTTCCCAGCCCGATTACCCTGCCTTTTTTGATAGCGCATCTCCCTTTTATTTGTCCTCCAG
Seq C2 exon
GAGGTGATTTCTCAGAGCGCTGACGGCTTCCCTGATGAGGCCTGCACTGGCCATCATGACCCCTCCTCCCATGCCCCGTCCCCCATCCCCTATTCTAGTTCTAGCATATTCCAAATAAAGTGACATTGGCAGC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:112
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CGTACCTGCAGAGTCAGTGTG
R:
GCTGCCAATGTCACTTTATTTGGA
Band lengths:
280-917
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]