BtaINT0141472 @ bosTau6
Intron Retention
Gene
ENSBTAG00000008542 | SSPO
Description
SCO-spondin [Source:HGNC Symbol;Acc:HGNC:21998]
Coordinates
chr4:113471924-113473164:+
Coord C1 exon
chr4:113471924-113472003
Coord A exon
chr4:113472004-113472994
Coord C2 exon
chr4:113472995-113473164
Length
991 bp
Sequences
Splice sites
5' ss Seq
GTGGTGAGT
5' ss Score
8.95
3' ss Seq
CCTCCCTTCCTGTCCCCCAGCAC
3' ss Score
9.72
Exon sequences
Seq C1 exon
TGACCAACTGCACCGCCATCGAAGGGGCGGAGTACAGCGCCTGTGGCCCTCCCTGCCCTCGCTCCTGCGATGACCTCGTG
Seq A exon
GTGAGTCTGGGCTCCTGACGGTCACATTGCCGGACGGCAGGTATGGCCCCTCTGACCTGGGGCCGTCCGCGGTTGGAGGGAAGAAAAGGGGTCAGCGCCCAGCCGGCCTGGCTCCTGATTCTAGACAGCAGCGGGAGTGAGCCTCATCCAGCAGCCCTTGTCGTCCTTACACAGCATATACGTTTCTCGGTTGACACGTTTTATGATAGAAACAGCAGGAACGCACAGGAAAAGGGCAGTCCTTTTGATGGATCATCCATCCGAAGCCCCCCGCCCAAGCGCGTTGGTGCGCAGACCTTGGCCCTGTGCGCGCGTGAGTGCGCACGCGCCTGCCGGGGCGAGGGGCCAGTCCAGGACCATGGAGAGGGACCCAGGCCGGCTGCCGCCGGGGGTGGGCGCGGTCCAGTGGCGCCTGCGCAGTGGCGAGGACGCGGCCCCGAGTCAAAAGATGCTGGAGCAAACAGCTAGGGCGAAGGGACGGCGCTTTGAGAAGCCTTGCTTGGGCCTGTCCAAGGGGGACGGGAGGCTCCACACGGAGGCGGGAGGACCAGGACACGGTGTCTGGTCCCGACCTCTCCCAGGGAGTCCCGGCGCCTTCCCAAACGCCCGCCGCTCCCGCCAGCTTTCCGGTCCCCGGCTCCTTCCGTCCTAGGAGATCTGCCTTGGTCCCCACTCAACCCTCCACGGGGCCCAACGTCTGGAGGATACTCCATTCAGGGAAGCTCCTCGCAGGCTGTCCCTTCCCCACTCTCCTCCCCTGGAGGAGAAACTCCAGTGGAAACGCGGCTTAAACTGTGTTTAGAAAAGACAGCTATGACCTGGAGCATCGCACTTCCTCCCCTCTGCACCCCTCTCCGCCGCGCCCCCCTCCCCACCCCCGCAGCCTCCTTCTTCACTTCATCGTGGCTCCCGGCGCCCCCTTCCATTCCGCAGCAGTCCCCTTGCGCCCCCGGCTTTCCACTGACCTGGGCCCTCCCTTCCTGTCCCCCAG
Seq C2 exon
CACTGCGTTTGGCACTGCCAGCCCGGCTGTTACTGCCCCCCAGGCCAGGTGCTGAGTGCCGACGGCACCGTCTGCGTGCAGCCCGGTCACTGCAGCTGCCTGGACCTGCTGACTGGGGAGCGGCACCGTCCAGGGGCCCAGCTGGCCAAGCCTGACGGCTGCAACTACTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000008542:ENSBTAT00000043975:76
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:
PF0182612=TIL=PU(41.8=85.2)
A:
NA
C2:
PF0182612=TIL=PD(54.5=52.6),PF053758=Pacifastin_I=PU(40.6=22.8)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACTGCACCGCCATCGAAG
R:
CAGTAGTTGCAGCCGTCAGG
Band lengths:
246-1237
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]