BtaINT0143608 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73412906-73413305:+
Coord C1 exon
chr17:73412906-73413049
Coord A exon
chr17:73413050-73413146
Coord C2 exon
chr17:73413147-73413305
Length
97 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGG
5' ss Score
7.13
3' ss Seq
TTTTGCACCCATCATCCCAGGCT
3' ss Score
5.33
Exon sequences
Seq C1 exon
CCTCCGCTTTCGGGGACCCACACTTCGTCACTTTCGACGGCACCAACTTCACATTCAACGGACGTGGCGAGTACGTGCTGCTGGAGGCAGCGCTGACCGACCTGCGGGTGCAGGCGCGGACCCAGACCAGGGTGACGCCAGAGG
Seq A exon
GTGAGGCCGGGCCCCGGGGGCTCTGGGGGGCACAGGGTCATCCCTGGGGAGGGGGAGTCTGAGCCCGGTGGACCCCATTTTGCACCCATCATCCCAG
Seq C2 exon
GCTCTCAGGACCGAGGCACGGGGCTGACTGCGGTGGCCGTCCAGGAGGCCAACTCAGACGTGGTAGAGGTCCGGCTGGGGGACGGGGCGGGGGTCCTGCAGGTGCTGCTGAACCAGGAGGTGCTCAGCTTTGCGGAGCAGCGTTGGATGGACCTGAAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.204 A=NA C2=0.167
Domain overlap (PFAM):
C1:
PF0009420=VWD=PU(28.7=98.0)
A:
NA
C2:
PF0009420=VWD=FE(31.7=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACGGCACCAACTTCACATTCA
R:
GGACCTCTACCACGTCTGAGT
Band lengths:
180-277
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development