BtaINT0143601 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73410154-73410684:+
Coord C1 exon
chr17:73410154-73410361
Coord A exon
chr17:73410362-73410532
Coord C2 exon
chr17:73410533-73410684
Length
171 bp
Sequences
Splice sites
5' ss Seq
CAGGTGGGA
5' ss Score
6.71
3' ss Seq
CACCCCCTCCGCCCCTCCAGCTT
3' ss Score
8.09
Exon sequences
Seq C1 exon
GTGCCCAGCTGAGCTGCTCCCAGCGCTGCGGAGACCAGAGCGGGCCATGTTCCTGCCACCCGACCTGCTTTGGCCTGGCCAGCTGCTGCGTGGACATCCGGGATTTCTGCCTGGAGATCTCGCCCTACTCTGGCTCCATGATGGGGGGCAAGGACTTTGTGGTCCGGCATCTCAACTGGCCCAACCCCGCTGACAGCGTGATCTGCAG
Seq A exon
GTGGGAGGCGCCCGAGGGGCACTCTGGGGCCCACCCCCTGGTGGGCTGGGTGGGGCCCCAGGACCCAGGGCTGGGGCTGCTGGCCTGATGCGTTCCCTGGGAGGAGGCTGGGAGCCTTGGAGAGGCTCGGCCCCCGCAGGCCCAGCCTGTCCACCCCCTCCGCCCCTCCAG
Seq C2 exon
CTTCAAGGAGAGCATCCAGACCCACGGCTACGTGGACGCCTCTGGCCGAGTGCACTGCGTGTCGCCCCTGCTCTACGAGTCCGGCCGCATCCCGTTCACGCTCTCCATGAACAACGGCCGCTCCTTCCCGCGCTCGGGCACCTGGCTCTCTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:2
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:
PF0103312=Somatomedin_B=WD(100=58.6)
A:
NA
C2:
NO
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:
CGTGGACATCCGGGATTTCTG
R:
GAAGGAGCGGCCGTTGTTC
Band lengths:
247-418
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development