BtaINT0143606 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73412400-73412832:+
Coord C1 exon
chr17:73412400-73412485
Coord A exon
chr17:73412486-73412563
Coord C2 exon
chr17:73412564-73412832
Length
78 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TGACCCGTCTGTGCCCGCAGCCC
3' ss Score
10.64
Exon sequences
Seq C1 exon
ACAGACTACGGCTGTGACCTGGAGCAGGGCAGCGTGTGCACCTACCACCCGGGCGCTGTGCACTGCGTGCGCTCGGTGCAAGCCAG
Seq A exon
GTGAGCCCGAGATGGAGGGGGGGGCGCAGGAGGGGCGGGGCCGGACCCAGGGCCGTCCTGACCCGTCTGTGCCCGCAG
Seq C2 exon
CCCCCGGTACTACTCGGGCCAGCAGTGCTGCTACACTGCGGACGGCACGCAGCTCCTGACTGCTGACTCCACCGGGGGCAGCACCCCGGACCGCGGCCACGACTGGGGCTCACCCCCCTACCGCGTGCCACCCCGCGTGCCGGGCCTCTCCCACTGGATCTACGACGTCATCAGCTTCTACCACTGCTGCCTCTGGGCACCTGAGTGCTTCCGCTACATGAACAGACGGCCCTCCAGCGACTGCCGCAGCTACCGGCCCCCGCGCCTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:7
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=0.231
Domain overlap (PFAM):
C1:
PF0378212=AMOP=FE(19.2=100)
A:
NA
C2:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAGCGTGTGCACCTACCAC
R:
GGTGAGCCCCAGTCGTGG
Band lengths:
171-249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development