BtaINT0143607 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73412564-73413049:+
Coord C1 exon
chr17:73412564-73412832
Coord A exon
chr17:73412833-73412905
Coord C2 exon
chr17:73412906-73413049
Length
73 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
3' ss Seq
TCACCTTCCGATCCCCCCAGCCT
3' ss Score
7.78
Exon sequences
Seq C1 exon
CCCCCGGTACTACTCGGGCCAGCAGTGCTGCTACACTGCGGACGGCACGCAGCTCCTGACTGCTGACTCCACCGGGGGCAGCACCCCGGACCGCGGCCACGACTGGGGCTCACCCCCCTACCGCGTGCCACCCCGCGTGCCGGGCCTCTCCCACTGGATCTACGACGTCATCAGCTTCTACCACTGCTGCCTCTGGGCACCTGAGTGCTTCCGCTACATGAACAGACGGCCCTCCAGCGACTGCCGCAGCTACCGGCCCCCGCGCCTGG
Seq A exon
GTGGGTGCTGGGCTGGGCGGGCGCTGGCCAGGGCAGAGGCAGGACAACCCGCCTCACCTTCCGATCCCCCCAG
Seq C2 exon
CCTCCGCTTTCGGGGACCCACACTTCGTCACTTTCGACGGCACCAACTTCACATTCAACGGACGTGGCGAGTACGTGCTGCTGGAGGCAGCGCTGACCGACCTGCGGGTGCAGGCGCGGACCCAGACCAGGGTGACGCCAGAGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:8
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.231 A=NA C2=0.204
Domain overlap (PFAM):
C1:
PF0378212=AMOP=PD(52.1=83.5),PF0009420=VWD=PU(0.1=0.0)
A:
NA
C2:
PF0009420=VWD=PU(28.7=98.0)
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:
TCCCACTGGATCTACGACGTC
R:
TGAATGTGAAGTTGGTGCCGT
Band lengths:
178-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development