BtaINT0143602 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73410533-73411248:+
Coord C1 exon
chr17:73410533-73410684
Coord A exon
chr17:73410685-73411080
Coord C2 exon
chr17:73411081-73411248
Length
396 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
CACCTCCCGCCCCCCGCCAGTGC
3' ss Score
6.59
Exon sequences
Seq C1 exon
CTTCAAGGAGAGCATCCAGACCCACGGCTACGTGGACGCCTCTGGCCGAGTGCACTGCGTGTCGCCCCTGCTCTACGAGTCCGGCCGCATCCCGTTCACGCTCTCCATGAACAACGGCCGCTCCTTCCCGCGCTCGGGCACCTGGCTCTCTG
Seq A exon
GTGAGCCCTGATGGTGACGCACCCTCCCGGGCCCGGTGCCCTCACAGGGACTCTCCTGGGTGATAATCTGGTCGAACCGGTCGCTCTGGAGGTCTGCCCCGGGTGTGGGCTCCCCAGACTCCTTTCTCCACCCACTGGCATCCACACAGGGGTTCCAGCCCAGAGGGAGGAGGACTGTGGGGGGGTCTGCTCTGGCCAGGGGAGGGGAGGAGCCAGCCCGGGGGCAAAGATCAGGGCCCCTCCTCTCCCAGCCCCTGACCTTTCCTACTACAAGGGCACCATGGCTCCCGAGGGACTGCCTTGGGACGTCCCCACAGCTCAGAGAGCCCCGGACCTCCTCCCCTGGACGCCCTGGGCCCCAGGCCTTCCCTCAGCTCACCTCCCGCCCCCCGCCAG
Seq C2 exon
TGCACCCAAGTAAAGTGTCGGACTCCGAGAAGAGCCAGCTGGTGAACGAGACCCGCTGGCAGTACTACGGCACTCCTGGCACGCAGGGCAACCTCACCCTGACCTGGAACACCTCGGCCCTGCCCTCGGACACCGTCACCATCGAGCTGTGGGGCTACGAGGAGACGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:3
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=0.035
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
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:
GAGAGCATCCAGACCCACGG
R:
GTCTCCTCGTAGCCCCACAG
Band lengths:
311-707
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development