BtaINT0143603 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73411081-73411859:+
Coord C1 exon
chr17:73411081-73411248
Coord A exon
chr17:73411249-73411684
Coord C2 exon
chr17:73411685-73411859
Length
436 bp
Sequences
Splice sites
5' ss Seq
CGGGTGAGG
5' ss Score
8.48
3' ss Seq
TCCCCCTGCCAACCCCTCAGGGA
3' ss Score
7.47
Exon sequences
Seq C1 exon
TGCACCCAAGTAAAGTGTCGGACTCCGAGAAGAGCCAGCTGGTGAACGAGACCCGCTGGCAGTACTACGGCACTCCTGGCACGCAGGGCAACCTCACCCTGACCTGGAACACCTCGGCCCTGCCCTCGGACACCGTCACCATCGAGCTGTGGGGCTACGAGGAGACGG
Seq A exon
GTGAGGCCGGCAGGGGTCATGCCCCGACCCCCACCGGGAGCCTGGAGCTCACGGACATGGGAGAAAGGAAATTCCAGGTGGGGGGAATCCAGCCAGGGATTTCGAGCCGGAAGGTGTTGGCAGGAGAGGGCAGCTGGCTCGAGCGGCACAGGGAAGAGTGGCCGCCTGGGTACCAGGGCTGGAGGGGGGCTGGAGGAGGTGCAGACGTTTGCAGCTCCTGGATACACAGCTTGTCCTGGAAATAGAAAAGACGTGCCCCGCCCCATCCTCAGAGCCCCTGGAGGACTAGCAGGCCTTGGCCTGGCTCCCTCCCCCAGCAGGGCAGGCCCTCGTGTGGGGGCCATCTGTCTGTGGCACCCACCTCCACCTGTGCCCCCGGGGTTCCTGGGTCAGGCCCCGGGGCTGATGAGGCCTTCTCCCCCTGCCAACCCCTCAG
Seq C2 exon
GGAAGCCGTATTCCCAGCAGTGGGCAGCAGCGTGGTCATACCTGTATTCCTTGGCTACCAACATCCACAACTCCGGTTCCTTCACCTTCACGCCGAAACCTGCCCCGCAGAACTTCCAGAGATGGGAAGTGGGTTCCCTCCGCATCGTGGACAGCAGACACAGCGCAGGGAAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.035 A=NA C2=0.000
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:
TGCACCCAAGTAAAGTGTCGG
R:
GCTTCCCTGCGCTGTGTC
Band lengths:
342-778
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development