BtaINT0143597 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73413611-73414243:+
Coord C1 exon
chr17:73413611-73413859
Coord A exon
chr17:73413860-73413970
Coord C2 exon
chr17:73413971-73414243
Length
111 bp
Sequences
Splice sites
5' ss Seq
ACTGTAAGA
5' ss Score
4.8
3' ss Seq
CCCTGATGCTGTCTTCCCAGGGG
3' ss Score
7.54
Exon sequences
Seq C1 exon
GTATGTTCCTGTCGGTAGCCGCTGGGAACAGAGTATCAGTCATGCTGACGTCAGAGGCCGGCCTGGAGATCAGCCTCCAAGGGCCATTCCTGAGTGTGGCGGTCCTGCTGCCTGAAAAGTTCCTGACCCACACGCAGGGCCTCCTAGGGACATTCAACAACGACCCAGCCGATGACTTCACCCTGCGCAGTGGGGAGGTCCTGCCACCCAGCGCCAGTTCTCGAGAACTGTTCCGGTTCGGGGCGGACT
Seq A exon
GTAAGAGGCCACAGGCAGGAGCACAGAGGGCACGGCCCTGGGAAGGGCTTGGTGGAGGTGCGGGGAGCCCCCAGACCCTCCCACCCGCCAGCCCTGATGCTGTCTTCCCAG
Seq C2 exon
GGGCCGTGCAGAATGCCTCCTCCCTGCTCACCTACGACTCCAAGTTCCTGGTGGAAAACTTCAAGGAACGGCCTAAGCATGACCCCACTTTCCTGCCCCTCTTCCCCGAGGAAAGCTCCGCGAGCCCCAGCCAGGCGAGTGCGGCAGCTGACCTGTGTGGGGACGACAGTTTCTGCAAATTCGACGTGGCGGCTACCGGGAGCCTGAGCGTGGGCAACGCCTCGCGAGTGGCCCACATGCAGCACCGGCTTCGCGTGCAGAGCCTGCAGCCCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.048 A=NA C2=0.098
Domain overlap (PFAM):
C1:
PF0009420=VWD=PD(38.9=77.4)
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:
GGTCCTGCTGCCTGAAAAGTT
R:
CAGGAAAGTGGGGTCATGCTT
Band lengths:
244-355
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development