BtaINT0143596 @ bosTau6
Intron Retention
Gene
ENSBTAG00000006730 | SUSD2
Description
Bos taurus sushi domain containing 2 (SUSD2), mRNA. [Source:RefSeq mRNA;Acc:NM_001205675]
Coordinates
chr17:73413147-73413859:+
Coord C1 exon
chr17:73413147-73413305
Coord A exon
chr17:73413306-73413610
Coord C2 exon
chr17:73413611-73413859
Length
305 bp
Sequences
Splice sites
5' ss Seq
AGGGTGAGT
5' ss Score
9.25
3' ss Seq
CCACCTCCACGTGTGCCCAGGTA
3' ss Score
7.03
Exon sequences
Seq C1 exon
GCTCTCAGGACCGAGGCACGGGGCTGACTGCGGTGGCCGTCCAGGAGGCCAACTCAGACGTGGTAGAGGTCCGGCTGGGGGACGGGGCGGGGGTCCTGCAGGTGCTGCTGAACCAGGAGGTGCTCAGCTTTGCGGAGCAGCGTTGGATGGACCTGAAGG
Seq A exon
GTGAGTGGAACGTTGGGGGCCCCATCTGGGGGTCCTGGCAGGAAGGGAAGGGGGCGCAGGGTGGAGTCAGGGTGTGAGGGCCGACAGCCAGTCCCCCCCTCACAGGACCCTGGTGTGGGAGCTCCCTTCAGGGCCTGGGCACTCAGACCCGCCACCCGGGGTGGGGGAGTGTCAAGGTAGGCTGGGCCCTGGGGACTCCCTCCTGGCCCTGAAGCCCACGGTGCTAGCCCACGCATCCCAAGGCTGTGGGGTCAGAGCCCAGCGCCCACAGGGGCGACCCTGACCCCACCTCCACGTGTGCCCAG
Seq C2 exon
GTATGTTCCTGTCGGTAGCCGCTGGGAACAGAGTATCAGTCATGCTGACGTCAGAGGCCGGCCTGGAGATCAGCCTCCAAGGGCCATTCCTGAGTGTGGCGGTCCTGCTGCCTGAAAAGTTCCTGACCCACACGCAGGGCCTCCTAGGGACATTCAACAACGACCCAGCCGATGACTTCACCCTGCGCAGTGGGGAGGTCCTGCCACCCAGCGCCAGTTCTCGAGAACTGTTCCGGTTCGGGGCGGACT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000006730:ENSBTAT00000029404:10
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.167 A=NA C2=0.048
Domain overlap (PFAM):
C1:
PF0009420=VWD=FE(31.7=100)
A:
NA
C2:
PF0009420=VWD=PD(38.9=77.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACTCAGACGTGGTAGAGGTCC
R:
CGAACCGGAACAGTTCTCGAG
Band lengths:
348-653
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development