BtaINT0143569 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030384 | SURF1
Description
surfeit 1 [Source:HGNC Symbol;Acc:HGNC:11474]
Coordinates
chr11:104315820-104316132:-
Coord C1 exon
chr11:104316060-104316132
Coord A exon
chr11:104315983-104316059
Coord C2 exon
chr11:104315820-104315982
Length
77 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGG
5' ss Score
10.07
3' ss Seq
TTTCGCACCTTTCCTCACAGGTT
3' ss Score
10.5
Exon sequences
Seq C1 exon
GATCACCATTCTGGTAAACAGAGGGTTTGTGCCCAGGAGGAAGGTGAATCCAGACACACGGCGTAAAGGCCAG
Seq A exon
GTGAGGGGCTGGACTGTCCTCTCCCAGAGGAGCCGTCCCAGCTCTGCGGAGACGGCATTTCGCACCTTTCCTCACAG
Seq C2 exon
GTTGAGGGAGAAGTCGATCTGGTGGGGATGGTGAGGCTCACAGAGACCAGGAAGCCTTTTGTCCCCGAGAATAACCCAGAGCGGAACCACTGGCATTACCGGGACCTGGAGGCCATGGCCAGGCTCACAGGCGCAGAACCCATCTTTATCGATGCTGACTTCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030384:ENSBTAT00000042893:15
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.440 A=NA C2=0.145
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(11.0=100)
A:
NA
C2:
PF0210410=SURF1=FE(24.7=100)
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:
ATCCAGACACACGGCGTAAAG
R:
TAAAGATGGGTTCTGCGCCTG
Band lengths:
174-251
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development