BtaINT0143566 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030384 | SURF1
Description
surfeit 1 [Source:HGNC Symbol;Acc:HGNC:11474]
Coordinates
chr11:104317675-104317971:-
Coord C1 exon
chr11:104317838-104317971
Coord A exon
chr11:104317758-104317837
Coord C2 exon
chr11:104317675-104317757
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTAAAG
5' ss Score
9.65
3' ss Seq
CTTACGCCCTGTGCCCACAGGTC
3' ss Score
11.66
Exon sequences
Seq C1 exon
GGTTGGCCTGGAGGCCCCGCAGGTGTGGCAGCTCTTCAGCCGAAGCAACTGCCACAAAAACCGAAGATGAGTCCTTCCTCCGCTGGTTTCTGCTTCTCATTCCTGTGACTGCCTTTGGCCTGGGGACGTGGCAG
Seq A exon
GTAAAGGCTGATGTGGCTCTCCTGGCCCTGAGCCCTTGACCGTGCTGCCGCCCACTTGGGCTTACGCCCTGTGCCCACAG
Seq C2 exon
GTCCAGCGTCGGAAGTGGAAGCTACAGCTGATCGCAGAGCTAGAGTCCAGAGTTATGGCCGAGCCCATCCCACTGCCCGCAGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030384:ENSBTAT00000042893:12
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.267 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=PU(6.4=31.1)
A:
NA
C2:
PF0210410=SURF1=FE(12.3=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:
CAGGTGTGGCAGCTCTTCAG
R:
ACTCTGGACTCTAGCTCTGCG
Band lengths:
168-248
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development