BtaINT0143571 @ bosTau6
Intron Retention
Gene
ENSBTAG00000030384 | SURF1
Description
surfeit 1 [Source:HGNC Symbol;Acc:HGNC:11474]
Coordinates
chr11:104315458-104315689:-
Coord C1 exon
chr11:104315608-104315689
Coord A exon
chr11:104315528-104315607
Coord C2 exon
chr11:104315458-104315527
Length
80 bp
Sequences
Splice sites
5' ss Seq
CTGGTGAGC
5' ss Score
8.05
3' ss Seq
GCCCTGCTTTTCAACCCAAGGTA
3' ss Score
7.06
Exon sequences
Seq C1 exon
AGAGCACAGTCCCTGGAGGGCCCATCGGAGGGCAGACCAGAGTCACCCTGCGGAACGAGCACCTGCAGTACATCATCACCTG
Seq A exon
GTGAGCCAGGGTCTGGCCTTGCCCCCCACCCCCACCCCCCACCCCAGACCGCGACAGTATGCCCTGCTTTTCAACCCAAG
Seq C2 exon
GTACGGACTCTGTGCAGCCACATCATACCTCTGGTGCAAGAAGTTCCTAAGTTGGACTCCTGGTGTGTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000030384:ENSBTAT00000042893:17
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.071 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0210410=SURF1=FE(12.3=100)
A:
NA
C2:
PF0210410=SURF1=PD(2.7=25.0)
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:
AGAGCACAGTCCCTGGAGG
R:
TCACACACCAGGAGTCCAACT
Band lengths:
152-232
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development