BtaINT0133176 @ bosTau6
Intron Retention
Gene
ENSBTAG00000034998 | SIMC1
Description
SUMO-interacting motifs containing 1 [Source:HGNC Symbol;Acc:HGNC:24779]
Coordinates
chr10:4979152-4979561:-
Coord C1 exon
chr10:4979405-4979561
Coord A exon
chr10:4979266-4979404
Coord C2 exon
chr10:4979152-4979265
Length
139 bp
Sequences
Splice sites
5' ss Seq
CAGGTATGT
5' ss Score
9.8
3' ss Seq
TGCTTTTACTATCTCTGCAGTCA
3' ss Score
7.96
Exon sequences
Seq C1 exon
AGAGATGTTCTTTACTACCATGGAAAGCCACCTCCTACGCTGCAAAGTGCTGGAAATCATATTTCTCCACAGCTGTGAGACGCCCACCCGCCTACCCTTGTCTCTGGCCCAGGCCCTCTATTTTCTGAACCATTCCACATCACTGCTCAAGTGTCAG
Seq A exon
GTATGTTTTTCCCTACTTCACTTCCAGGCCTAGACCACCTTCTCCTAAATCCGTGAGCTTTTTGTAAGTTACTTAAAAACTGTATAAACCTCTTACTGAGGAAAGAATTTATTACCAACTGCTTTTACTATCTCTGCAG
Seq C2 exon
TCAGATAAAACCCAGTGGCAGAAATGGGATGAGCTGGTCGAGCACCTGCAGTTCCTGTTATCCAGTTACCAGCATGTTTTAAGAGGTAAGGAGCATTTGGGCACAAACCAGGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000034998:ENSBTAT00000020753:9
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.026
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CACCTCCTACGCTGCAAAGTG
R:
CACCTGGTTTGTGCCCAAATG
Band lengths:
243-382
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development