BtaINT0133171 @ bosTau6
Intron Retention
Gene
ENSBTAG00000034998 | SIMC1
Description
SUMO-interacting motifs containing 1 [Source:HGNC Symbol;Acc:HGNC:24779]
Coordinates
chr10:5005033-5006118:-
Coord C1 exon
chr10:5005886-5006118
Coord A exon
chr10:5005103-5005885
Coord C2 exon
chr10:5005033-5005102
Length
783 bp
Sequences
Splice sites
5' ss Seq
ACAGTATGA
5' ss Score
2.27
3' ss Seq
TGCTATCACTTGACTTTCAGGCT
3' ss Score
7.22
Exon sequences
Seq C1 exon
AACAAGGGTCAAAAATTAGAACCTATCCCTCATCGAAGATTAAGGATGGTAACAAACACCATTGAAGAAAATTTCCCCTTGGGGACTGTGCAGTTTTTGATGGACTTTGTGTCACCCCAGCATTACCCGCCCCGAGAAATTGTGGCTCACATCATCCAGAAAATCCTGCTCAGTGGCTCTGAGACTTTGGATGTTCTAAAGGAGGCCTACATGCTTCTCATGAAAATTCAACA
Seq A exon
GTATGAACCTTGGCTTTTGGCAAATCTTTTAGGGAACCTGGACTCAGGGCACAATTTTCTCTTGCCTAAGATTTATTCAACTAAACATTAGAGAGGGTGACAGTATATTAATATTATTTGGATTGCAAGTGACAGGAAACTCAATCCAAACTGGCTTTAACAAATGATAAAAGAGAACTTAATGACCCATGTTACTAAAAACCTAGAAACCTAGGAGTAAGATGTGACTTAGTTCAGCTCCAAAATGGTTACCAATATCCATTTTTCAGCTGTACTTTGCTTTTGTTTCTAGGCTTCATATGGTGGCTTTCTCAGACACTCTTAATACAAGAGAGCATCCATTTCCTTTATAATCACGTTAGAGTTCTGAAATTGAGTTTTACAAATTTTAATTGGCATGATATAAGACATGAGTCTGTCTTTGAGCCAGTCATGTGAACTGTGGGACAGAATATCATGATCAGTTCAACATGCTTCATAAGCTTCATCCCAGGGTCCTAATGGGTGAAAGCCACTGGGCTAAGAGTAATAGTTGATTTCTTCAAGGCAAATTTGGAGTGCTAATGCCTCCCAAAAGAGAAGTAGATATTAGGTAGCCAGCAAAAGAAAATGAAGTTCCACTTCCCTCAGAGACATGGGTGGGAAAGAGGGTGGGCAAGAACACTGAGGATAAGAAGAGGCTTCTTGCTTCTGTCGTCTTCTATTGTTTCTATTGTCTTCCAGATCCCATCCTTCCTTCCACTGAAATCTCCAGAATTCTAACTGCTATCACTTGACTTTCAG
Seq C2 exon
GCTACATCCAGCTAATGCCAAGACAGTGGAGTGGGACTGGAAGCTTCTCGCTTATGTCATGGAGGAAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000034998:ENSBTAT00000020753:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.128 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Chicken
(galGal4)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ACAAGGGTCAAAAATTAGAACCTATC
R:
CTCTTCCTCCATGACATAAGCGA
Band lengths:
302-1085
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development