BtaINT0056827 @ bosTau6
Intron Retention
Gene
ENSBTAG00000001552 | EPC1
Description
enhancer of polycomb homolog 1 (Drosophila) [Source:HGNC Symbol;Acc:HGNC:19876]
Coordinates
chr13:33516078-33516690:+
Coord C1 exon
chr13:33516078-33516219
Coord A exon
chr13:33516220-33516326
Coord C2 exon
chr13:33516327-33516690
Length
107 bp
Sequences
Splice sites
5' ss Seq
CAGGTAGGG
5' ss Score
9.46
3' ss Seq
GCGTCTTTCCTTTTCCCTAGGAG
3' ss Score
11.7
Exon sequences
Seq C1 exon
GGTTTTGTGTCCAAGACTTTGGATTCTGCTAGTGCTCAATTTGCTGCTTCTGCTTTGGTGACATCGGAACAACTGATGGGATTCAAGATGAAGGAGGATGTGGTGCTTGGAATTGGGGTGAACGGCGTCCTTCCAGCCTCAG
Seq A exon
GTAGGGAGAGAGACATGTCAGCAGTTGAGATTGTTTTTGTGACGTACGTCAGTAATAAACCAAAAGCAAAGTTGCGGTTGTTCAGCTGCGTCTTTCCTTTTCCCTAG
Seq C2 exon
GAGTATACAAGGGCTTACACCTCAGTAGTACTACACCCACAGCACTTGTCCACACGAGTCCGTCGACGGCAGGGCCGGCTTTGCTGCAGCCTGCAAGCGTGACCCAGACTGCGGGTTCCCACAGTGCGCCGGGTCACCCGGCGACCGCTGCCAACTCCGCCACAACTCAGGTTCTGATTGGGAACAACATTCGATTGACTGTACCTTCATCAGTTGCCACTGTAAACTCTATCACCCCCATAAATGCACGACACATACCTAGGACTTTAAGTGCTGTCCCATCGTCTGCCTTAAAGCTGGCTGCTGCAGCGAACTGTCAAGTTTCCAAGGTCCCGTCGTCGTCCTCCGTGGATGCCGCTCCACG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000001552:ENSBTAT00000002038:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.459
Domain overlap (PFAM):
C1:
PF067527=E_Pc_C=FE(18.0=100)
A:
NA
C2:
PF067527=E_Pc_C=FE(46.4=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:
TGACATCGGAACAACTGATGGG
R:
GAACCTGAGTTGTGGCGGAG
Band lengths:
258-365
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development