BtaINT0126728 @ bosTau6
Intron Retention
Gene
ENSBTAG00000003205 | RPL35
Description
Bos taurus ribosomal protein L35 (RPL35), mRNA. [Source:RefSeq mRNA;Acc:NM_001034495]
Coordinates
chr11:95854148-95854734:-
Coord C1 exon
chr11:95854693-95854734
Coord A exon
chr11:95854285-95854692
Coord C2 exon
chr11:95854148-95854284
Length
408 bp
Sequences
Splice sites
5' ss Seq
ATGGTGAGT
5' ss Score
10.13
3' ss Seq
AGACCTTCCCTGTCGGGCAGGCC
3' ss Score
6
Exon sequences
Seq C1 exon
TTTCCCTCCGAGAAGGCAGCGGAGGCAGACTATACAGTCATG
Seq A exon
GTGAGTGTGGGGAATCGGCCGCCATCCGCGTACTGTGGGGCTTAGGGGCCGGGATGGAGAGCGTGTAGCGAGAGCTGAGAACCCATCTGCCAGCCTGACCTGTGGGACGCGTTGCGAAGTGGCCTAGCGCCACCTCAGTCTTCCCCCCACCTCAGGCCTGGGCCCTGAGAGGTACGCGCGCCCTCCCGGGGCCTCCGTCTGTCCGTCTGCGGAATGGGAGTAGGGGACCAACCTCGCAGCAGGACTGGGCGAGGGCGCGTCTCCTGGGGTCTGGGTTGCCCTGCCCGAGGCGGGTAGTGCTGGGTCTCCAGAGCGCTCTTGGCCCAGGGCAAGGCGCTCGGCCTCGAGGGGCGGGCTGCGACGCAGGTGGAGGGGAGGTGTTTGACCCAGACCTTCCCTGTCGGGCAG
Seq C2 exon
GCCAAGATTAAGGCTCGAGACCTTCGCGGCAAGAAGAAGGAGGAGCTGCTGAAACAGCTGGAGGACCTGAAGGTGGAGCTGTCCCAGCTGCGCGTGGCTAAAGTGACAGGCGGCGCGGCTTCCAAACTCTCCAAGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000003205:ENSBTAT00000004161:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.087
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0083118=Ribosomal_L29=PU(69.5=89.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development