BtaINT0135301 @ bosTau6
Intron Retention
Gene
ENSBTAG00000046379 | SLC34A3
Description
solute carrier family 34 (type II sodium/phosphate cotransporter), member 3 [Source:HGNC Symbol;Acc:HGNC:20305]
Coordinates
chr11:105869570-105869982:-
Coord C1 exon
chr11:105869898-105869982
Coord A exon
chr11:105869660-105869897
Coord C2 exon
chr11:105869570-105869659
Length
238 bp
Sequences
Splice sites
5' ss Seq
CAGGTACCA
5' ss Score
7.88
3' ss Seq
GCTGACCCCAACCCCTGCAGGGA
3' ss Score
5.94
Exon sequences
Seq C1 exon
ATGCCGCATCCCCTCACCGGGGGCCCGGCCCCTCCCACCCCTCTGGACACAGTTGGCCTGGTAGACCAGAGGCTGGGAGACGCAG
Seq A exon
GTACCAGAGACCCAGGGGCCCAACCTCCGCCGGCATCCCTGCCCACCCACCTGGCCCCTGACTCATCGCGCTGGGGAAGCTGGGTGAGGGGTACTAGCCGGTCCCCAGGAGAGCCCACGAGCCAGACCCCTCCTTCCCGCTCCTGTCCCTCACCCCAAGCCCCTGTGTTGTGGGCCCCACCTGAAGGTATCCAGGAAACAGCTAGGTCCCTGGCCCTAGCTGACCCCAACCCCTGCAG
Seq C2 exon
GGATCTCTGGTTCTGCCTCCATCCTGGAAGACAGAGACATGGACCCCTGGGCCCTCCCTCAGCTGAAGGACACCGGACAGGCCTGGAGAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000046379:ENSBTAT00000063824:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.552 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
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGCCGCATCCCCTCACC
R:
CTCTCCAGGCCTGTCCGG
Band lengths:
175-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development