DreINT0150635 @ danRer10
Intron Retention
Gene
ENSDARG00000028824 | slc34a1a
Description
solute carrier family 34 (type II sodium/phosphate cotransporter), member 1a [Source:ZFIN;Acc:ZDB-GENE-101006-3]
Coordinates
chr14:824236-824903:-
Coord C1 exon
chr14:824736-824903
Coord A exon
chr14:824353-824735
Coord C2 exon
chr14:824236-824352
Length
383 bp
Sequences
Splice sites
5' ss Seq
CAGGTCAGT
5' ss Score
8.94
3' ss Seq
TGTGTGTGTTTGTGCATCAGATT
3' ss Score
7.57
Exon sequences
Seq C1 exon
GTCGTCATGTGTTCGTGGATACAGGGCTGTCAGATCTGGCTGTGGGACTCATTCTGCTGGCCGGATCTCTGATGCTGCTGTGCTCCTGCCTGCTGTTCATCGTTAAAGTGCTCAACTCACTTCTCAAAGGTCAAGTGGCCAAGGTCATCGAAGGGGTCATCAACACAG
Seq A exon
GTCAGTGTCTGCATGTATATATATATATACTAACTAACAAACTAATTAACTAACTGAATGAATAAATAAATAAATAAATAGAGATAAAATTAAATAATAATAATAAATGCATTTTTTAAAGATACCTGATTAAATAAAATTAAAATATTAAATAAATTTAATATTGTTCACGTATATATTATTTGTATATTATATATTTATAAACAATAATAAAAATAATAATAATAATAAACAAAATTTAGAACATTTTGTTGCCTAAATCAAGTAAAGTGTGTTTTCCAATGGATCTGTGTATGTTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTTTGTGCATCAG
Seq C2 exon
ATTTCCCGTATCCTCTAGGATGGCTGTCTGGATATCTGGCGATGCTGATGGGAGCAGGAATGACCTTCATCATCCAGAGCAGCTCCGTCTTCACCTCCGCCCTCACTCCACTCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028824:ENSDART00000148687:10
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=0.000
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=PU(19.6=47.4)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(26.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCGTCATGTGTTCGTGGATAC
R:
GATGAGTGGAGTGAGGGCGG
Band lengths:
284-667
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]