DreINT0150640 @ 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
chr14:831934-832610:-
Coord C1 exon
chr14:832476-832610
Coord A exon
chr14:832078-832475
Coord C2 exon
chr14:831934-832077
Length
398 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAAT
5' ss Score
8.39
3' ss Seq
CGCTGTGATCTTCTCTATAGGGA
3' ss Score
9.88
Exon sequences
Seq C1 exon
TGTCTTCAGACTCCAGCGAGAGCCGAAGCGCAGGCATGTTCAGCAGTGTTCTCAGGATTCCTCTGCTTCTGCTGCTGCTCTATGGGTTTGTCTGTTCACTGGACGTCCTAAGCTCCGCGTTTCAACTCGCTGGAG
Seq A exon
GTAAATACTCATCTCACTGTAATTCACCTAGTTAAGTCTTTACATGTCAGTTTAAGTTGAATACTAAATAAATTAATATATTGAAAAATATTAAATTATTAAAAAAAGACTAGTAAATTATTATATGTTGCCATCATGGCAAAAGACATTAGTTATTAAGAAAATGTTATTAAATTAATTATGTTTTGAAAAATAATCTCAGTTAAACAGCACTTGTATAATATTTAAAAAATAAATAGTAATAAAATGAATATGAATGAAGGTCTTAAGGGTTTGAGACAACTTGAAGATGAGTAATCAATTGCATAGTTGTAATTTTTGTGTGAACGAACCCTTTAATGTGATCAGGTCAGACTCAGCAGTGTGTCATGAATCCTCCGCTGTGATCTTCTCTATAG
Seq C2 exon
GGAAAGTGGCCGGTGATATCTTCCAGGACAGTGTGATCCTGTCCAACCCGGTGGCGGGGCTGATGGTGGGCATTCTGGTCACGGTTCTGGTCCAGAGCTCCAGCACCTCTACATCCATCATAGTCAGCTTAGTGTCGTCTGGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028824:ENSDART00000148687:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.046 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0269010=Na_Pi_cotrans=PU(11.3=44.7)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(32.0=100),PF061616=DUF975=PU(25.6=65.3)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCTTCAGACTCCAGCGAGA
R:
TCCAGACGACACTAAGCTGACT
Band lengths:
278-676
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]