RnoINT0137610 @ rn6
Intron Retention
Gene
ENSRNOG00000004626 | Slc34a2
Description
solute carrier family 34 member 2 [Source:RGD Symbol;Acc:620889]
Coordinates
chr14:60259970-60260677:-
Coord C1 exon
chr14:60260510-60260677
Coord A exon
chr14:60260087-60260509
Coord C2 exon
chr14:60259970-60260086
Length
423 bp
Sequences
Splice sites
5' ss Seq
CTGGTAAGT
5' ss Score
10.65
3' ss Seq
GCCCTCTCTTTGTCTTCCAGATT
3' ss Score
11.63
Exon sequences
Seq C1 exon
GCCAGCACATCTTCGTGAATTTCAGCCTCCCAGACCTCGCTGTGGGCATCATCCTGCTCACTGTCTCCCTGCTGATCCTTTGCGGCTGTCTGATCATGATTGTCAAACTGTTGGGTTCTGTGCTCAGGGGACAGGTTGCCACTGTCATCAAGAAGACCCTTAATACTG
Seq A exon
GTAAGTCCAACACTTGCACCCTGTTCTAGCCTTCGGGGGATGTGTGTGTGTGTGGACACCTGAGTAGGGCTCTGAGCATCTCAGGGTTTGCCAGAACCAGGGGCCCAATTCCATACAGACAGTACAGGGGTGAGTTCACAGCTCATCCCCAAATGTGCAGGGATGCCAGACCAGGCTGAGGAAGGGGGGTGTATTTTTAGGTGTCCATCTTTGTCAATCTGGTCTTGCTCTCAACATATCCTTGGCTTATGTGAACTTGTTAAGATGATGTAGATGAGGGAAGGGTTTTAGAAGCCTACCTGGTAATTCCAGGTCATGTGTGGGGTTATAACCCTTCACTCACTCTGGCTTGCTCCTCAGTCCTAACTAAGGAAGTGCCAGCAGTCCTAGGGACTCATGGCATGCCCTCTCTTTGTCTTCCAG
Seq C2 exon
ATTTCCCCTTTCCCTTTGCCTGGCTGACTGGCTACCTGGCCATCCTTGTGGGGGCAGGCATGACCTTCATAGTGCAAAGCAGCTCTGTGTTCACTTCTGCCATGACGCCACTCATCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004626:ENSRNOT00000048509:10
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(19.1=47.4)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(27.7=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:
GCCAGCACATCTTCGTGAATT
R:
CGATGAGTGGCGTCATGGC
Band lengths:
285-708
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]