RnoINT0137626 @ rn6
Intron Retention
Gene
ENSRNOG00000010451 | Slc34a3
Description
solute carrier family 34 member 3 [Source:RGD Symbol;Acc:708551]
Coordinates
chr3:2451956-2452771:-
Coord C1 exon
chr3:2452685-2452771
Coord A exon
chr3:2452085-2452684
Coord C2 exon
chr3:2451956-2452084
Length
600 bp
Sequences
Splice sites
5' ss Seq
AAGGTAGGA
5' ss Score
9.45
3' ss Seq
GTCCTATCTGATGTCCGTAGAGG
3' ss Score
7.48
Exon sequences
Seq C1 exon
GGACCTCTGGTTCCACCCCAGGCTTAGAGGAGGGAGGCACAGACCCCTGGACCTTCTCTCAGCTGAAGAATACTGACCAACTCAAAG
Seq A exon
GTAGGATGCGGGTGTGACACAGCATGCAGGCAGGCCCTGGTGTCCCCTTTCCCAGCAGAGTATAGTCTGGGACTTGAAAGATCCCACCTCCTAGAAACCTACATTAAAATGCTTGAGGAGGGGCTGGGGATTTAGCTCAGTGGTAGAGCGCTTACCTAGGAAGCGCAAGGCCCTGGGTTCGGTCCCCAGCTCCGAAAAAAAAGAACCAAAAAAAAAAAAAATGCTTGAGGAAACCTTCTCCCAGCCACTTGTCTTTCTTTTGTTCCCTGTTAATGGCTCGGGTTCTGTGACTCCCCCTTCAAGGTCATGGAGTAGCCATATTGCAAAGGAGCAAAGGGGGACAGAGAAGGGGACTCCGTCTCTGCCCTGGGGGACTAATGCAAGGGGGAGACGTGGGTCCCTGCCCAATGGGACAAAAGGGACACCCTGTGCTCTGCCTGAGAGGTGACAGGAAATATGGACCCTGTTCTCAGGGAGCAAAGTGTGTGTGTGTGTGCGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTAGGGGGATGGTTGCTAGGCAGTAGCTGGCTGGTCAAATATAGTCCTATCTGATGTCCGTAG
Seq C2 exon
AGGTTGGCACAGCCAGCAAGCTGCACCAGGTGGTCAGCGGCTTCCTCAAGGCATGCGGACTCCTGGGAAGCCTCTACTTTTTCATCTGCTCCCTGGACATCCTCAGCTCTGCGTTCCAGCTACTAGGCA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010451:ENSRNOT00000014060:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.445 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0269010=Na_Pi_cotrans=PU(11.6=38.6)
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:
GACCTCTGGTTCCACCCCA
R:
GCCTAGTAGCTGGAACGCAGA
Band lengths:
214-814
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]