RnoINT0137615 @ rn6
Intron Retention
Gene
ENSRNOG00000004626 | Slc34a2
Description
solute carrier family 34 member 2 [Source:RGD Symbol;Acc:620889]
Coordinates
chr14:60266312-60267886:-
Coord C1 exon
chr14:60267758-60267886
Coord A exon
chr14:60266456-60267757
Coord C2 exon
chr14:60266312-60266455
Length
1302 bp
Sequences
Splice sites
5' ss Seq
GAGGTAAGG
5' ss Score
10.28
3' ss Seq
GACCACTCTTTGTCTTCTAGGAA
3' ss Score
10.43
Exon sequences
Seq C1 exon
AGAGAGACTCCAAAGGGAAGATTCTCTGCATTTTCCAGGGGATTGGGAAATTCATCCTTCTCCTGGGGTTTCTCTACTTGTTTGTGTGCTCCCTGGATGTACTCAGTAGTGCCTTCCAGCTTGTTGGAG
Seq A exon
GTAAGGACCCCAATGGTTACTTTTTCAATTTAGGTGGGCAGCTCACAGGACTTCTCGCACTTCAACATGACTGACTATCTCAGACATGGGTGAGGGCAAACCTGACTGTCTCCTCCCCATCCCCCATCATACAGCAAAGAACTGAAGCATCTAAGTGGCTCTGGCTTTAACCCCAGGCTGGAGCTGATGTCAGCTATCAGAATCCTTTCCATTGTACCCAACCTCCAGCAGGAAACTGTTGACTCCCTTTATCTGCAGGATCCCTGCTGCCTCAAGGCTTCTCTAGTTTGAAAAAAAAAAAGTCTTCCCTTAGGCCAAAGCAAGTGGGAAAGATCAAAGCTGACCCTTGCTGGGAAGAGCCCACAGTAGATACCTTCCCTGGCCTGAGCATAGATCACAGTGGCCAATGTCCCAGAAACCCAGAATGAAGTGCCCATGTGTGCTCAGTTAACTTTGGACCCTCTGGGTAACCACAGATAGCACCCTGAGTGGCCCTGTCTGGAAGAGCCCTCTCTAAGGTCCCTCCCACACAGAAGAGATGACCAAGGCTCAGAGGTCACTAATCAGACTTTAAACACAGCCTGTAATGAACACAGTGGGATTACAGAGAGCTGATCTCATCCTTCCCAATCCTGTGTTTTAGGACAGGGCCCACTATTTCTGATTGGCTTGGAACACACAGACATCCTCATGTCTCTGCCTCCCAAATTCTGAGATTAAAGGCATGGGCCTAGCTGACCTGATTTTTTGACCTGAGAGATGGAGGAGGGTGGGTGGTAGGTAGGTCAATTGTCAGGGGCCACATCGTTGAATGTGGTCTCTCTGATCTTTAGAAACATTCATAAGGGGTTTGGCTTAAGATTACCTTAAATAATGCACATCCAGTCTCTAAGCCTCCATTATAAAATGGGTGGAGGAAAGACTGAGGGTCACATAGGTACACCCCCAAAAGACTCCTGTAGAATTCAGGCTGGGCTGCAGCTGAAGATGCTGAGGAATAAAGGATCGACTTAGAGGACTTAGGGGACTTAGGGGTGTCATAAAGATGAACGGAAAGAGGCTGGCTAAGGAGGGAATCTATAGAGTAAAAAGGCTAGACAGAGGTAGAGGGTGGAGGGTGGATGGTGGGACTGGAGTCTTACATGGACAGACAGCTTCCCTCTTAGAACAACGTAGGGAAGAACAGGAAGAAAAAAAAAAAAGCTAGGTTCCTACGCTACAGCCATCTGCCCTTGTGTGGACACTTGGGACTTCGTGGCACCATTCTCAGCTATCTCCAAATGACCACTCTTTGTCTTCTAG
Seq C2 exon
GAAAAATGGCCGGCCAGTTCTTCAGCAACAACTCCATTATGTCTAATCCTGTGGCTGGACTTGTGATAGGGGTGCTGGTGACAGTCATGGTGCAAAGCTCCAGCACGTCCTCGTCAATCATCGTCAGCATGGTTGCCTCCTCCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000004626:ENSRNOT00000048509:4
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(11.8=38.6)
A:
NA
C2:
PF0269010=Na_Pi_cotrans=FE(33.3=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:
AGAGAGACTCCAAAGGGAAGA
R:
ACCATGCTGACGATGATTGACG
Band lengths:
262-1564
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]