RnoINT0136911 @ rn6
Intron Retention
Gene
ENSRNOG00000047781 | Slc25a23
Description
solute carrier family 25 member 23 [Source:RGD Symbol;Acc:1588586]
Coordinates
chr9:9988057-9989614:+
Coord C1 exon
chr9:9988057-9988209
Coord A exon
chr9:9988210-9989487
Coord C2 exon
chr9:9989488-9989614
Length
1278 bp
Sequences
Splice sites
5' ss Seq
CAGGTACTA
5' ss Score
7.64
3' ss Seq
CTTCTGTCTCTCTCTACTAGGGC
3' ss Score
11.67
Exon sequences
Seq C1 exon
ATGCGGGGGGGCTCAGGCGACGCGGAGCGGCGGCAGCGCTGGGGTCGCCTGTTCGAGGAACTAGACAGCAACAAGGACGGCCGCGTGGACGTGCACGAGTTGCGCCAGGGGCTGGCTAGGCTGGGAAGGGGCGATCCGGACCGTGCACAGCAG
Seq A exon
GTACTATGGGCAGCGACCACTGCGGCAGAGTCCGCCCGTGCCGTAACGGGTGCCCCTTATTGCCGCGGATATAGCGGCCACTTGCTACCTGTTGGCTGGACCCCACCACTGCTGTCAAGGCTCCCTTCCCTCTGTCCACCTGCGTCCGCGTCTGGCCTGACATCGTCGCGAGACGAGACTGCCAAGGCTCCGGGCCTGCAGCGGCTGCAGCTGCCAGGGCCCAGTCGTTTCCCCCTCCCCCCAGGCTGCGGGATGCCAAGGGGGGGGGGTGGACTGCAGAGCCGGACGCTTTCCCCTCCACTGCCCGGAGCCAAACCCTCCGCTTCTCTGTGCACCATTCGAACGGTGACCCGCTCCCACCTGCAGTTAGCACAACTTGGCACACTGAGCCCTGCCAGCTCTCCTAGTCTCTTATTTACTTTTGCCCCTGGTGCTTTCCCGGACCTGGCCAGTTGCCCCAGGCTGCTCCAGCTAGGGATTCAGGTCCATCTTAGGTCACTCTGCCTCCCCTGCGGTCTGACCTGTCTGGGAAGGAATTTGAGGTGGGGGTGCAGTTTAGCGGTAAAGCTCCTTCCTAGTGTGTGCAAATCTAGGCTCCAGCCTCAGCATGGGAGGTGGCAGTGGGGAGCAGCAAAAACTGGCCCTTCCTCCGTGTGACAGGTGTCTCTCACATGGCACTCCTAGCCTTCCCTAAAACAGACCTATTGCATTTTTGTTGACCTTGAGTTCAACTTTTGGATTGGAATATTAGAGGCCCCATGGCTGTTGGACCTTGTATGAACTAGAACTGTTTCTAACAGGACAATACACACACACACACACACACACACACACACACACACACACAAGACTGCCAAGAAGACGGGGTTTTATAAGAAAAAACTGCGTGGGCAGGCTTGGGAGGCAAAGTGATGAAAGAGAATCAGAGTCAAGGTCTCCTCCAGAGAATTCAAGGCTAGCCTGGGCTACATGAGACAGGTGTCTCAAAATGACAAAAAAAAAAGTGCCCCCAGGTTGCCATTTCCCAGTTCTATGACCTTGAACTGCCTCTGTAACTTTAGAGTCCTCAGTCAGCCGGACTGAGGCACCAAGCAGATTCTTATTGCGGCCTGAGGCATCTTGCTGCAAAGTGGGCTGGCTGGCTGACTACCGAGGTGAAGCCTCCTGCTCCCTCTGTGAGTTCCTGAGGCACGCGGCATGCCTTAGCTGTCTTATGCACACCTTGTGGGGGTAGAGACTGCTGGAGTCCCTGCATCCCCTTCTGTCTCTCTCTACTAG
Seq C2 exon
GGCATCTCCTCTGACTGGGACAGTGATGCAGATGGCGGCCTCAGCCTGGAGGAGTTTACTCAGTACCTGCAGGAACGGGAGCAGCGCCTTCTGCTCATGTTTCACAGCCTTGACCGGAACCAGGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000047781:ENSRNOT00000073000:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.436 A=NA C2=0.151
Domain overlap (PFAM):
C1:
PF134991=EF-hand_7=PU(63.1=80.4)
A:
NA
C2:
PF134991=EF-hand_7=PD(33.8=51.2),PF134991=EF-hand_7=PU(22.5=41.9)
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:
GGTCGCCTGTTCGAGGAACTA
R:
CATCCTGGTTCCGGTCAAGG
Band lengths:
238-1516
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]