RnoINT0138592 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29356544-29357795:+
Coord C1 exon
chr18:29356544-29356806
Coord A exon
chr18:29356807-29357736
Coord C2 exon
chr18:29357737-29357795
Length
930 bp
Sequences
Splice sites
5' ss Seq
GAGGTAGGT
5' ss Score
9.65
3' ss Seq
TTGAATTCTCTGCTTCCCAGGAA
3' ss Score
7.89
Exon sequences
Seq C1 exon
AGATTACAGCCTGGACTACCTGCCCTTCCGCCTGTGGGTAGGCATCTGGGTGGCCACATTTTGCCTGGCACTGGTGGCTACCGAGGCCAGCTTGCTGGTGCGCTACTTCACCAGATTCACAGAGGAAGGGTTCTGTGCCCTCATCAGCCTCATCTTTATTTATGATGCTGTGGGGAAGATGCTGAACTTGATCCGTGCCTATCCAATCCAAAGGCCAGGATCTCCTGCCTACAGTTGCTTCTGTCAATACCCAGGCACAGGAG
Seq A exon
GTAGGTGAGGGAAACTGGTACCTTGGCCGGGTGAGGAAAGATGTCGGAAATGGAGGAGGTTCAGAGAAACGCTGAGTACTTATCCAATAACCAGCAGTTCTGCTCTGGATCAGTTACAAAATAAATGTTGGGGGAGCCCAGGATTGTTTTTATTTCTGACAGCCCTGAGAGAAGAGTGTGGGGTAACGGGCTTCCTAGGAGAGAAGCCAAAGTCAGGTGTACCCAACCAAGAGTAGTAGCACGGGACTTGGGAGGGCTTTGTTGCTTCAGAGGAGCGGACCTCAGTACACCAACCAGGCAGCTTGCTCTAGAGAAAAGGGAGAGGAGAGGGCAGGACGAGGCATGCTCCGCTTCATCTCCCAAACTCACCAATCAAGCAACTCAGAGCTGAGTGAGAGCAGATAACCATGTGGGGAGGTTTGGAGCGTGACACCTGCATGGATCCCTCCATGTGGAAGGCAGCACCAGGAATTGGGGGACACGTCCTTTGTGGGAGGTGGTGGTTCTGGGTATATAAGATGCCCTCCAACTCAATATGTAAACCAAGATGACCTTGAACTCCTGATCCTCCTGTCTCCATCTCCAACTGGGTGGGCAGGAGCCAAGTACCTAGCTTAAAACGTATCTTCTCTGGTGTCTGCCCAATTCCACCAGTTCTGAATGAGACCAGTTCCTCCTCTGGTACAGACAGATCCATGAGCTCATGCATTCGGTCGATGTTTGATGCTTGGTTTTGCATTCAGCATCAGTGACATGGATGGGTGGAGAAAATGAGGGCATGGATGGGTAGTAACCTGAGAACACACTTAAGTGTGACAGACTCGGAAGCGTGATTGGAATCAAGACCTTTCTAGTTTGGGTGGAACAACAAGTTTGATAGACTCCAGTGGCGAAGTTTCTCAAGGAACACTTGAATTCTCTGCTTCCCAG
Seq C2 exon
GAAATGCATCTGAATTTGACAGTACGATGTTCAAAGACACAGAGGATGTCTTAAACGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:11
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:
PF0095516=HCO3_cotransp=FE(17.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(3.7=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:
TTACAGCCTGGACTACCTGCC
R:
CACGTTTAAGACATCCTCTGTGTCT
Band lengths:
319-1249
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]