RnoINT0138595 @ rn6
Intron Retention
Gene
ENSRNOG00000018525 | Slc4a9
Description
solute carrier family 4 member 9 [Source:RGD Symbol;Acc:628811]
Coordinates
chr18:29358329-29359812:+
Coord C1 exon
chr18:29358329-29358442
Coord A exon
chr18:29358443-29359650
Coord C2 exon
chr18:29359651-29359812
Length
1208 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CCCATGGAATGTCCCCTCAGCCT
3' ss Score
3.73
Exon sequences
Seq C1 exon
GTGCGAAAGGTGTTCAGCGACTTTTCCTCAGTCCTGGCCATCCTGCTGGGCTGTGGCCTTGACGCCTTTCTGGGCCTAGCCACACCGAAGCTCTTGGTACCCACAGAATTCAAG
Seq A exon
GTAAGAGCGGGGCAGGATGAGGGGGCAAGGAGGAAGTGGGGCCAGCAACTTGGAGTAATAAGATTTGTGGATTCCATTCTTTCCCGCCGAGCTCCCTCCATCACTCAGGATAGAGACAGTAAAAACAATGGCCTCACAGAGTCACTGAGTGATAAAATGAGGTATTTCAACAGACACATCAGTGAGTGAGGAATGCTGTATACGGTAGCTAGCTATTATTATAGGGTAGGTGTTGGAGGACAGGCTCCAGCCAGCAAGTCTTGCTCTAGGCATCTCCTTTTTAAAAGACAGAGACTCACGTAGTTCAGGTTAACCTCAAACTCCAAACACAGCTCAGGCTGGCCTTGAACTCATTATCCTCCTGCTTTAACCCCTCATGCGCTGTGCTGTAGTTATAAACACACATCACCATATCTTCCCTGATAATTTCTTAGCCTATAAAATGGTTGTTTGGGGTTTACATACTACAGTGTAAATAGTTACTACAGTTACTCTGTAAATGCTGCTGTTACAGCTTCTCCCTGCCACTGGCCCTACCTTCTTCCATACCCTCTACTCTTCTTCACGCCCCTCCCTACCAACTCGGAGCTGGAGCTCCATCTGTAGGGCGGGGCCACCAGGGCAGAACAGCAAGGGGGCTCTCCAGGGGTGGCTTTAGACCTCAGAACCCCAGCCAGCTACATGGGCCCCCTCCCCACCACAGACGCTTATAAATCAGGGCAGACACAGACACACCTAGCCCTGCCCCAGGCTGAGGCAGGTCTGAACCTGAGTTGCCCCATTCTGGGTGTGGGGGGCAGGGAGGGTGAGCCTAAGGAAGAAAGCTGTGAATAAGTACAGAGTGGTGTATGCAGGTATTATTTACCAACTCTTCTTTCAGAGAGAGAGAGAGAGAGAATGTCCCCTCCCCACAAAGTCCAGAGACCTTCTTTCTGTTCTTTTAAGGCACTGGGATACACTGAAGGAGAGTAGTGTGTGTGTGTTGGTGTAGGGGTGTGTGTGTGTGTGTGTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTGTCTGTCTGTGTCTGTCTGTGTGACAGTGCTCTCACCTAGAACCTAAGGTCTCGGGGGCAGGATGTGGAATGTGGTAGACTGGCTAGGCAGTGGTTGGGGTGTGCTGGCGAGGTGTTCTTAGGAGACGTTTCCACCCTGCCCATGGAATGTCCCCTCAG
Seq C2 exon
CCTACACTCCCTGGGCGTGGCTGGCTGGTGTCTCCTTTTGGAGCTAACCCCTGGTGGCTGAGTGTGGCTGCTGCCTTGCCTGCTCTGCTGCTGTCTATCCTTATCTTCATGGACCAGCAGATCACAGCGGTCATCCTCAACCGTGCAGAATACAGACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000018525:ENSRNOT00000025137:14
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(7.2=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.3=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCGAAAGGTGTTCAGCGACTT
R:
CAGTCTGTATTCTGCACGGTTGA
Band lengths:
271-1479
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]