RnoINT0138517 @ rn6
Intron Retention
Gene
ENSRNOG00000010378 | Slc4a5
Description
solute carrier family 4 member 5 [Source:RGD Symbol;Acc:1303009]
Coordinates
chr4:114964195-114965248:+
Coord C1 exon
chr4:114964195-114964349
Coord A exon
chr4:114964350-114965059
Coord C2 exon
chr4:114965060-114965248
Length
710 bp
Sequences
Splice sites
5' ss Seq
GAGGTGTGT
5' ss Score
6.14
3' ss Seq
CCATCCGCCTTCTCTTTCAGGAA
3' ss Score
12.8
Exon sequences
Seq C1 exon
CTCTTCAGCGATGTGGCTTATAAAGCACGGAATCGAGAAGATCTGATCGCAGGAGTTGATGAATTTCTAGATGAGGTCATTGTCCTTCCCCCTGGAGAGTGGGATCCAAACATCAGAATTGAGCCGCCCAAGAAAGTTCCCTCAGCCGACAAGAG
Seq A exon
GTGTGTGTTAGGGATAAGAACAACAGAGGGGGGGTTGGGGATTTAGCTCAGTGGTAGAGCACTAGAAAGTGCAAGGGCCTGGGTTCGGTCCTCAGCTCCGAAAGAAAAAAAAAAGAAGAAGAACAACATCGTCGGTATTTTCTTCTTGTTGTAGCAAATCAGAAGCCAACATGGCCACTTATGAACAGCTCTAAAGTCGGGGGTGGGAGTGTGGATGTGGGGATGGGCTGCGTAGGGGGAGCTGTATTACTGAATCATTTTCTGTCGTTGTGTGATATGTGCACGTGTGTGTTCCTGTCTGAATATGTGGGGGTGCATATGTGGAGGCCTGAGGGTGATACTAGAGAATTTTTCTTCATTTTTGGGCTCTTCTCCTTATTCATTGAGGCAGAATCTCTCCATGAACCCGGTGCCGACAGATTTGACTAGTCTTGTCCTAGCTTGTTCTGGGGTTCCCCAGTGTTAGAATTTCGAGTGACTGACTGCCTTGCCTACCTGATCATCATATGGCTTTTGGGAATCCCAACTTTGTCCTCTTGTTCCTGTGGCAAATGCTGTAAAGGCTGAGCTCCCACCCCCACCCCTATCTTCATTTCCCCTGATTTTTAAGATAGTTTTTTTTTCTTTGAAGGTTAAGGGGATAGTCCTGAGGGGCTGTGCCCTTCCTAGCGTTGAGAGCTGTGCTCTGCCCCATCCGCCTTCTCTTTCAG
Seq C2 exon
GAAATCTGTGTTCTCTCTGGCAGAGCTGGGCCAGATGAATGGCTCTGTGGGCAGAAGCGGAGCCTCGGCCGGAGGAGGCGGCAGTGGCGGAGGGGCTGGAGGCAGCGGGGCCGGCGGAGGAGGCAGTGGCAACGAGGCTGAGATGCCAGCTATGCATGAAATTGGGGAGGAGCTGATCTGGACCGGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010378:ENSRNOT00000014249:11
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.154 A=NA C2=0.484
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.4=69.2)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(1.2=9.4)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTCTTCAGCGATGTGGCTTAT
R:
CTTCCGGTCCAGATCAGCTCC
Band lengths:
344-1054
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]