RnoINT0138536 @ rn6
Intron Retention
Gene
ENSRNOG00000010378 | Slc4a5
Description
solute carrier family 4 member 5 [Source:RGD Symbol;Acc:1303009]
Coordinates
chr4:114954985-114956064:+
Coord C1 exon
chr4:114954985-114955145
Coord A exon
chr4:114955146-114955911
Coord C2 exon
chr4:114955912-114956064
Length
766 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
CTTGTTTGTTTTTCCTCCAGATG
3' ss Score
11.41
Exon sequences
Seq C1 exon
GTGGATAAAATTTGAAGAAAAGGTAGAGGAAGGAGGAGAACGCTGGAGCAAGCCCCATGTGTCCACGCTGTCCCTGCACAGCCTCTTTGAGCTCCGCACTTGCCTGCAGACAGGGACGGTGCTGCTGGATCTGGACAGTGGCTCTCTACCACAGATCATAG
Seq A exon
GTGAGTCCAGGACATCTCTGCTGTGGTCCCCGAAAACCAGGGCAATTTCCCCAACCTCATGTCAACCTGCAAGTCTGTATGACTGGCCATCTCAACACTTGCCTGATTCTGCAGGATTTTGACTCTGGCACTGTCCCAACTGCTTCTAGTTTCCACACTATGCATATCGCCAACAGAGCATCCCTGAGATGTAGCTCAACAAGGTGGTAGACAGGGAGAGGGGCTCCTCGGATGGGCAGAGTGGCATTGCCATAGCAACTTGTTTCTTTTCAGAGGAAAATGGACTCTCTTTCTTCTTTTGAAAACTAGCTCCCTCTTAATGGAGTGTCAGTCAAGGAGGTGGCTTGTCTCTTTGTCCCTAAACATCCCTATGAGTTTTAGTCTACCTAGTACATTTGATACGACTATAACTATTTCTTTTCTAAAAAAATAATTCATTTGGGGGATGAAAATCATTTAACACAGCACCTTTTTGCTTCCTGGTGCACTTTCATAGGTCTTATTTAAAGCATGTTTCACAACAGGGATGGAAAGAACAGAGACTTCTGTCCACACACGCACACACCGGAGACATATGCGCAACCTTATACACGAAGATGTTGGGGTTGGCAGTCCTGACTGTCAGTGGTAAAGCCACAGGACTGTTTTCAAATCCCTGATCCCTTTGCTAATTCTCAGCCCCACTAATAGCCCAGAAGAAGTGAGGCCTCAAAGCCCTGGGCTCTTTCTCTTCCACATGGGCCCAACTTGTTTGTTTTTCCTCCAG
Seq C2 exon
ATGATGTCATTGAGAAGCAGATAGAGGGTGGACTTCTGCGACCAGAGCTCCGGGAAAGGGTCAGCTACGTGCTCCTGAGGAAGCATCGCCACCAAACCAAGAAGCCCATCCACCGTTCCCTTGCAGACATTGGGAAGTCGGTTTCTACTACGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000010378:ENSRNOT00000014249:5
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.095 A=NA C2=0.308
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PU(17.5=85.5)
A:
NA
C2:
PF075658=Band_3_cyto=FE(19.0=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGAAGAAAAGGTAGAGGAAGGAGGA
R:
TCGTAGTAGAAACCGACTTCCCA
Band lengths:
302-1068
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]