RnoINT0138382 @ rn6
Intron Retention
Gene
ENSRNOG00000020951 | Slc4a1
Description
solute carrier family 4 member 1 [Source:RGD Symbol;Acc:3710]
Coordinates
chr10:90298579-90299006:-
Coord C1 exon
chr10:90298837-90299006
Coord A exon
chr10:90298753-90298836
Coord C2 exon
chr10:90298579-90298752
Length
84 bp
Sequences
Splice sites
5' ss Seq
AGGGTACTT
5' ss Score
5.15
3' ss Seq
TGACCTCGGCTTCCCCACAGGTG
3' ss Score
10.91
Exon sequences
Seq C1 exon
GACTGTCCATTCTCATGGAACCCATCCTGTCCCGCATCCCCCTGGCCGTACTGTTTGGCATCTTCCTGTACATGGGGATCACATCCCTCAGTGGCATCCAGCTCTTTGACCGCATCTTGCTCCTGTTCAAGCCACCCAAGTACCACCCAGATGTGCCCTTTGTCAAGAGG
Seq A exon
GTACTTGGCTCTGTAGCTGTCCAGCTAGGGTGGGGTAAGGGTGGGGTCAGAACAGGGCAGACACTGACCTCGGCTTCCCCACAG
Seq C2 exon
GTGAAGACCTGGCGTATGCACCTCTTCACGGGCATCCAGATCATCTGCCTGGCTGTGCTGTGGGTGGTGAAGTCCACGCCAGCCTCGCTGGCCCTGCCCTTTGTCCTCATCCTCACCGTGCCCCTGCGTCGTCTCCTCCTGCCGCTCATCTTCAGAGAGCTAGAACTCCAGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020951:ENSRNOT00000028445:18
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=FE(19.6=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(3.9=19.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTTTGACCGCATCTTGCTCCT
R:
TGAGGATGAGGACAAAGGGCA
Band lengths:
182-266
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]