RnoINT0138458 @ rn6
Intron Retention
Gene
ENSRNOG00000014347 | Slc4a2
Description
solute carrier family 4 member 2 [Source:RGD Symbol;Acc:3711]
Coordinates
chr4:7265335-7265849:-
Coord C1 exon
chr4:7265596-7265849
Coord A exon
chr4:7265505-7265595
Coord C2 exon
chr4:7265335-7265504
Length
91 bp
Sequences
Splice sites
5' ss Seq
TGGGTATGC
5' ss Score
6.57
3' ss Seq
TGTTTCTTCCCCTTTCCCAGGAC
3' ss Score
10.43
Exon sequences
Seq C1 exon
GTTGATCATCTCCAAGAAAGAGCGGATGCTTCAGAAGGGCTCTGGCTTCCACCTTGATCTGTTGCTCATTGTAGCCATGGGTGGCATCTGTGCCCTCTTTGGCCTGCCTTGGTTGGCTGCTGCCACTGTCCGCTCTGTCACTCATGCCAATGCACTCACTGTCATGAGCAAGGCTGTGGCACCTGGTGACAAACCCAAGATTCAGGAAGTCAAGGAGCAGCGGGTGACCGGGCTGCTGGTGGCCCTGCTTGTGG
Seq A exon
GTATGCTGCCTATACTCTGAACCTCACCTTCCCTGGGAAGTCCCCAGGTTTACCAACTGGAGGGGACCAACTGTTTCTTCCCCTTTCCCAG
Seq C2 exon
GACTCTCCATGGTCATTGGGGACCTACTGCGGCAGATCCCCCTGGCTGTGCTCTTTGGCATTTTCTTATACATGGGAGTTACTTCCCTTAATGGGATCCAATTCTACGAGCGGTTGCACCTGCTACTCATGCCGCCCAAACACCACCCAGATGTTACCTATGTCAAGAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014347:ENSRNOT00000019666:20
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(17.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.4=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TTCAGGAAGTCAAGGAGCAGC
R:
GCAACCGCTCGTAGAATTGGA
Band lengths:
171-262
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]