RnoINT0138459 @ rn6
Intron Retention
Gene
ENSRNOG00000014347 | Slc4a2
Description
solute carrier family 4 member 2 [Source:RGD Symbol;Acc:3711]
Coordinates
chr4:7265007-7265504:-
Coord C1 exon
chr4:7265335-7265504
Coord A exon
chr4:7265181-7265334
Coord C2 exon
chr4:7265007-7265180
Length
154 bp
Sequences
Splice sites
5' ss Seq
AAGGTTAGT
5' ss Score
8.54
3' ss Seq
CACCTCATCTCTGCCTCCAGGTT
3' ss Score
9.65
Exon sequences
Seq C1 exon
GACTCTCCATGGTCATTGGGGACCTACTGCGGCAGATCCCCCTGGCTGTGCTCTTTGGCATTTTCTTATACATGGGAGTTACTTCCCTTAATGGGATCCAATTCTACGAGCGGTTGCACCTGCTACTCATGCCGCCCAAACACCACCCAGATGTTACCTATGTCAAGAAG
Seq A exon
GTTAGTTTCTGCGCTGAAGGCCAGCCTGTTGGCCTCCTCCCTGTACAGAACAGTTCTGGAAATCCTGTAGTACTTCATCTCCCAGGGAGGGGAAGGACACTCATCGTCTTGGCTGGCTGGGCTGTGTCTAGGCTCACCTCATCTCTGCCTCCAG
Seq C2 exon
GTTCGGACCATGCGGATGCACCTGTTCACTGCCTTGCAGCTGCTCTGTCTGGCCCTGCTTTGGGCGGTCATGTCCACAGCTGCTTCCCTGGCCTTCCCCTTCATCCTCATCCTCACAGTGCCTTTGCGCATGGTGGTACTTACCCGGATCTTCACTGAGCGAGAAATGAAATGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014347:ENSRNOT00000019666:21
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(11.4=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(2.2=19.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGGCTGTGCTCTTTGGCATTT
R:
AAGGCACTGTGAGGATGAGGA
Band lengths:
252-406
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]