RnoINT0138450 @ rn6
Intron Retention
Gene
ENSRNOG00000014347 | Slc4a2
Description
solute carrier family 4 member 2 [Source:RGD Symbol;Acc:3711]
Coordinates
chr4:7269942-7270586:-
Coord C1 exon
chr4:7270361-7270586
Coord A exon
chr4:7270158-7270360
Coord C2 exon
chr4:7269942-7270157
Length
203 bp
Sequences
Splice sites
5' ss Seq
AGGGTACGC
5' ss Score
8.18
3' ss Seq
GATGGAGGCCTGGGTTGCAGCAC
3' ss Score
-0.38
Exon sequences
Seq C1 exon
CAATTCCACGAGGCAGCCTACCTGGCAGATGAACGGGATGACTTGCTGACTGCTATCAATGCCTTCCTGGACTGCAGTGTTGTGCTACCGCCTTCTGAAGTGCAGGGCGAGGAGCTGCTGCGTTCTGTTGCCCATTTCCAGCGCCAGATGCTAAAGAAGCGAGAGGAGCAGGGCCGCCTGCTGCCCCCTGGTGCTGGGCTAGAGCCCAAGTCTGCCCAAGATAAGG
Seq A exon
GTACGCCCGCCCGAGTAGCCTGGGCCAGGTGATGCTACCTTAAGGAGGGAGCTCATGGGCAGTGGACGGCCTGTAGGCACCTGACCGGAAGCCAACTACATTATCTCTATCTGTATTTAGCATGGTCTGCATTCATGGAGGAGGGCCTCTTGGGGGGAGGGGAGGTGCCACAGGCACCCTGATGATGGAGGCCTGGGTTGCAG
Seq C2 exon
CACTCCTGCAGATGGTAGAGGTGGCAGGTGCAGCTGAAGATGATCCCCTTCGGAGGACAGGCCGGCCCTTTGGGGGGCTGATCCGTGACGTGCGGCGGCGCTACCCGCACTACCTGAGTGACTTCCGAGATGCACTAGACCCCCAGTGCCTGGCTGCTGTCATTTTCATCTACTTTGCCGCCCTGTCGCCTGCCATCACTTTTGGGGGGCTACTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000014347:ENSRNOT00000019666:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.105 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.4=47.4)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(11.6=78.1)
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:
GTTGTGCTACCGCCTTCTGAA
R:
ACTGGGGGTCTAGTGCATCTC
Band lengths:
295-498
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]