DreINT0151518 @ danRer10
Intron Retention
Gene
ENSDARG00000052330 | slc4a2b
Description
solute carrier family 4 (anion exchanger), member 2b [Source:ZFIN;Acc:ZDB-GENE-030429-14]
Coordinates
chr24:33393195-33393625:-
Coord C1 exon
chr24:33393369-33393625
Coord A exon
chr24:33393285-33393368
Coord C2 exon
chr24:33393195-33393284
Length
84 bp
Sequences
Splice sites
5' ss Seq
AGGGTAAAA
5' ss Score
4.51
3' ss Seq
AAAACTCCTTTTATTCACAGTTA
3' ss Score
5.8
Exon sequences
Seq C1 exon
TGGCTCAGATTTTCCAGGAGCATCCTCTGCAGCGCTGCTCTGCTGTGCTTGTGGACGTCAGAAACTCCTCGCTGAACTCCAGCATGGATGAAGTGACGGAAAGTCCATTAGCAGTTACGAACAGCAGTTCACAGGAGATGCTGAAGGTGGTGGGGGAACCAAACACTGCTCTGCTGTCATTAGTGCTCATGTCTGGCACCTTCCTCATCGCTTTTTACCTGCGCAAGTTCAAGAACAGCGCCTTCTTCCCGGGCAGG
Seq A exon
GTAAAAGCCAAAACACACAATGTTGAGTTGCGACTGCAAGGAATAATTTGTGTGAAAGCGATCTAAAACTCCTTTTATTCACAG
Seq C2 exon
TTAAGGAGAGTTATTGGAGATTTTGGAGTTCCTATTGCCATTCTCATCATGGTTCTGGTGGACTACAGTGTTAAAGACACATACACACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052330:ENSDART00000149711:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.007 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PU(25.7=96.5)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(5.9=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:
CCAAACACTGCTCTGCTGTCA
R:
ACACTGTAGTCCACCAGAACCA
Band lengths:
170-254
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]