DreINT0151500 @ danRer10
Intron Retention
Gene
ENSDARG00000028173 | slc4a2a
Description
solute carrier family 4 (anion exchanger), member 2a [Source:ZFIN;Acc:ZDB-GENE-051101-2]
Coordinates
chr2:32429212-32429734:-
Coord C1 exon
chr2:32429518-32429734
Coord A exon
chr2:32429416-32429517
Coord C2 exon
chr2:32429212-32429415
Length
102 bp
Sequences
Splice sites
5' ss Seq
TCGGTACAA
5' ss Score
2.47
3' ss Seq
TTCATTCTTAATGTTGTCAGCTT
3' ss Score
2.95
Exon sequences
Seq C1 exon
CACTTCCATGAGGCGGCGTATTTAGCGGACGGACGCCAGGATCTACTGACCGCCATCAACAGCTTCCTGGACTGCAGTATTGTGCTGCCTCCATCTGAGGTTGGAGGAGACGAGCTGCTGCACTCCATCGCCCGCTTCCAGAAAGAGATGCTGCACAAGAGACACGAGCAGGAGGTTAAACTACAGGCCAAAGAGCCCAAGAGCCCAGATGACATCG
Seq A exon
GTACAAGGCTCTATTTGAGAAAGTCAATGCGAAAGTCAACAGAATTCTTTCATGTTTATCCAAAATTAAATGATCTCTTTCATTCATTCTTAATGTTGTCAG
Seq C2 exon
CTTTACAACCTCCTCTGAAACCTGAAGATGACCCTCTTCGGAGGACAGGGAGGCTGTTTGGTGGTGTTATCCGAGATGTGCGGCGCCGATACCCCAAATACATCAGTGATTTTAAGGATGCGCTGAGTCCTCAATGCATGGCTACTGTCATATTCATTTACTTTGCTGCTCTCTCTCCTGCCGTTACCTTTGGAGGACTATTGG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000028173:ENSDART00000041319:13
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.205 A=NA C2=0.116
Domain overlap (PFAM):
C1:
PF075658=Band_3_cyto=PD(13.1=49.3)
A:
NA
C2:
PF0095516=HCO3_cotransp=PU(28.2=82.6)
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:
ATGCTGCACAAGAGACACGAG
R:
GCAGGAGAGAGAGCAGCAAAG
Band lengths:
251-353
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]