DreINT0151519 @ danRer10
Intron Retention
Gene
ENSDARG00000052330 | slc4a2b
Description
solute carrier family 4 (anion exchanger), member 2b [Source:ZFIN;Acc:ZDB-GENE-030429-14]
Coordinates
chr24:33392616-33393284:-
Coord C1 exon
chr24:33393195-33393284
Coord A exon
chr24:33392783-33393194
Coord C2 exon
chr24:33392616-33392782
Length
412 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CGCAATGCTCCACCTTGCAGAAA
3' ss Score
7.88
Exon sequences
Seq C1 exon
TTAAGGAGAGTTATTGGAGATTTTGGAGTTCCTATTGCCATTCTCATCATGGTTCTGGTGGACTACAGTGTTAAAGACACATACACACAG
Seq A exon
GTGAGAATTAAGGCTTGCCTATTACTAGATGATTCTGAGAAACTGAAGAAATGTAATGCTTATTTTAGTCTATTGGCCCAAAATAGTAAATAGAAACTTTTGACCTAATAATTTGTCATTAAATTAACTATTTGTAATTAAATATATAATTATTGATTATTTGTCATTATTAATACATATTTTATTTAGAATATGATGCGTAGATTTAGTTATTGTTATTTATGTATCTTTATATTATGTTAATTTTTTTCTCTGTTGTAATTATTGTTGCTGTTTTATTTACTGTTTTAGTTCATCACTTTTTTTGTAGAAATCATATTTTATTATTATTTTTTTTTCATTATTAAACATTTTCTTTCTTTTCTTTATTATTGTTATTAATGAGATATTTTCGCAATGCTCCACCTTGCAG
Seq C2 exon
AAACTAAGTGTACCCCGAGGTTTTTCAGTAACTAGTCCTGATAAGCGAGGCTGGATAGTCAATCCTCTGGGCTCGGACGGTCAGTTTCCCATCTGGATGATGTTTGCCAGCATTCTTCCAGCTCTGCTCGTCTTCATTCTTATCTTTATGGAGACACAAATCACCAC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052330:ENSDART00000149711:2
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(5.9=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(11.1=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:
AGGAGAGTTATTGGAGATTTTGGAGT
R:
GTGGTGATTTGTGTCTCCATAAAGA
Band lengths:
254-666
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]