DreINT0151522 @ danRer10
Intron Retention
Gene
ENSDARG00000052330 | slc4a2b
Description
solute carrier family 4 (anion exchanger), member 2b [Source:ZFIN;Acc:ZDB-GENE-030429-14]
Coordinates
chr24:33389488-33390568:-
Coord C1 exon
chr24:33390399-33390568
Coord A exon
chr24:33389662-33390398
Coord C2 exon
chr24:33389488-33389661
Length
737 bp
Sequences
Splice sites
5' ss Seq
AAGGTCAGA
5' ss Score
6.8
3' ss Seq
ATCTCTGGTTTGGATCTCAGGTG
3' ss Score
7.44
Exon sequences
Seq C1 exon
GTCTGTCAATAGTTATCGGTGATCTGCTCCGGCAAATCCCCATCGCTGTGCTGTTCGGCATCTTCCTCTACATGGGTGTGATGTCACTGAACGGGATCCAGATGACTGAACGGATCCTGCTTCTGCTGATGCCTCCAAAATACCACCCTGACCACACATACGTGCGCAAG
Seq A exon
GTCAGACAGCAATCTGCTATTTTGCTTATTAAATAGACATAATTATGCCTTTTAAGGTCCCTACTGTTTAGATCTCCTTTAGAAAAATATTCAATTTTACAGTTTAAAAACTTTTTTTTTCTTGTAAATAGCCTGATTTTACAGCTCTCTTAGAGTTAAACAATTGAGGTTCACCACTTTTTTTTCAACCAGTCCGAGTCTGGCTGATGCACTTTTAGCTTAGCTTAGCTTAGCATAGATTATTGATTCTGATTAGACCATTAGCATCTAGCTCAAAAACCAAAGAATTTTAATCATTTTCCTTTGATGGATCTGCTGGTTTGTCAATTAAAATAAAATCACGACTTTTTTGATGCACATACACATCTTTTTTTTTCTTATTGGAGAAAAATAGCATCCAACCAGTTGTGCGCAAAAGTTTTTAATGGGCGTTGTTTTAAAATTAAGAGCATCTTGGTGTTTCCGTTTTTGCATTTTTAGAGTTACAAATCTACATAGGATTGTGCAGGAAGTAAGACTGGATTTACTCGACAGTAGTTCAGGCAGTTCAGAGTCACTTCTTTCCTATCTTTGAAACTTTGCAGACCTCTTACATTCACAACACGCTATGTGAAAAGAAAATGACTTGTGTTTTTGGTTTACTTTTTAAATCATAGAGGCAGTAACATGGACACTTGTATGAACGGTGAAGATGTGTTGTGCTGTGTTTGTTGACTGATCTCTGGTTTGGATCTCAG
Seq C2 exon
GTGCGGACGCTGCGGATGCATCTGTTCACAGCTATTCAGGTGGTTTGTCTGGCTGTTCTCTGGGCTGTCATGTCCACGGTGGCGTCGCTGGCTTTCCCCTTTGTTCTCATCATGACTGTCCCCGTCAAGATGTTTCTTCTACCACGCATCTTTAGCAATCGTGAAATGCAGTGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000052330:ENSDART00000149711:5
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(11.3=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=PD(2.2=19.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTGTCAATAGTTATCGGTGATCTGCT
R:
ACACTGCATTTCACGATTGCT
Band lengths:
342-1079
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]