DreINT0151424 @ danRer10
Intron Retention
Gene
ENSDARG00000060303 | slc4a10b
Description
solute carrier family 4, sodium bicarbonate transporter, member 10b [Source:ZFIN;Acc:ZDB-GENE-081105-62]
Coordinates
chr9:51782202-51783884:-
Coord C1 exon
chr9:51783779-51783884
Coord A exon
chr9:51782364-51783778
Coord C2 exon
chr9:51782202-51782363
Length
1415 bp
Sequences
Splice sites
5' ss Seq
GAGGTCAGC
5' ss Score
5.66
3' ss Seq
AACCTATCATCTGCTTTCAGGAC
3' ss Score
8.77
Exon sequences
Seq C1 exon
ATGTTCCTGTATTGAACCCGAAAACCCTAGTAATGCCACTCTGCAATATTGGGAGCAGAACAACATTTCAGCGCCAGAAATATTTTGGGAGGCTCTGGAAGTTGAG
Seq A exon
GTCAGCATTGAGGAAAACCTACTGATGTTAACTCTGTCAGACTTACTGTATATTTTCTCTATAGGCCTCTAAATGATCAACATGATCAACCGTCCCAACTAACAGGGAACATTTCTAGAGCATTAAGTAGCGTTTCTTAAAAGTTGTGTAAATATTAGCATGCAACATTAAAAAACATTGATGGAAAACATTATTAAAAATAGTCTTTAGGATGTTTGTTATTGATGAATGTTCTCATAATGTTGATAAAGAGGCATTTTTAGAACATTAATGTAGTGTCAATGAAATGTTCTAATAACCATTTAAGTAACATTATGAGAACATTAATATAACATGAGACTAAAACATTATGAAAACTGTCTGTTGTTCATTCTATCTTCATTCATTTATATATTTATTCATACAGTCAACTGAGGTGTCAATAACTAACGTCAACTCAATACAAACCCCCAAACACACCCTAGCAACCAGCTACAGCATCCTAGCAACTACTTGATAGACACTCACATAGACTTGGCGCTGGGCTCATTTAACTAAGAGTAGCAAGCAGCCAATAAAGGATGACTATATAAACTCTTAACCACACCCTAGCTACCAATTACAGCACCCTAGCAACTGATCCCTCAGACTGCCATTATAAAAAAAAAACAGATGTGTATCTTTGGAATACAGTGTCAGAGACTTGAGGGTGGGCAAACAGCCAATTACACAGCACATTTGCCACAACCTAGCAACCACTTTAAAGCACCCTAGCAACCCAACCCAAAGATTGATGTCTTCAAATCCAAGAAATTTAGAGATGGGGTTCTCATAATGTTGATGGAAAAACATTCTTAGAACATTAATATAATGTGAAATGTTCTAATAACATTTAGGTAACATCATGAGAACATTAATATAACATGAGACCGAAATCATATGAAAGCTGTCGTTCATTCTATATTCATTCATTTATATATTTATTCATACAGTCAACTGAGGTGTCAATAACTGACGTCAACTCAGTACAAACACCCTACAAACACCCTAGCAACCAGCTACATCATCCTAGCAACTACCTGATAGACACTCACATTGACTTGGGGCTGGACTCATTTAATTAAGAGTAGCAAGCAGCCAATAAATTATGACTATACAAACTCCAAACCACACCTTAGCAACCAGTTACAGCACCCTAGCAACTGAACCCATAGAGTGCAATTATAAAAAAAGGCCCAGATGTGTATCTTTGGAACAGTGTCAGAGACTTGAGGGTGGGCAAACAGCCAATCACACATCACTTTTGCCACACCCTAGCAACCCCTGTCGAGCAGGCTAACAACCAAACCCAAAGATTGATAACTTTAAATCCAAGTGTTAAATAGACATGGGGTTTAAATAACTGCTTTAAATAATAACCTATCATCTGCTTTCAG
Seq C2 exon
GACTGTATTGAGAAGAAAGGTGTATTTGTGGGGTCTGCTTGCGGGCCTCATGGTCCGTATGTTCCCGATGTTCTCTTCTGGTCTATCGTTCTCTTCTTCTCCACGGTCGCCATGTCTGCTTTTCTCAAAGAGTTCAAGACCAGCCGCTATTTTCCCACCAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060303:ENSDART00000139316:4
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(6.8=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.3=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:
CCTGTATTGAACCCGAAAACCCT
R:
CTTGGTGGGAAAATAGCGGCT
Band lengths:
263-1678
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]