DreINT0151428 @ danRer10
Intron Retention
Gene
ENSDARG00000060303 | slc4a10b
Description
solute carrier family 4, sodium bicarbonate transporter, member 10b [Source:ZFIN;Acc:ZDB-GENE-081105-62]
Coordinates
chr9:51774247-51775979:-
Coord C1 exon
chr9:51775728-51775979
Coord A exon
chr9:51774316-51775727
Coord C2 exon
chr9:51774247-51774315
Length
1412 bp
Sequences
Splice sites
5' ss Seq
AAGGTCTGC
5' ss Score
5.38
3' ss Seq
TGTTAATTGTGTTCCCTCAGTTC
3' ss Score
8.45
Exon sequences
Seq C1 exon
AAGGGCTGTGGGTATCATCTGGACCTGTTTATGGTGGGTGTGATGCTGGGCGTTTGCTCTATTATGGGCCTGCCATGGTTTGTGGCGGCGACCGTCCTGTCCATCTCTCATGTCAACAGTCTGAAGCTGGAGTCCGAGTGCTCGGCGCCTGGAGAACAGCCCAAATTCCTGGGCATCAGAGAGCAGCGGGTCACTGGACTCATGATCTTCCTCCTCATGGGCTGCTCTGTATTCATGACCTCCGTGCTGAAG
Seq A exon
GTCTGCAGATCTGTTACTGTATCTCCATACTTTCAAGAGACAACAATTATTAGCAATTTATTGATGCAGTTTATTTATAAAAATTAAAAATTAATAATATAGAGTTGAAGTCAATTGTTCGCCTTCCTGTTAAATTTTATTTATTTATTTGTTTAATATTTCCCAAAAGATGTTTAACAGAGCAAAGAATTCTTTACATTATTTCCTTAAATATTTTTTCTTCTGGAGAAAGTCAGATTTGGTTTATTTCGGCTAGAATAAAAGCAGTATTGAATTTTTTAAAACCATTTTACGGTCAATATTATTAGCCCCCTTAAGCAACATTTACCCAGCAGGCACACAACATCAGAAGATGTTAATATTAGGTAAGATTAAGGTCATGACGACAGGTGACCAAAATTCAATGTCTAGCCAGTGTCTAAAACCAATGATATTTTGACGTCCAATAACAACATCAAATTATACTAATATTTGGTTGATTTTAGATTGTGTTGGAAAGTGACCCAAATCTAACGTCTGACAGATGTCATAGTGGTAACGTCCACACAATATTAAAGTGTAACATGATTATATATTGATATTTGGTTGATTTTAGGTTGATTTTAGATTACACATTAGACATTGATGTCAACCTGATTTATATTTCCAAACAAAATCCAACATCCTCACACAACTTTAGGGTATAATGTCAGTATGACGTCATGCTGGCGTCCTGTGCCTGTCTACAGAACAAACTATTATGTTGAGTAATGTGTTGAAAATCTTATTTTCGTTAAACAGAAAGTGAAGCAAACATACAGAGGGGAGCAAAAATTCTGACTTCAACTTTATAGAGCTCAGCATAATTGAGTACACTATATCTGTATCTATTTTCCAGTGAATATAATTAATATATTTTGGTGTATTTGAATAAAACAGATATATTTGTTAAAATATTATTTTAGACACAAATCATCTTTAGAAATAGAAAGATACAATTAAATTCAAGCAAAATATTGAAAAAAAAAAAAAAAAATATATATATATATATATATATATATATATATATATATATATATATATATATATAAAATATATAAGCTACAGAATTCCATTTTTTTGTTTCTTTTGATTTTTGCTCTTTTTTTATTTTTACTTAATATTTTTTCACTAACATTTAAATTTGTGCTACTAATTTTTTAACCGTTATCGTAAGTTATATTGTTAGATTAGCTCCAGATTTGGCTTCAATACTGACTAATCTGATGTTTATGCATTATAATATGTGTTATGCACTATAATATGTGTACAATATAATATAATGTTGTAAAGCTTCCTACAGAAAATGTCAATTTAAATGAGAGATTTGTGAGGTTACTATATTAGTTATTGGAGGAGGATATCATAATAAAATGTTAATTGTGTTCCCTCAG
Seq C2 exon
TTCATTCCAATGCCGGTTCTGTATGGAGTTTTCCTGTACATGGGTGCGTCTTCACTGAGAGGAATACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000060303:ENSDART00000139316:8
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(16.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(4.3=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:
GGGCTGTGGGTATCATCTGGA
R:
TGTATTCCTCTCAGTGAAGACGC
Band lengths:
318-1730
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]