DreINT0151590 @ danRer10
Intron Retention
Gene
ENSDARG00000073952 | slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:ZFIN;Acc:ZDB-GENE-140106-104]
Coordinates
chr16:42806859-42807458:-
Coord C1 exon
chr16:42807353-42807458
Coord A exon
chr16:42807021-42807352
Coord C2 exon
chr16:42806859-42807020
Length
332 bp
Sequences
Splice sites
5' ss Seq
CAAGTATGC
5' ss Score
5.38
3' ss Seq
TTTGTTGTCTCTCTTTAAAGGAT
3' ss Score
10.93
Exon sequences
Seq C1 exon
ATGTCAGTGTTCACCTCCTTCCAATACCACACAGAAGATGGAGCAGTCATGGAACCAGTCAGGGTTTACTTATGACACCATTAATTGGACTGAGCTTAATGTGCAA
Seq A exon
GTATGCAGATTATTTTCAAAGTGTTTTTTAAAGGCCAATGTTAAAGTTACTACGTGTTTTCTTTACATTTTTTTAACTATGCAAATGTTTTCTGTTTAATTTCCTTAAACATCAGAATAAGGTGTCCAGTATTAAGATTCTCATTCAACTTTTAAAAAAAGTTTATAAAAATGTCTTTTCTTTTGACAAATATAAAATATAGAAATATTTATAACTAAAAAAGCAGCCAAAATGCTCTTTAGGCTAGGAAAATTCACATCAGTTTAATTATCTGTAAGCGTAATTGAAAATTTCGTAATCACAGAAATATGTTTTGTTGTCTCTCTTTAAAG
Seq C2 exon
GATTGCAGGGATCTTCATGGCGAGTTTGTGGGTCCTGCCTGTGGACATAATGGCCCGTACATCCCTGATGTGTTGTTCTGGTCGGTCATTCTCTTCTTCACCACTTTCTTCCTCTCATCCTTCCTCAAGCAGTTCAAGACCAAGCGCTATTTCCCCACTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073952:ENSDART00000112879:15
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(10.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TGTCAGTGTTCACCTCCTTCCA
R:
GTGGGGAAATAGCGCTTGGTC
Band lengths:
263-595
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]