DreINT0151587 @ danRer10
Intron Retention
Gene
ENSDARG00000073952 | slc4a7
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 7 [Source:ZFIN;Acc:ZDB-GENE-140106-104]
Coordinates
chr16:42811303-42812025:-
Coord C1 exon
chr16:42811851-42812025
Coord A exon
chr16:42811437-42811850
Coord C2 exon
chr16:42811303-42811436
Length
414 bp
Sequences
Splice sites
5' ss Seq
ATAGTGAGT
5' ss Score
6.97
3' ss Seq
TTTGTCTGCATTTGATCCAGAGT
3' ss Score
6.16
Exon sequences
Seq C1 exon
GATATTTGGGGGCCTGGTGCTAGACTTGAAGCGGAAAGCTCCGTTTTACTGGAGTGATGTTCGGGATGCTTTTAGCCTGCAGTGTTTGGCCTCCATCCTTTTCCTCTATTGTGCCTGTATGTCCCCCGTCATCACCTTCGGAGGCCTTCTGGGGGAAGCCACCAAAAACAACATA
Seq A exon
GTGAGTCTCGTAGACCTCTGATGGGAATGATCTGTAGAGGATTAAAGGAATACCAAAAATTATAACTCTGTCATCATTTACCAATTTTTCTTCAGCTGATCGCAAAAGAAGATATTTTGAAACCATTGACTTCCATAGATATTTTTGACTTCCATAGTATTTGTTTTTTCCTACTGTGGAAGTCAATGTATACAGGTTGCAGCTTCAAAATGTCTTCTTATTGTGTTTAACAGAAAAAAGATTTGAAACCTCTTGTAAGTTGTGTGTACATTTTTAGTTTTTGGGGGAATTTTCCCTTTAAAGCACTGGACAAAATAGATTTTACTGGAATCATTGTGTAGCCCAATCGCTATGTTTTTATTCTTTACTTGACCTCATTTGTGATTACTTCTCTTTTGTCTGCATTTGATCCAG
Seq C2 exon
AGTGCCATTGAGTCTCTATTTGGAGCTTCACTCACCGGTGTGGCCTTCTCTCTGTTTGCCGGTCAGCCTCTCACTATCCTGGGCAGCACCGGGCCAGTTTTGGTTTTTGAGAAGATTCTTTTTAAGTTCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000073952:ENSDART00000112879:12
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=FE(8.7=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:
ATATTTGGGGGCCTGGTGCTA
R:
TGCAGAACTTAAAAAGAATCTTCTCA
Band lengths:
307-721
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]