DreINT0019535 @ danRer10
Intron Retention
Gene
ENSDARG00000002771 | SLC4A5 (1 of 2)
Description
solute carrier family 4 (sodium bicarbonate cotransporter), member 5 [Source:HGNC Symbol;Acc:HGNC:18168]
Coordinates
chr5:27465780-27466159:-
Coord C1 exon
chr5:27466046-27466159
Coord A exon
chr5:27465942-27466045
Coord C2 exon
chr5:27465780-27465941
Length
104 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGA
5' ss Score
8.68
3' ss Seq
TTTTTTTTTCAATCATGTAGCCC
3' ss Score
6.93
Exon sequences
Seq C1 exon
TTGAGGAAGTTAATTAGTGACTTCTCCATCTTCATGTCCATCATGACGTTTGTGGGTCTGGACATGCTAATAGGTTTGAAAACACCCAAACTCATTGTGCCTACCGAGTTCAAG
Seq A exon
GTGAGAGTATAAATTAGGTTGATGTTGTGTGACTTTTTCAATGAAGTTCCTTATAATTTTATTCCAACACATTGTTTTGTTTTATTTTTTTTTCAATCATGTAG
Seq C2 exon
CCCACACGTCCTGACCGAGGATGGTTTGTGATGCCATTTGGAAAGAATCCATGGTGGGTTTACCTGGCAAGCTTCGTCCCTGCTCTCCTCGTCACCATCCTTATCTTCATGGATCAGCAGATCAGCGCTGTTATCGTCAACCGGAAGGAAAACAAGTTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000002771:ENSDART00000138140:15
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(7.1=100)
A:
NA
C2:
PF0095516=HCO3_cotransp=FE(10.2=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:
TAGTGACTTCTCCATCTTCATGTCC
R:
GGTTGACGATAACAGCGCTGA
Band lengths:
242-346
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]