GgaINT0018368 @ galGal4
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
solute carrier family 4, sodium bicarbonate cotransporter, member 9 [Source:HGNC Symbol;Acc:HGNC:11035]
Coordinates
chr13:987525-988422:+
Coord C1 exon
chr13:987525-987593
Coord A exon
chr13:987594-988248
Coord C2 exon
chr13:988249-988422
Length
655 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGCTGTCCTCTCCCTGCAGCTC
3' ss Score
12.63
Exon sequences
Seq C1 exon
TATATCCCGATGCCAGTGCTGTATGGGGTCTTTCTGCATATGGGAGTGGCAGCTCTGAACAGCATCCAG
Seq A exon
GTGAGTGGGGCTGCACAAAGCATGTCTCTGGATTGCATTGGGATACTTGGTGGGTTTTAGAGAGGAAGGGCTTTGCTAAATACCAGCTCACACTGTGCAGCATGGCTCAATGGCTGGAATGTGGACCTATGATCGGGCAGAGGGAAGGAATGGTGTCTGGGTTGCTGGGGAGCATGAGTGACTCCTGCACTGGTGGATCAGGTGGTTTGAGTGAAGCAGAGGCACCAGTGGATGGCTCAGAGCAGCTCCCTTACAGCAGCTCTGATTTGACACCTCTGCCCTACTCCTGCTAAACCCTGGGCAGGGAGAATCCATGCTCCAGAAATATCTACCTTTTTTTTTTTTTTTTCTATTTTTTTCCTAAACATCTGCCTGGAAAGAGCTCCTCTGGACTGGGGCAGTGGTGTGACCATAGCCCCAGGTTCTGTAGCACTGTTCAGATCAACTCCCCTGCAAGAGATCTCATAAGCAGCCCTGGCAACAGCATGGAGTGGCAGGGCAGAGAGCTTGTACTGCTTTGGGGGCAGTCACTGGCACCCCTCTGTACTAAGTGATGGGGTGGTCACAGCAGGGAGGTGGGTGACAGCTGACTGGAAGTGTGTAAGCGTCCCTTCCCTGTGCTGTGTTTGAGAAGCTTGCTGTCCTCTCCCTGCAG
Seq C2 exon
CTCACAGATCGAGTGCGGCTGCTTCTGATGCCTGCAAAACACCAGCCAGATCACCTCTATCTCCGCCATGTGCCACTGTGCCGGGTGCACCTCTTCACCTTCATCCAGCTGCTGTGCCTGGCCATGCTCTGGGTCATCAAGTCTACCGCGGCTGCCATTGTTTTCCCAGTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:20
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
NA
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
TATCCCGATGCCAGTGCTGTA
R:
CACTGGGAAAACAATGGCAGC
Band lengths:
238-893
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]