GgaINT0018369 @ galGal3
Intron Retention
Gene
ENSGALG00000001045 | SLC4A9
Description
NA
Coordinates
chr13:1440929-1441399:+
Coord C1 exon
chr13:1440929-1441102
Coord A exon
chr13:1441103-1441231
Coord C2 exon
chr13:1441232-1441399
Length
129 bp
Sequences
Splice sites
5' ss Seq
ATGGTAGGA
5' ss Score
6.66
3' ss Seq
ATGCTCTGCCCTGGCCCCAGCTG
3' ss Score
5.77
Exon sequences
Seq C1 exon
CTCACAGATCGAGTGCGGCTGCTTCTGATGCCTGCAAAACACCAGCCAGATCACCTCTATCTCCGCCATGTGCCACTGTGCCGGGTGCACCTCTTCACCTTCATCCAGCTGCTGTGCCTGGCCATGCTCTGGGTCATCAAGTCTACCGCGGCTGCCATTGTTTTCCCAGTGATG
Seq A exon
GTAGGATGTCTCTTGTAACCAGACTGGTTAAAACCCACTGACCTGAACCCACACGGGAAGCATCACACTGCTAGTCCCCTGGCCTAAGCCCTGTGCACAGTGCTGATTTATGCTCTGCCCTGGCCCCAG
Seq C2 exon
CTGCTGGCTCTGGTGGGGATCCGGAAGGCGCTTGAGTGCATCTTCTCCTTGCATGACCTGAGCTGGCTGGACAACAATTTGCCTGCAGCAGCAAGGAAGGAAGCAGAGGGGAAACTGCACAGGAAGCAGGAAGAGCAGGAAAGCAATGCTGATGAAGAGGTGGGTGAT
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000001045:ENSGALT00000001559:19
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.411
Domain overlap (PFAM):
C1:
PF0095516=HCO3_cotransp=PD(6.5=58.6)
A:
NA
C2:
NO
Main Inclusion 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:
AACACCAGCCAGATCACCTCT
R:
CCTCTGCTTCCTTCCTTGCTG
Band lengths:
246-375
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]