RnoALTD0028148-4/4 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000020138 | Slc4a3
Description
solute carrier family 4 member 3 [Source:RGD Symbol;Acc:3712]
Coordinates
chr9:82743438-82744393:+
Coord C1 exon
chr9:82743438-82743566
Coord A exon
chr9:82743567-82743782
Coord C2 exon
chr9:82744116-82744393
Length
216 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
CCACTCTCCTGCACCCCCAGTTC
3' ss Score
7.3
Exon sequences
Seq C1 exon
ATGTAGAAGAGGAGGATGATGACTTGGGCAAGACCTTGGCTGTGAGCAGGTTTGGGGACCTCATCAGCAAGACCCCGGCCTGGGACCCTGAGAAGCCTAGCCGCAGCTACAGCGAGCGCGACTTTGAGT
Seq A exon
GTGGGTAGCCTGGGGACCCCTAGTGCTACAGCCTTCACCACCATCACCTTCATCACCACCATTACTGCGCTCACCTCCGGCTTGATCACTCAGTGTTATCCTGTGCTGGACGCTGTGCTGGGCCACCATGCCATGTTAAGTCATCCTGCCTCCCATACCATCACCTTGTTCACCTGTCAGGGGAGCTGGGCTCCAGACCAGGGGAGATGTAGGGAG
Seq C2 exon
TTCACCGGCACACATCCCACCACACCCATCACCCGCTCTCAGCCCGCCTGCCTCCACCCCACAAGCTACGGCGACTGCCCCCCACCTCTGCTCGGCACGCCAGGAGGAAGAGGAAGAAAGAGAAAACCTCTGCTCCCCCCTCAGAAGGGACACCCCCTATCCAGGAGGAGGGGGGAGCTGGAGCAGAAGAGGAGGAGGAGGAAGAGGAGGAAGAAGAGGGAGAGTCTGAGGCAGAGCCTGTGGAGCCTCCACCCCCAGGGCCACCACAGAAAGCAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000020138-6-6,7-6,8-6,9-6-4/4
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
ORF disruption when splice site is used (sequence inclusion)
No structure available
Features
Disorder rate (Iupred):
C1=1.000 A=NA C2=1.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
NO
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg19)
No conservation detected
Mouse
(mm9)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
ATGACTTGGGCAAGACCTTGG
R:
CTCCTCTTCTGCTCCAGCTCC
Band lengths:
305-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]