DreALTD0005325-2/3 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000088593 | chst1
Description
carbohydrate (keratan sulfate Gal-6) sulfotransferase 1 [Source:ZFIN;Acc:ZDB-GENE-040801-21]
Coordinates
chr25:13921577-13924711:+
Coord C1 exon
chr25:13921577-13921677
Coord A exon
chr25:13921678-13921735
Coord C2 exon
chr25:13922470-13924711
Length
58 bp
Sequences
Splice sites
5' ss Seq
GAGGCAAGT
5' ss Score
3.32
3' ss Seq
TGAGATCTTTTGTTTTTCAGCTT
3' ss Score
8.02
Exon sequences
Seq C1 exon
GGGAATAAGGAGCCCTTCGACATTTGGAGATATGAATTAAAGCGATAAAGCGTCTATGACGGGCGTTACGGGACGACTACGCGAAGCCATCACGGCATATG
Seq A exon
GTGATTTTTTTCTCTTTTGTTTAATTTTTCGTCATGTTCTCATACAGCTTTATATGAG
Seq C2 exon
CTTTGTCTTTGTGGATAGGATCAAATCAGACTGCATCCTCTAAATGAAGTTACCCAGCCATGCAATGTTCCTGGAAGGCTGTGATTCTGCTTGCATTGGTGTCCATAGCGATCCAATACACAGCAATCAGGACTTTCACAGCCAAGCCTTTTCATATTTGCCCTGTTCCTAACCCCCTGAACTGTGGTTTGGGGCAGGATGTGGAGTCGTTCGATCGGATGTGTGATGAGTACCCATATTTTAATTACAATTCCTCAAGGAAGACTCACATCCTCATCTTGGCAACCACTCGCAGCGGCTCCTCTTTCGTTGGACAGTTGTTCAACCAGCACTCAGATGTGTTCTATCTCTTTGAACCACTCTATCATGTCCAAACGACCTTAATCCCTCACCTTTCTCCCAGCAGATACGCTGTGGAGCGCCGAGTGATGCTGGGAGCCAGTCGTGACCTTCTTAGAAGCCTGTACAACTGCGACTTGTATTTCCTAGAGAGTTACATC
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000088593-0-0,1-0,2-0-2/3
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
5' UTR
No structure available
Features
Disorder rate (Iupred):
C1=NA A=NA C2=NA
Domain overlap (PFAM):
C1:
NA
A:
NA
C2:
PF0068522=Sulfotransfer_1=WD(100=79.8)
Main Inclusion Isoform:
NA
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
No conservation detected
Human
(hg19)
No conservation detected
Mouse
(mm10)
No conservation detected
Mouse
(mm9)
No conservation detected
Rat
(rn6)
No conservation detected
Cow
(bosTau6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GTCTATGACGGGCGTTACGG
R:
ACAGCCTTCCAGGAACATTGC
Band lengths:
132-190
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]