DreALTD0002837-2/2 @ danRer10
Alternative 5'ss
Gene
ENSDARG00000079388 | agrn
Description
agrin [Source:ZFIN;Acc:ZDB-GENE-030131-1033]
Coordinates
chr23:23731923-23741071:+
Coord C1 exon
chr23:23731923-23732530
Coord A exon
chr23:23732531-23732563
Coord C2 exon
chr23:23741033-23741071
Length
33 bp
Sequences
Splice sites
5' ss Seq
AGCGTATGT
5' ss Score
6.12
3' ss Seq
CTCTCTCTTTCTCCCTACAGATA
3' ss Score
13.91
Exon sequences
Seq C1 exon
CCAGTGGAGCTTTTGTCAAACACACTTGAGAGAACTTACACACTAACCTTTCATGACAAATCACCGATGCTTGGGAAAGAAATGGAGGGATTGTCGGAAGGTTAGGGACTCTAGGACCAGTACCCTACCAGAGAGGCTGTAATTTGGGAACAAAATGCGTTGCTTGGAGACTGGTGAAAGCATTCGTCTACGTTTTTCAGGAAGGAACTGCGATAAGAAGCATCACCGGAGTTTTAGCTGAAACCCTTTTTGGATTTCTTTTGTCTACCCTTTTTCTCTGAGTCTGTTTGGAACGCTTGCCAACTTGGCGTACTTTAGGGAAGGCGCGGAGTGGAGTATGACCAGTTGTCAGTACCCCACGCCGCCCCCAGAGCGGGACCGCATGTACCAGCACAAAGTGTCGCTGGTCGTGCGATACTTCATGATTCCTTGCAACATCTGTCTCATACTGCTGGCCACATCCACGCTCGGCTTTGCTGTACTCCTCTTCCTCAATAACT
Seq A exon
GTAGGTCACAGTTAGTGAAACATGACATGCAGC
Seq C2 exon
ATAAACCTGTTCACTTCACACCGGCACCTCCTCCTGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSDARG00000079388-3-7,4-7-2/2
Average complexity
Alt5
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (No Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.102
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0314610=NtA=PD(10.5=14.3)
Main Inclusion 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:
GCTGGTCGTGCGATACTTCAT
R:
CCGGTGTGAAGTGAACAGGTT
Band lengths:
122-155
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]