RnoALTD0029333-2/6 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000001435 | Ssc4d
Description
scavenger receptor cysteine rich family member with 4 domains [Source:RGD Symbol;Acc:1306970]
Coordinates
chr12:23760365-23761779:+
Coord C1 exon
chr12:23760365-23760676
Coord A exon
chr12:23760677-23760831
Coord C2 exon
chr12:23761702-23761779
Length
155 bp
Sequences
Splice sites
5' ss Seq
TGGGTGAGA
5' ss Score
6.04
3' ss Seq
TTCTGCCCCTACTGAGCCAGGCC
3' ss Score
0.58
Exon sequences
Seq C1 exon
GCGGTAGGCTGAGGCTAGTAGGCGGCCCCAGCCCTTGTCGCGGTCGCGTGGAGGTGCTGTACGCCGGAGGTTGGGGCACCGTGTGCGACGATGACTGGGACTTCGCGGACGCGCGCGTGGCCTGTCGCGAGGCGGGTTGTGGGCCTGCGCTAGGCGCCACGGGCCTTGGTCATTTTGGCTATGGCCGAGGCCCTGTGCTGCTGGACAACGTAGGCTGCACCGGTACCGAAGCCCGCCTCAGCGACTGCTTCCATCTGGGCTGGGGCCAGCACAATTGCGGCCACCACGAAGACGCTGGAGCTTTGTGCGCAG
Seq A exon
GTGAAGCTGTGGAGTCGGATAAGGAGTGGGCGGGGCCCGACGAATAGGAAATATGGGCGGGGCACTCTGAAAGAAAAGCAGAGCAGCGCAAGCAGAGCAAGCAGGGCTGAGGGCCCATAAGAGAGGCAGTGTACATGCGCGTACCAACAATATGG
Seq C2 exon
GCCCAGAGGAGCTGGGACTCCAGGTCCAGCAGGATGGTTCTGAGACCACCCGAATGCCCAGTCCTCGGCCCAGAGATG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000001435-9-9,10-9,11-9,12-9,13-9,14-9-2/6
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=0.000 A=NA C2=0.667
Domain overlap (PFAM):
C1:
PF0053013=SRCR=WD(100=93.3)
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:
GATGACTGGGACTTCGCGGA
R:
ATCCTGCTGGACCTGGAGTC
Band lengths:
258-413
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]