RnoALTD0030640-4/4 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000050573 | Tgfbr3l
Description
transforming growth factor beta receptor 3 like [Source:NCBI gene;Acc:688681]
Coordinates
chr12:2543569-2544492:-
Coord C1 exon
chr12:2544295-2544492
Coord A exon
chr12:2544069-2544294
Coord C2 exon
chr12:2543569-2543683
Length
226 bp
Sequences
Splice sites
5' ss Seq
ATGGTCTGG
5' ss Score
-0.83
3' ss Seq
TTTCTTCTCTTGCACCTCAGTGT
3' ss Score
8.15
Exon sequences
Seq C1 exon
GCGGCCCTGGCCCGTCCTTCGCCAAGATGGGGCCTAGCCCTGCACCGCTGCTCAGTAACGCCTTCTTCACGCCCGGCCCTGGGACCTGCCCTGGTGCTTCTCCGTGGGGGTTGCCCCGCCGACGACTCTGTCAGCTTCTCACCACCTCCACGCCCGGATGCTGCTAGCGTCGCACGCTTCAGCTTCCGCCTGCGCCCG
Seq A exon
GTATTCAATGCCTCAGTACAGTTCTTGCACTGCCAGATAAGCCGTTGCCGCCGTCGCCGCAGTCACCACCGCCGAGCTGTCCGCCAGACACCAGTGCCTTTGACCCCACCAGCACCGTTGCGGGTTCGCTAGTAGAAACAGCAGTCTCGGAACCTGCGGAATATTCTCTAGCTAGGCAAAAGCGTTTCTGGCAGCAGAGGGACCTTAGGAGGCAAAGTGCTTTATG
Seq C2 exon
TGTCTGCCTCAGGATGAGGCATGTGCCGGCAGCAGCTTGAGCCTTGGTACTGACAGCCCCCACCTGCACATGTTGACACAGCCCATCGTGGTTACAGTACCTCGTCCGCCCCCTA
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000050573-3-3,4-3,5-3,6-3-4/4
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=0.243 A=NA C2=0.564
Domain overlap (PFAM):
C1:
PF0010018=Zona_pellucida=PD(62.5=88.8)
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:
CGTCCTTCGCCAAGATGGG
R:
GCGGACGAGGTACTGTAACCA
Band lengths:
295-521
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]