RnoALTD0021190-1/2 @ rn6
Alternative 5'ss
Gene
ENSRNOG00000008639 | Pabpc1
Description
poly(A) binding protein, cytoplasmic 1 [Source:RGD Symbol;Acc:619838]
Coordinates
chr7:75418645-75419098:-
Coord C1 exon
chr7:75419042-75419098
Coord A exon
NA
Coord C2 exon
chr7:75418645-75418760
Length
0 bp
Sequences
Splice sites
5' ss Seq
GGAGTAGGC
5' ss Score
0.41
3' ss Seq
AGTGTTCTGTTTTACCTTAGGTG
3' ss Score
9.71
Exon sequences
Seq C1 exon
GGCAAGCCAGTACGCATCATGTGGTCTCAGCGTGATCCATCACTTCGTAAAAGTGGA
Seq A exon
NA
Seq C2 exon
GTGGTTTGTGATGAAAATGGCTCCAAGGGCTATGGATTTGTACATTTTGAAACACAGGAAGCAGCTGAAAGAGCTATTGAAAAAATGAATGGAATGCTTCTAAATGATCGTAAAGT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000008639-6-4,7-4-1/2
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=0.000
Domain overlap (PFAM):
C1:
PF0007617=RRM_1=PD(25.4=27.7),PF0007617=RRM_1=PU(40.6=43.1)
A:
NA
C2:
PF0007617=RRM_1=FE(55.1=100)
Main Inclusion Isoform:
NA
Other Inclusion 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
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAAGCCAGTACGCATCATGT
R:
ACGATCATTTAGAAGCATTCCATTCA
Band lengths:
167-263
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]