RnoALTA0028001-2/2 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000009448 | Papln
Description
papilin, proteoglycan-like sulfated glycoprotein [Source:RGD Symbol;Acc:1311176]
Coordinates
chr6:107273336-107276755:+
Coord C1 exon
chr6:107273336-107273502
Coord A exon
chr6:107276380-107276382
Coord C2 exon
chr6:107276383-107276755
Length
3 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
CCCTTTCTCTCGTCCTGCAGCAG
3' ss Score
10.89
Exon sequences
Seq C1 exon
GAACGGACTGCCAATACAGGCTGATGGCCACCGTGTGCACCAGTCCCCAGATGGCACACTGTTGATCCACAACTTGCGGCCCAGGGACGAAGGCTCTTACACATGCAGTGCCTTCCGTGGGAGCCAGGCTGTGAGCCGCAGCACTGAGGTGAAGGTGGCTCTCCCAG
Seq A exon
CAG
Seq C2 exon
CACCGGCCGCACAGTCCAGGGACCTAGGCAAGGACTGCATCGACCAGCCGGAGCTGGCCAACTGTGCGCTGATCCTGCAGGCCCAGCTCTGTGGCAATGAGTATTACTCCAGCTTCTGCTGTGCCAGCTGCTCCCGCTTCCAGCCGAACGCCCAGCCCGGTTGGCAGCAGGGATGAAGGCTGGCTGTGCACCAGTTCTGGATAGTTTGCTGGGAGAAGGGATGGTAAGACATGGCTTGCAGAGGGAGTCATCTTTCAGATATCCAGGGTTGAGCCCCAGCAGCTGCCAGTGCTGGCCTCCCCTCTAGTGCTCAGCAGTGTCTGCCTGATGTGACCACGGGCTGCTGTGAGAAGAGGAACCCTTTACACCTTCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000009448-32-33,32-32-2/2
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.211 A=NA C2=0.068
Domain overlap (PFAM):
C1:
PF0767911=I-set=PD(59.8=91.2)
A:
NA
C2:
PF086866=PLAC=WD(100=58.3)
Main Skipping 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:
ACTGAGGTGAAGGTGGCTCTC
R:
CAGGATCAGCGCACAGTTGG
Band lengths:
102-105
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]