RnoALTA0017580-3/3 @ rn6
Alternative 3'ss
Gene
ENSRNOG00000030530 | Gzmm
Description
granzyme M [Source:RGD Symbol;Acc:620022]
Coordinates
chr7:12895432-12899004:-
Coord C1 exon
chr7:12898911-12899004
Coord A exon
chr7:12895512-12895591
Coord C2 exon
chr7:12895432-12895511
Length
80 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
AGCCCTCCCTCCCTTCTCAGTAG
3' ss Score
7.8
Exon sequences
Seq C1 exon
GGGGCCCCTTCCCCCAGGGACCACCAGTCCTGTGCCAGGATGGAGGTCCGCTGGTCCCTGCTGCTCCTGCTGGCCCTGAAAACACTGTGGGCAG
Seq A exon
TAGGCAACAGATTTGAGGCCCAGATCATTGGGGGTCGAGAGGCAGTCCCGCACTCCCGCCCATACATGGTCTCGCTACAG
Seq C2 exon
AATACCAAGTCCCACGTGTGTGGGGGAGTCCTCGTGCATCAGAAGTGGGTGTTGACCGCTGCCCACTGCCTGTCTGAACC
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030530-1-3,1-2,1-1-3/3
Average complexity
Alt3
Mappability confidence:
NA
Protein Impact
Protein isoform when splice site is used (Ref)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(20.0=83.3)
Main Skipping Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Mouse
(mm9)
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:
CCCCAGGGACCACCAGTC
R:
GTTCAGACAGGCAGTGGGC
Band lengths:
162-242
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]