GgaINT1014476 @ galGal4
Intron Retention
Gene
ENSGALG00000015192 | GZMM
Description
granzyme M (lymphocyte met-ase 1) [Source:HGNC Symbol;Acc:HGNC:4712]
Coordinates
chr28:3115220-3115852:-
Coord C1 exon
chr28:3115500-3115852
Coord A exon
chr28:3115365-3115499
Coord C2 exon
chr28:3115220-3115364
Length
135 bp
Sequences
Splice sites
5' ss Seq
GAGGTGAGC
5' ss Score
8.7
3' ss Seq
ACGTGCGCCGTGTCCCGCAGTGC
3' ss Score
8.18
Exon sequences
Seq C1 exon
GGGACCAGCATGGAGAGGAGCGCAGTTCTGGGGCTGCTGCTGCTGCTGGCGCTGCCCAACCCTGGGCTGGGTGAGCACTGCAGTGGGGCCGGGGTGGACGATGGGGCCTCCGTGGCACCGCAGGGAGCAGCAGAGCGCGGGGGCAGCCATCCCCGCTCCTCAGCGGTGGCCGTGGGATGGGCTGCCCCCCCCCTGGCAGCGCAGTCCCATCTGCGCATCATCGGGGGACACGAGGCCAAGCCCCACTCCCGGCCCTACATGGTGTCGGTGCAGTCCAAGGGGGTGCACACCTGCGGGGGGGCACTGCTGAACCCACGCTGGGTGCTGACGGCTGCACACTGCATCCCAGAGAG
Seq A exon
GTGAGCACTGTGTCCGGAGGTGAGCATCACATCCCATCCCGCGTCCCATCCCACGTCCCACCCCGCGTCCCATCCCACCCACTGCTGGGCTGCAGTTTGGAGGGGCACCGTGTGGACGTGCGCCGTGTCCCGCAG
Seq C2 exon
TGCCGATGTCTCCAGGATGATGGTGGTGGTGGGGCTGCACCGACTGCAGGAGCGCAGGAACGCCCAGAGCTTCGCCATCCGCTCTGCCTGTCCCCATCCCGGCTACGACAGCCAGACGATGGAGGACGACCTCCTTCTGCTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000015192:ENSGALT00000024511:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.304 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.3=39.1)
A:
NA
C2:
PF0008921=Trypsin=FE(21.6=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CTACATGGTGTCGGTGCAGTC
R:
TGCAGCAGAAGGAGGTCGTC
Band lengths:
243-378
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]