RnoINT0068864 @ rn6
Intron Retention
Gene
ENSRNOG00000030530 | Gzmm
Description
granzyme M [Source:RGD Symbol;Acc:620022]
Coordinates
chr7:12893432-12894362:-
Coord C1 exon
chr7:12894096-12894362
Coord A exon
chr7:12893706-12894095
Coord C2 exon
chr7:12893432-12893705
Length
390 bp
Sequences
Splice sites
5' ss Seq
AAGGTGACA
5' ss Score
5.19
3' ss Seq
GTGTCCCCCAACTCTTTCAGGGT
3' ss Score
9.16
Exon sequences
Seq C1 exon
CTGGATGGACGGGTGAAGCCCAGCAAGAATGTCAAACCACTGGCTCTGCCAAGAAAGCCCCGAGACAAGCCTGCAGAAGGCTCCCGGTGTAGCACGGCTGGATGGGGTATAACCCACCAGAGGGGACAGCTAGCCAAGTCCCTGCAGGAGCTCGACCTGCGTCTTCTGGACACCCGGATGTGTAACAACAGCCGCTTCTGGAACGGTGTCCTCACGGACAGCATGCTGTGCTTAAAGGCTGGGGCCAAGGGCCAAGCTCCTTGCAAG
Seq A exon
GTGACAGGGGTGGCCTGGAACCAGCCTCTAACACCCTGGGGAGTGGAGGAGGGCGGGACTAACACCCACCTCATTTCTCAGATACGGAAACCAAGGCCCCAGAGGGTTTTAAAAAAAAAAAAAAAAAAAAAAAAAAGGAGTCTAGGTTGGAAGTCAGGAAGCCAGAAAATTCTGGTTTGAACTCCAGTGCCACCAATTAGTCATCTGGGCCCAGAGCAAAAGTCCTGGGGTAGAAAGGAGGAGAGAAGGGAAAGAGACAGGAAGGTGAGCAAGGGAGGAAGGCTGCGGGCAAGGGTGCACATGGAGCTTGAAAGGCTCCAGCACCTCCCAGGTCCCTGCTGCCCAGCTGCAAGCACAAAGGCTGACCTCTGTGTCCCCCAACTCTTTCAG
Seq C2 exon
GGTGACTCTGGAGGGCCCCTGGTGTGTGGCAAAGGCAAGGTGGATGGGATCCTGTCTTTCAGCTCCAAAAACTGCACAGACATCTTCAAGCCCACCGTGGCCACTGCTGTAGCCCCCTACAGCTCCTGGATCAGGAAGGTCATTGGTCGCTGGTCACCCCAGCCTCTGACCTGATGTCCCAAACTATCTGGGACATCATTCTTGATGTCTGGGGCTGGGAAGGGACTAGGTGTGCCTCTGGGGATCAATAAATCCTGATATATCTGTTGAGTCT
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030530:ENSRNOT00000011086:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.213 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(39.1=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.1=74.1)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGTGAAGCCCAGCAAGAATGT
R:
GGGCTTGAAGATGTCTGTGCA
Band lengths:
349-739
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]