RnoINT0068862 @ rn6
Intron Retention
Gene
ENSRNOG00000030530 | Gzmm
Description
granzyme M [Source:RGD Symbol;Acc:620022]
Coordinates
chr7:12894458-12895591:-
Coord C1 exon
chr7:12895432-12895591
Coord A exon
chr7:12894597-12895431
Coord C2 exon
chr7:12894458-12894596
Length
835 bp
Sequences
Splice sites
5' ss Seq
ACCGTGAGT
5' ss Score
9.4
3' ss Seq
GAGCAAGGTTTGCATTGCAGGCT
3' ss Score
3.16
Exon sequences
Seq C1 exon
TAGGCAACAGATTTGAGGCCCAGATCATTGGGGGTCGAGAGGCAGTCCCGCACTCCCGCCCATACATGGTCTCGCTACAGAATACCAAGTCCCACGTGTGTGGGGGAGTCCTCGTGCATCAGAAGTGGGTGTTGACCGCTGCCCACTGCCTGTCTGAACC
Seq A exon
GTGAGTACCCTCTTCATGTCCCACCATGGCTTCAGGCACTGAAGGACTTAGGCCAACCCTCTCCAGGCTGTGTAGGCTGTGGGTTCAGGTTGGGTGGGTCACATGGTACTGGAAAGGACACCTCCTCCCAACCCTTCCCGTGACACCTGGTAGTGTGTGAAAGTCAGCCTGTCAGTAAGACAGAGCCAGCGTAGCGAGAACCGCCATCAAGAAACCACTGACTACATCCCTCTTGGTAGGGATGATAGAGTGACTGCTCGTGCCGGGTCTCATCCTCAACGCTAAAGAAAACATGGGCCCTGAACAAAAGGAGGCAGCTCTTGGGTGTGACAGCCTTTAGTCCTAGCCCTCAAGGAGACTGAGGCATGTAGATCTCTACCTGACCTGCATGACTCCAGACTACGCAGTGAGATCTTATCTTAAAGCCAAAGGGGATTGTTGGCTCATGTGTTCAGAAGCCTGGGCTTCAGGAACGGCTCGATCCAGATATTTACCTAAGCTTCTCCCACACGGCTTGCAAGTGTGAGGTAGGAGTCCTGTAGAAGGAGGTTATGTCTCTGCTGTAGTTTGGATGAGTGCAGGACGTCAACACAAGCTGACTGACCTCAAGCCTAATCACAGAAGAGAGGCTGCAGTTGAGGGGAGAGGCATTAAATCCCCCAATCTGACGCTAGGTGGGAACCAGAGCAGAAGTCTCCTTGGGAGAGGAGGACTGAGAAGATGGGAGATGACCTTCCAGGAGTGGGCTGGGGAGGCTGCCAAGGATGTGTGGAAAGGGAGCTCTCGGCCTGTGGGCGGCTGTGGCGGCTGTGGGTGAGCAAGGTTTGCATTGCAG
Seq C2 exon
GCTACAGCAGCTGAAGCTGGTGTTCGGCCTGCACAGCCTTCATGATCCCCAAGATCCTGGCCTTACCTTCTACATCAAGCAAGCCATTAAACACCCTGGCTACAACCTCAAATACGAGAACGACCTGGCCCTGCTTAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSRNOG00000030530:ENSRNOT00000011086:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.0=83.3)
A:
NA
C2:
PF0008921=Trypsin=FE(20.4=100)
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:
GCAACAGATTTGAGGCCCAGA
R:
TTAAGCAGGGCCAGGTCGTTC
Band lengths:
295-1130
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]