HsaINT0073938 @ hg19
Intron Retention
Gene
ENSG00000197540 | GZMM
Description
granzyme M (lymphocyte met-ase 1) [Source:HGNC Symbol;Acc:4712]
Coordinates
chr19:544027-547436:+
Coord C1 exon
chr19:544027-544126
Coord A exon
chr19:544127-547279
Coord C2 exon
chr19:547280-547436
Length
3153 bp
Sequences
Splice sites
5' ss Seq
TAGGTGAGT
5' ss Score
8.83
3' ss Seq
TTTGTCCCCCATCCTGGCAGGCA
3' ss Score
8.97
Exon sequences
Seq C1 exon
GGCTCGGGGCCGGGGCCAGCACCCACACTGGGTCTCCACAGCGGCATGGAGGCCTGCGTGTCTTCACTGCTGGTGCTGGCCCTGGGGGCCCTGTCAGTAG
Seq A exon
GTGAGTGGGAGCCGGGATGCAGGGGGGACACTGAGGCCCAGCGCTCTCGGTGGGTCCCTGGATGGGAGGGGTGGGCGCGGGCGCCGACATCCTGGGTGTAAGAGCGGAGATTCATCCTTGTTTGGAGGGGGACTGAGGCCTGGGGCATCCCGAGCTCCTCACGCTTCACCCCGAGTGGACATCCCGGGACCGTGGGAGAGTGTGGTGTCCACCGGCTCACCTCGCCCATCCTCCCGGCAGCAGCCAGAAGGCAGGGGTCACGCTCACACCCGAGGTGCAGAGTAGGAGACTGAGACTTGGCGAAGGAGATGCTGACCTAGGACTGCCCAGCTGGGAGGGCAGAGCTGGGACTCGATCCCCGCTGGCTGCCTGCCACCACCAAGGGCTTGGCTGGGACTAGGTGCCCAGCAGTGAGGGAGAAGGGAGGTGGGTGGCGGCTCCCCTGCATTCCAGCTGGACTGAGTGACAGGGGCTCTTGATGAGTTGGGGACCCAAGAAGATGGACAGAGGTAGGAATCCAGCCGTCAGTCATCATCATCCTTCCTCCCATTTTTATTTCCTTCCACCCATGGGTCCATCATCCCTCCCTCCCTCCCTCCCTCCCTCCCTCATCTCCCCTTCCTTCCCTCTACCCGTCCGTCCACCCATCATTCCTCCTTCCATTCTTCCACCCACCCATCCATCATCCATCCCTCTACCCATGGGTCCATCATCCATCCCTCCCTCCCTCCTTTCGTTCCCCCTTCCTTCCCTCCGCCAGTCCATCCACCCATCATTCCTCCTTCCTCCCATTCTTCCACCCACCCGTCCATCCATCATCCATCCCTCCTTTCAACCTCCCTCCTTCCCTCCACCCGTCATCCTTCCCTCCCTCCTTCCATGTATCCACCCATCCATCCATCATGCCTCTCTCTTCCTTTCCCCCCTCCTTCCCTCCTCCCTCCCATCCATCCATCATCCATTCCTCCTTCCATCCCTCCTTCCTTTCTCCCGTGCTTCTGTGTATCCATCCGTATTTGCAGGGCTCGTGCTGTTCTAGGCCTGCCCTCCTGTCTGACTGGAAGAGACAGGCCAGGCATGAGACTGTGCAGAGCGGAGGAAACACGGAGGGCAAGAGGGCGGGTGGGGGGCCGTTGCAGGAGACGAGCATAAACCAAGGGAGGAAGCCGGTGGGGGAAAGGTACGCAGGCAGCTAAGTGAGACAGACAAAGGCCCAGGGTGCAGGCAGCTTGCAGGCACAGCTAGACTTGCACTCTTGTCACCCAGGCTGGAGTGCGATGGTGCCATCTCGGCTCACTGCAGCCTCCGCCTCCTGGTTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCCTGCCACCATGCCGGGCTAATTTTGTATTTTTAGTAGAGACAGGGTTTCCCCGTGTTGGTCAGGCTGGTCTCAAACTCCCAACCTCAGGTGATCCGCCTGCCTCGGCCTCCCAAAGCGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCCTATTTTTTTTTTTTAAGATGGAGTTCTGCTATTCTTGCCCAGGCTGGAGTGCAATGGCACGATCTCGGCTCACCACAACCTCTGCCTCCCGGGTTCAAGCGATTCTCCTGTCTCAGCCTCCCAAGTAGCTGAGATTACAGATGCCCGCCACCTCGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCACCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCACCCGGCCTTAATTTCTGTATTTTTAGTACAGACGGGGTTTTACCACATTGGCCAGGCTGATCTCCAACTCCTGACCTCAGGCTGTCTGCCCACCTTGACCTCCCAAAGTGCTGGGATTATAGGCGTGAGCCACTGCACCGGCCCGCAAGCGGGGACTTGATTTTCAAAGCATGATGGGGATTCAGAGAAGATTTTGAGCTGATTTACGTTACATTATGAAATCAATCCTTTTATATTTATGATTGATTTAAAATAATTTTTGTACAGCTTTATTAGGAAATTATGCACTATACAATTTACTTATTTAAAGACTACATTTCTTGCTGGGCACAGTGGCTCACGCCTGTCATCCCAGCACTTTGGGAGGCCAAGGAGGGTGGATCACCTGAGGTTAGGTGTTTGAGGCCAGCCTGGCCAACACGGCGAAACCCTGTCGCTACTAAAAATACAAAAAAATTAGCCGGACGTGGTGATGCGCTTCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCTTGAACCCAGGAGGCAGAGGTTGCAGTGAGCTGAGATCACGGCACTGCATTCCAGGCTGGGTAACAGAGTGAGACTCCATCTCAAAAAAAAAAAAAAAATGGCCAGGTGCAGTGGCTCATACCTGTAATCCCAGCACTTTGGGAGGCTGAGATGGGTGGATCACAAGGTCAGGAGTTCGAGACCAGCCTGGCTAACATGGTGAAACCCCATCTGTACTAAAAATACAAAAATTATCCAGGCGTGGTGGCAGGTGCCTGTAGTCCCAGCTACTCGGGAGACTGAGTCAGGAGAATGGCATGAACCCAGGAGGCGGAGCTTGCAGTGAGCCGAGATCGTGCCATTGCACTCCAGCCTGGGTGACAGAGCGAGACTCTGTCTCAAAAAAAAAGAAAAAAAAAGTTTTTTTTAAGAGACTGGGTCTTGCTGTGTCGCCCAGGCTGGTCTCGAACTCCTGGCCTCAAGTGATCCTCCCTCCTCAGCCTCCCGAAGTGCTGGGATCACAGGGGTGAGCCACCCACATCCGGCCTGATGTGCGTTTTGAAGGACTCCTGTGGCTGTGGGGCCCAGTGGGGCCTGGGGAGGTCCTGGAGAGGGGATTGGGAGGTGGCCTGGGGGGAACATGATGGGGGTGATGAGAGGGGGATGGGAGGGATGAAGGGCAGCCCACACGTATCAGCCTAAAAGTTTCGGGGAACACTGGGGACTTCATTAGGATGGCACATCTGCTTGGGGTCCTGGGCCTCTGAGCTGGGCAAGGACAGTCGCAGCAGGCAGCAGGGGCATGTAGCCCCAACCTGGCTCTTTGTCCCCCATCCTGGCAG
Seq C2 exon
GCAGCTCCTTTGGGACCCAGATCATCGGGGGCCGGGAGGTGATCCCCCACTCGCGCCCGTACATGGCCTCACTGCAGAGAAATGGCTCCCACCTGTGCGGGGGTGTCCTGGTGCACCCAAAGTGGGTGCTGACGGCTGCCCACTGCCTGGCCCAGCG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000197540-GZMM:NM_005317:1
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
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(20.1=84.9)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Rat
(rn6)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Autistic and control brains
- Pre-implantation embryo development
Other AS DBs:
FasterDB (Includes CLIP-seq data)
AS-ALPS (AS-induced ALteration of Protein Structure, links to PINs)
APPRIS (Selection of principal isoform)
DEU primates (Only for human)