HsaINT0073929 @ hg19
Intron Retention
Gene
ENSG00000100453 | GZMB
Description
granzyme B (granzyme 2, cytotoxic T-lymphocyte-associated serine esterase 1) [Source:HGNC Symbol;Acc:4709]
Coordinates
chr14:25100161-25101324:-
Coord C1 exon
chr14:25101064-25101324
Coord A exon
chr14:25100421-25101063
Coord C2 exon
chr14:25100161-25100420
Length
643 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAGA
5' ss Score
10.57
3' ss Seq
CTTCCACTCTCTATTCACAGGGG
3' ss Score
10.46
Exon sequences
Seq C1 exon
CTGGAGAGAAAGGCCAAGCGGACCAGAGCTGTGCAGCCCCTCAGGCTACCTAGCAACAAGGCCCAGGTGAAGCCAGGGCAGACATGCAGTGTGGCCGGCTGGGGGCAGACGGCCCCCCTGGGAAAACACTCACACACACTACAAGAGGTGAAGATGACAGTGCAGGAAGATCGAAAGTGCGAATCTGACTTACGCCATTATTACGACAGTACCATTGAGTTGTGCGTGGGGGACCCAGAGATTAAAAAGACTTCCTTTAAG
Seq A exon
GTAAGACTATGCACCTGCCTGGATTGGCTCTTGGGAGAAAGATGTTTGGGGAATATCTGAGACCTGGAGACTCAAGTAGTGGGGGACTCCTTCACCCACTAGACTGTGATATTTCTCTCTGGAAAGAGAAGAGGGGACTAGACTGAGCTGGGGAGAAATTAGGGCCTCTGCAAACTTACCAGGAGGCTTATGGTGGATGGTGCTTCTTTGGAAGGATGAATTTGCAACACTCCACCCACTCCAGGTCACAGATATTAGGAAACTGTGCCCACTGGGGGTGCAGTAATTATAACCAGGTGTGTCTTCAGAGGCTGGTACCCAACGTGGTTAATGGGCTGGTCCTCCATGGTGGACATCAGCCCTCCTTGCCCACTTCTGGGTCCTTAAACAGCCAACGGTCCCACATACCTCCGATCTCAGGATCTGGGGGACATGACGGAGGCTGGCCCCTGGGATGAGGTGAAGCAGTAACAATGTCCAGGGCCAGAGCTTGGCAGCTGGGGGCCACCAGCGGCCTGCCCTGCCCTCTGGTCTCCCACATGTAGGCTGTGCAAGTTGGCCTTTTCTAAAAGGGGGCTTGAGATGGAAGAGAGGGCAGGACCCGGAGGAGCATCAGCTCAGTCCTTCCACTCTCTATTCACAG
Seq C2 exon
GGGGACTCTGGAGGCCCTCTTGTGTGTAACAAGGTGGCCCAGGGCATTGTCTCCTATGGACGAAACAATGGCATGCCTCCACGAGCCTGCACCAAAGTCTCAAGCTTTGTACACTGGATAAAGAAAACCATGAAACGCTACTAACTACAGGAAGCAAACTAAGCCCCCGCTGTAATGAAACACCTTCTCTGGAGCCAAGTCCAGATTTACACTGGGAGAGGTGCCAGCAACTGAATAAATACCTCTTAGCTGAGTGGAAA
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100453-GZMB:NM_004131:4
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.241 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PD(17.2=41.7)
A:
NA
C2:
PF0008921=Trypsin=PD(17.7=81.2)
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
Associated events
Other assemblies
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CCCCTGGGAAAACACTCACAC
R:
ACTTGGCTCCAGAGAAGGTGT
Band lengths:
347-990
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Genotype-Tissue Expression Project (GTEx)
- 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)