HsaINT0073927 @ hg19
Intron Retention
Gene
ENSG00000100453 | GZMB
Description
granzyme B (granzyme 2, cytotoxic T-lymphocyte-associated serine esterase 1) [Source:HGNC Symbol;Acc:4709]
Coordinates
chr14:25101530-25102268:-
Coord C1 exon
chr14:25102121-25102268
Coord A exon
chr14:25101666-25102120
Coord C2 exon
chr14:25101530-25101665
Length
455 bp
Sequences
Splice sites
5' ss Seq
AAGGTGAGG
5' ss Score
9.16
3' ss Seq
TCACTCTGCTCTCTGTGCAGCTC
3' ss Score
10.6
Exon sequences
Seq C1 exon
GGGAGATCATCGGGGGACATGAGGCCAAGCCCCACTCCCGCCCCTACATGGCTTATCTTATGATCTGGGATCAGAAGTCTCTGAAGAGGTGCGGTGGCTTCCTGATACGAGACGACTTCGTGCTGACAGCTGCTCACTGTTGGGGAAG
Seq A exon
GTGAGGAGCAGAAAACAGCCCACACCCTCCTGGAAACACTCCACAGAGACCCCTGCCTTCTTCCCAAGGAGCTCCCTGGGCTCCTGTGAACACACATGCCAGGAGGTCTCCTTAGAGGGTGAGAAAAGGGCAGTTAAGTTTGTGGAGAGAGGGGAAGGTTGGTTCCAGAGGTGCTGCTGAAGTAAGAAACAGCAGAGTGACCAAGCCTGCCATATTTAGAACTGGGGGCATACTTTGGCATAGAATACAAACTGAAGCAATTCCACCTGTGTTTCTAGGGGGAACCGAACCCTGAGAAACCTGGTGCAATTACCAGAATTCCAATTCCTGGGGACCGACTGTCCCCTTAATTTCCCCTCAGCTGCAGCCCTGCCCCAGCTGTCACCTGCTCTTCACTGTCTCTGGGCTGTATACCCTGTGACTCCACCCCCATCCTCACTCTGCTCTCTGTGCAG
Seq C2 exon
CTCCATAAATGTCACCTTGGGGGCCCACAATATCAAAGAACAGGAGCCGACCCAGCAGTTTATCCCTGTGAAAAGACCCATCCCCCATCCAGCCTATAATCCTAAGAACTTCTCCAACGACATCATGCTACTGCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSG00000100453-GZMB:NM_004131:2
Average complexity
IR-S
Mappability confidence:
NA
Protein Impact
No protein impact description available
No structure available
Features
Disorder rate (Iupred):
C1=0.045 A=NA C2=0.268
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=WD(100=96.0),PF0008921=Trypsin=PU(1.5=4.0)
A:
NA
C2:
PF0008921=Trypsin=FE(20.5=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Associated events
Conservation
Rat
(rn6)
No conservation detected
Chicken
(galGal4)
No conservation detected
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GGAGATCATCGGGGGACATGA
R:
GCAGTAGCATGATGTCGTTGGA
Band lengths:
281-736
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
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)