BtaINT0070241 @ bosTau6
Intron Retention
Gene
ENSBTAG00000010057 | GZMB
Description
granzyme B (granzyme 2, cytotoxic T-lymphocyte-associated serine esterase 1) [Source:HGNC Symbol;Acc:HGNC:4709]
Coordinates
chr21:35265363-35265953:-
Coord C1 exon
chr21:35265818-35265953
Coord A exon
chr21:35265621-35265817
Coord C2 exon
chr21:35265363-35265620
Length
197 bp
Sequences
Splice sites
5' ss Seq
AAGGTAAAC
5' ss Score
8.14
3' ss Seq
ACTCTTGTCTCTTCCCACAGCTG
3' ss Score
11.44
Exon sequences
Seq C1 exon
CTCAATCAAAGTCACCCTGGGGGCCCACAACATCAAACAGCAGGAGAGGACCCAGCAGGTCATCAGGGTGAGAAGAGCCATCAGCCACCCTGACTATAATCCTAAGAACTTCTCCAACGACATCATGTTATTAAAG
Seq A exon
GTAAACCGCCCTGCTTCTCATGCCCTCCTGGGATCAGCTCGTTTCCCCTCCCAGGACCTCCTACCCCTTTCTTCCCTCTCATCCTGGCCACCTGACCCGTCCCTGTGGCTCAGGAGAGAGGGGAGACTTGTCAGCGTCATTGCCGTGTCCAGGCTCAGGGACCACTGGCTGAGCCAGACTCTTGTCTCTTCCCACAG
Seq C2 exon
CTGGAGAGAAAGGCCAAGCAGACATCAGCTGTGAAGCCCCTTAGTCTGCCCAGGGCCAAGGCCCGGGTGAAGCCAGGACAGACGTGCAGCGTGGCCGGCTGGGGGAGGGACTCCACGGACACCTACGCTGACACACTACAGGAGGTAAAGCTGATCGTGCAGGAGGATCAAAAGTGTGAGGCCTACTTACGCAACTTTTATAACCGCGCCATCCAGCTGTGTGTGGGGGACCCAAAGACAAAGAAAGCTTCCTTTCAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010057:ENSBTAT00000013262:3
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.043 A=NA C2=0.058
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(20.5=100)
A:
NA
C2:
PF0008921=Trypsin=FE(38.8=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Human
(hg38)
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:
AGCAGGTCATCAGGGTGAGAA
R:
ATCCTCCTGCACGATCAGCTT
Band lengths:
251-448
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]