BtaINT0070242 @ 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
chr21:35264590-35265620:-
Coord C1 exon
chr21:35265363-35265620
Coord A exon
chr21:35264734-35265362
Coord C2 exon
chr21:35264590-35264733
Length
629 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGA
5' ss Score
9.22
3' ss Seq
TTCCCCTTCTCTGTCCTCAGGGG
3' ss Score
12.77
Exon sequences
Seq C1 exon
CTGGAGAGAAAGGCCAAGCAGACATCAGCTGTGAAGCCCCTTAGTCTGCCCAGGGCCAAGGCCCGGGTGAAGCCAGGACAGACGTGCAGCGTGGCCGGCTGGGGGAGGGACTCCACGGACACCTACGCTGACACACTACAGGAGGTAAAGCTGATCGTGCAGGAGGATCAAAAGTGTGAGGCCTACTTACGCAACTTTTATAACCGCGCCATCCAGCTGTGTGTGGGGGACCCAAAGACAAAGAAAGCTTCCTTTCAG
Seq A exon
GTGAGAATCACAGCCTACCTTGCTTGGATCTGGGGAGAAGGGTGTTGGCAGAAGATCTGGGACCTGGGGACCGCCTCACCCTCTAGGCTTGGGACCTCTCTCCAGGAGTAAAAGGGGGAACAGCCGGAGCAGGAAGGACCTAGAGTCTCTGCAAGCCACACAAGACCTGCAGTGAATCCCAACCTGGCGCTCCTTTGGAAGGGAGAATCTGCCATGCACTGAGGCTCAGGTGTTAGAAAACCAAGCTTCCTGAGTGGGAGGTGGTTCAGTCTGCTCAGAGCTGGAACCCACCTGCTTACTGAGCTCCTCCTCCCTGATGAGTGTCAGCCCTCCCACCTGCTTCCCTGTCCTAACAGCAGCCTGGAGCCAGTAGCCCCCAGCATCTAGAGAGAGAGGGGATGGAGACCTGGGGGCAGAGAAGGAGCTGCCCTCTGGGGGAAGTGAAGCAGGGACAATGTCCAGTCAGGGCTTGGCAGCCGGGAGCCCATAGACCTGCCTTGCTCTCTTGTCTCACACATGGAGGCCTTGCGAAGTGGCCTTCTCAGAGAGGGGTCTTGAAATGGCAGGGTGGGAGAGAGGGCAGGACCAGGAGGAGAGCAGACTCAGTCCTTCCCCTTCTCTGTCCTCAG
Seq C2 exon
GGGGACTCGGGGGGCCCTCTCGTGTGTGACAATGTGGCCCAGGGCATTGTCTCTTATGGAAAAAGAGATGGATCAACTCCACGGGCCTTCACCAAAGTCTCAAGTTTCCTGCCCTGGATAAAGAAAACCATGAAAAGCCTCTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000010057:ENSBTAT00000013262:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.058 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(17.8=81.2)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
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:
TCAGCTGTGAAGCCCCTTAGT
R:
TCCAGGGCAGGAAACTTGAGA
Band lengths:
352-981
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]