BtaINT0070248 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002100 | GZMM
Description
granzyme M (lymphocyte met-ase 1) [Source:HGNC Symbol;Acc:HGNC:4712]
Coordinates
chr7:44801403-44802445:+
Coord C1 exon
chr7:44801403-44801565
Coord A exon
chr7:44801566-44802309
Coord C2 exon
chr7:44802310-44802445
Length
744 bp
Sequences
Splice sites
5' ss Seq
GCCGTGAGT
5' ss Score
8.56
3' ss Seq
CCCAACCCTGCCGCCCCCAGGAC
3' ss Score
8.9
Exon sequences
Seq C1 exon
GAGGCAACACCTTCGAGACCCACATCATCGGGGGTCGAGACGCTGTCCCCCACTCACGCCCATACATGGTCTCGCTGCAGAAGTCGTCTGGCTCACACCAATGTGGTGGGGTGCTCCTGCACCAAAATTGGGTGTTGACAGCTGCCCACTGCCTGACCCAGCC
Seq A exon
GTGAGTGACCCAGCCCCACCCCATCACACCAGATGTCCCCAGACCTATCCTGGTTTCCCCATTCCCACCAGGAGGTGGGTCTGGAGAGATTTAAGTCAACTGTAGTGTTGTGAGGGGGTCCCCTTCCCCTCTGCAGTGATTGCTGAGGCAATAGTACATCACAGCAACCTTATTTGTGTATGTGACATTAGGCTGCGAGGATTCCTGGGGGCAGCTTATTTGCTATAAAAAAGAACCTTCCAAATGGACAGAGGTGGGTCTCTTGTGACACCCAGGAGTGTGTCTCCCACCTGTGGCCACAGGGACAGAGCTGGCCTATGAGGGTGGCAGGGCCAACACAGAGAGGAACCTGGGTGCATGACGCCATTGTGAAACCACCAGGTAAAGCCATCCCAGAGCTGTCCTACCTCTGGACTGGCCAGTAACAAAGACCGCAGATCAAACCCAGAGAAGTAATCAAAGGGGGTCTGTTTATTCAAGTAACTGAAAACATGGAAAAGAGACAGCCTTCAGGCATGGCTGGACAGGAGTCTGGGGTGAGGCGGGAGCAGGGAAGGCTTCCTGGAGGAGGCAGGGAGAAGACCAGACTGGGCAGGGGAAGGACTGCAGAAAGAAGCCGGGTGAGGGGGTGCAGTACTGAGAGTGCCCCTGGGCCAGAGCCTGGGAGGGCTGGGGCTCACACCCAGGCCTGCCGCCCCCCACAAATCCTGCAGCACCCCCACACCCCAACCCTGCCGCCCCCAG
Seq C2 exon
GACGCAGCAGCTGAGGCTTGTGCTGGGGCTTCATGTGCTGGGAGAGATCAGCCCTATCTACCGCATCAGGAAGGTGGTCCGGCACCCCGAATACAAGCCAGTCCCTCATCTGGAGAATGACCTCGCACTGCTAAAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002100:ENSBTAT00000002709:2
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=PU(20.5=83.6)
A:
NA
C2:
PF0008921=Trypsin=FE(20.1=100)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
CAACACCTTCGAGACCCACAT
R:
TTTAGCAGTGCGAGGTCATTCT
Band lengths:
294-1038
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]