BtaINT0070250 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002100 | GZMM
Description
granzyme M (lymphocyte met-ase 1) [Source:HGNC Symbol;Acc:HGNC:4712]
Coordinates
chr7:44802606-44803445:+
Coord C1 exon
chr7:44802606-44802869
Coord A exon
chr7:44802870-44803271
Coord C2 exon
chr7:44803272-44803445
Length
402 bp
Sequences
Splice sites
5' ss Seq
AAGGTGCGG
5' ss Score
8.17
3' ss Seq
GTGCTCCATTGCCTCCACAGGGG
3' ss Score
9.78
Exon sequences
Seq C1 exon
CTGGACGGGAAGGTGAAGCCCAGCAGGACCATCCAGCCCCTGGCGTTGCCCCGAGGGCGCCAGATGGTGGCCACAGGCACCCGGTGCAGCCTGGCCGGCTGGGGCCTGACCCACCAGCCTGGGAACCTGGCCAGGGTGCTGCAGGAGCTGGACGTGCATGTGTTGGACACCAGGATGTGCAACAACAGTCGGTTCTGGCACGGCAACATCAGCTCCCACATGATCTGCCTGGCAGCTGACTCCAAGAACCAGGCCCCCTGCAAG
Seq A exon
GTGCGGGTGCTGGGGGTGGGGGCGCCCAGGTGAGCCTGGCTCCCTCCCTTCCCTGGAGGTCCTGAAGCTGGGAAGGAGCAGGCGCCCACTTCTCAAGTGCAGAAACTGAGGCACGGAGAGACTAAGCAGTTTGCCCATGGTTACACAGCGGGTGGCAGAGCTAGGCTTTGAACTCCAGCACCTAGAAACATCAGGGCATAGACGGAGCATGTGCAAAGGCCCTGGGGCGGGAAGAGGGCACAGAGAGAGTTACCAGGCAAGAAAGGAACTGAGAAGGGACTAAAGGAGGTGGGGGAAGGGGATAGACGGGGGTCTCTGCCCTGGAATCAGCCTTCCATCCCCTCCCACTGGATAAGCGGCCCCCTTCATCAGGAGGTGACTGGTGCTCCATTGCCTCCACAG
Seq C2 exon
GGGGACTCAGGAGGGCCGGTGGTGTGCAAAAGAGGCCAAGTGGCTGGAATCCTGTCCTTCAGCTCTGAGAATTGCACCGACATCTTCAAACCCCCCGTGGCTGTCGCTGTGGCCCCCTACATGCCCTGGATCAAGAAGGTCCTCCGCCACAATGGCTCACCTCCCTCACCTTGA
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002100:ENSBTAT00000002709:4
Average complexity
IR
Mappability confidence:
NA
Protein Impact
Alternative protein isoforms
No structure available
Features
Disorder rate (Iupred):
C1=0.057 A=NA C2=0.140
Domain overlap (PFAM):
C1:
PF0008921=Trypsin=FE(38.8=100)
A:
NA
C2:
PF0008921=Trypsin=PD(19.2=74.1)
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:
GAAGGTGAAGCCCAGCAGGA
R:
GGGTTTGAAGATGTCGGTGCA
Band lengths:
349-751
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]