BtaINT0070247 @ bosTau6
Intron Retention
Gene
ENSBTAG00000002100 | GZMM
Description
granzyme M (lymphocyte met-ase 1) [Source:HGNC Symbol;Acc:HGNC:4712]
Coordinates
chr7:44797942-44801565:+
Coord C1 exon
chr7:44797942-44798008
Coord A exon
chr7:44798009-44801402
Coord C2 exon
chr7:44801403-44801565
Length
3394 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGC
5' ss Score
9.6
3' ss Seq
TTTTCTCTCCCTCTCCCCAGGAG
3' ss Score
13.36
Exon sequences
Seq C1 exon
AGAACCGTGGAGGCCCCCAGATCCAAGATGCTGCTCCTGCTGGTGGTCCTGGAAGCTCTGTGGGCAG
Seq A exon
GTGAGCGAGGTGGGGACACTGAGGCTGGAGCTGCGGCACCCAGGGTCCATGGCGAGGGGCAGGGCAGGGGGGTGAAGAAACAGACTGGATACAATTTCCCTGTCCCCAGACAGGACTCACTGAAAAAACGTCAGTGGCCCCCAGAGCACGAGATGGCTGTCCATGAAACAGCCTCGAAAAGAGCTTGTGGGGAAAGCAAAGAGCAAAGGGCGGAGGACGCCCGTCGTCCTGAGGGTTTCTCTTCTGAGCCCGTTCCCCTTCCCCAGATGAAATATTTCTGGAAGGAGGCTCCAGAGCAGGAAGCGGGGCGGCAGGGAGGGAGCTTCACTTTCCTCCAACAATATTTTTTTTTTTATTTAAAGTGGAGTGGGGGACTTCTCTGTTGGTCCCCTAGTTGGGACTCTAAGCTTCCATTGCAGGGGACATGGGTTTGATCCCTGGTCAGAGAAATAAGATCCTGAAAGCTATCATTCAGGATGGCCAAAATTTTTAAATTAAAAAAAAAAGGAATAAATTAGAAGTTTCGAATTAACAGATACATAAAGGGCTTCCCAGGTGGCTCAGCGGTAAAGAATTTGCCTCCCAATGCAGGAGACACAAGAGATGAGGGTTTGATCCTTGAGTCGGGAAGATCCCCCTGAGAAAAACTGGCAATCCACTCCAGTATTCTTGCCTGAGAAATCCCATGGACAGAGGAGCCTCGGGGGCTATATAGTTCATGGGGTCACAAAGAGTCAGACGTGACTTAGTGACTAAATAACTACAAGTATATATAAAACATACAGCAAGGTTCTACTGTTTGGCACAGGGAACTATACCAAATATCCTGTAATAACCTAAAATTGAAAAAGAACCTGAAAAAGAATATAAATGTGAGTGTTAGTCGCTCAGTCATGTCCAGCTCTTCACAACCCCGTAGACTGTAGCCCTCCAGGCTCTTCTGTCCATGAGATTCTCCAGGCAAGAATCCTGGAGTGGACTGCCATGCCCTCCTTCAGGGGATCTTCCAGACCCAGGGATGAATATATATATAATATACATGTATATGTATATAACTGAATAATATATATATATTATATATATATATATATATATATATATATATATATATATATATATATTTGCTATACACCTGAAACTAACACATGGTAAATCAACTATACATCAGTTTTTTAAAAAGTGAAAAAAAGAAAAAGCAACCACTAAAGAAAAAAAAAGGTGTGAAGTGGGTTGCTAACAGTTCGGGGCTTCTTCCTGGGGTGATGGGACTTGCTGTTGGGGAAGATTTTGGTTTCACAGCTTGGGTGACCGAGGGTCTGTCAGTTTCATCTCCATATGGCTGTCATGACTTCTTCTGAGTGAGGCCTGAGGGTGAGGGCAAGGCTTGGCAGATGTGAGGTTCTTTTCCTTTCTTGAATTAAAAAGAAAAATGTGTTTATTTTGGCTGCACCGAATCTTTGGTGGCACGCAAGATCATCAATCTTTGTTGCAGCAAGCAGGATCTTTAGTTTTGACATGTGAATTCTTAGTCGCTGCATGTGGGATCTAGTTCCCTCACCAGGGACCAAACCCACGCCCCCTGCACTGGAGATACAGAGTCCTAGCCTCGGGACCACCAGGGAAGCCCCCCGATTTTTTTCCTTCTGACTTCTTTCCACTTTCACAGAGAAATCAGGAGAGTCCTGCAGACAACTTTCCTTTTCTCCTAATCCCTCGGTGGTAAACATTTTGCCTCCATTGCTTTATCATCCCCCCCAACCTACCCCACCCCTTGGTGTGTATACAAAATACAAATATGTGTTTATCATTATTTTCCTGAACCATTTGAGAATGAGATTTAGATGCACTGCCCCTCACCCCTAAACTCTTTGGCATGTATGTGTGTGTGTGCATGTGCATATGTGTGCGTGTGCGTATGTGTGTCCGTGTGCTTATGTGTGTGTGTCGGGGGTGGGGGGCGGGTTATGTGTGTGTGCTGGGAACAGGCCATCCTGTCACAGGATGGATTCTCAGCATCCTTCCCCTCAGCTCACCTACAGACCTCACTCCAGTTGTCCACACGGTGTCCTCAGTGAGCAGGATCTAGTCGTCCTGCTGTTCTCGGTCCCCTGTGCTCTGGTAGCATCTCCATCTCCCCCAAGTCCTCCGACCGCGGCCCTGGGCTGCGTCCCCAGGCTGGGCTCGGATGATGCATTTTCCGGAGGAACCACGGAGGGGCGCTGTATTCGCCCCTTCATGGTGGATCCCACCAGGCCTCTCCAGGGTGAGGTCGCGCATGTGCGCCTGGTTGTTGTCTTGAGAGGCGGCCGTGGGGCTCTGGTGGAGCTGGATTCGCAGCATGTGGGACAGGTGCAGGCTGTTTGCTCCCCAGCAGCACCCAGGAAGTGCAGAGAAGGAAACCACAGCCCCACGAGCGAGGCAGCCTTCACAGGACCGCCCCGCTAGGAGGGACGGAGCTGGAATTTCAGCCCCAGCTGGCTACCTCCCCAGATTGTATACACTTGTTCATAAATGGCACCTGGGAGCATGAGATGCAGACTGGGTGGGATGGTGGGCATCCCACCATGCTGGCCTGGCTGGATTATTATCCAGCCAGGTTCACTGTGATCAACTGGTGACCCAGCAGGATAGGGGTTCCCACCACCCACCCATCATCCTTTCTCCCTTCCTTCTTTCCTTTCTTCCATTCCATGCATCCATCCATCCATCTGTTATCCATCCATCCTCATCCATCATCCATCCATCAACAGCAGGGAGACCGGAGTGCTGGAGGGGATGGGGGCAAGTGTGAAGGAAGCAGGGTCAGCTGAGGTGTGTCTTGTGAGTCATGAGTTTGGATGTTTAACGCATGAAGGAGGGACTTCCCTGGTGGCCCAGGAGTTAGGAGTCATGTTTCCACTGCAGGGGGCATGGGTTTGACCCCTAGCCAGGGAGCTAAGATCCCACATGCCATGCAGCACGGCCAAAATTTTTAAAAACAGATTTTAAAAATTAAAGCATGATGGGGAATCACAGGTAGATTTTTTTAAGCTAATTTACATTAAAATGCTTTTTATCAATCATTTTTAATTCACAATTTTCCAAAAAATTTCTGGCCACATCCCAGGGCATGTGGGATCCAATCCTTGTCCCTGCATTGGAAAACTGGTAAGTCCCCATGATTGGTTTTAAAACAATTTTTATGGCAGCTTTATTGAGATGTCATTCACATACTATGCAATTTACCCAGTTAAAGGGTACAAGTCAGAGAATTTTAGCGCATTTGGAGTTGTGCAACTATCACCATAGTCTAATTCCAGAACATTCCATCCAGGGCCTTGGAGCTGGAGTCAGAGTGTCAAGGCAGGGGTGGGGCACCCAGTCCTAACCTGGCCTTTTCTCTCCCTCTCCCCAG
Seq C2 exon
GAGGCAACACCTTCGAGACCCACATCATCGGGGGTCGAGACGCTGTCCCCCACTCACGCCCATACATGGTCTCGCTGCAGAAGTCGTCTGGCTCACACCAATGTGGTGGGGTGCTCCTGCACCAAAATTGGGTGTTGACAGCTGCCCACTGCCTGACCCAGCC
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000002100:ENSBTAT00000002709:1
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion (1st CDS intron)
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
NO
A:
NA
C2:
PF0008921=Trypsin=PU(20.5=83.6)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Chicken
(galGal3)
No conservation detected
Zebrafish
(danRer10)
No conservation detected
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
No suggested primer sequences
R:
No suggested primer sequences
Band lengths:
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]