AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62652

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62652.t1 MTR_8g106080 100.000 140 0 0 1 140 1 140 1.17e-100 285
MS.gene62652.t1 MTR_8g106020 100.000 140 0 0 1 140 1 140 1.17e-100 285
MS.gene62652.t1 MTR_5g075240 99.286 140 1 0 1 140 1 140 2.63e-100 283
MS.gene62652.t1 MTR_4g085580 95.000 140 7 0 1 140 4 143 2.91e-96 273
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62652.t1 AT2G09990 89.928 139 14 0 2 140 8 146 5.16e-92 263
MS.gene62652.t1 AT5G18380 89.209 139 15 0 2 140 8 146 8.83e-92 262
MS.gene62652.t1 AT3G04230 84.173 139 22 0 2 140 8 146 1.84e-85 246
MS.gene62652.t1 AT5G18380 87.200 125 16 0 2 126 8 132 3.68e-79 230
MS.gene62652.t1 AT5G18380 87.037 108 14 0 2 109 8 115 1.14e-67 201

Find 39 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAATCTAACGATAAGATTTC+TGG 0.210396 4.2:-1033563 None:intergenic
ACAGAGTAAGAAGGAGATTA+AGG 0.258952 4.2:+1033446 MS.gene62652:CDS
CGCTGTGAGCCTAAGAAGTT+TGG 0.359075 4.2:+1033516 MS.gene62652:CDS
CTGCAACAGCGTTCTTCTTC+CGG 0.375769 4.2:-1033182 None:intergenic
GCCTGAGATTCTTCGTTTCA+AGG 0.392228 4.2:+1033269 MS.gene62652:CDS
TCAGAGTATTGCGAAGGCTT+TGG 0.400647 4.2:+1033395 MS.gene62652:CDS
CCACGACCACCAAACTTCTT+AGG 0.436009 4.2:-1033525 None:intergenic
TACGAACCAATCCTCCTTCT+CGG 0.443683 4.2:+1033294 MS.gene62652:CDS
ATGGAACAGGTGCAATGCTT+TGG 0.453443 4.2:+1033159 MS.gene62652:CDS
GCCTTGAAACGAAGAATCTC+AGG 0.478888 4.2:-1033270 None:intergenic
GAAGCTCAGCAAGATGGAAC+AGG 0.488449 4.2:+1033146 None:intergenic
CAATGGCTGTCCAATCGAAC+TGG 0.489439 4.2:+1033242 MS.gene62652:CDS
CGCGGTCTCATCAAGATCAA+TGG 0.494184 4.2:+1033225 MS.gene62652:CDS
TCATATCAACTCCGGCGAAA+CGG 0.494924 4.2:-1033323 None:intergenic
CTCGGCAGACACCGTTTCGC+CGG 0.496313 4.2:+1033312 MS.gene62652:CDS
TCAGGCTCCACCAGTTCGAT+TGG 0.496656 4.2:-1033252 None:intergenic
GTGGTCGTGGTGCTCGTGCT+AGG 0.502073 4.2:+1033538 MS.gene62652:CDS
GTTTCGCCGGAGTTGATATG+AGG 0.511168 4.2:+1033325 MS.gene62652:CDS
CCTAAGAAGTTTGGTGGTCG+TGG 0.511400 4.2:+1033525 MS.gene62652:CDS
AGGATCCGTGTGAAGGGTGG+AGG 0.521481 4.2:+1033345 MS.gene62652:CDS
TGTTGATGAACAGAGTAAGA+AGG 0.534508 4.2:+1033437 MS.gene62652:CDS
CGAAACGGTGTCTGCCGAGA+AGG 0.541529 4.2:-1033308 None:intergenic
AACAGGTGCAATGCTTTGGC+CGG 0.546867 4.2:+1033163 MS.gene62652:CDS
TGTGAGCCTAAGAAGTTTGG+TGG 0.558448 4.2:+1033519 MS.gene62652:CDS
ACCCACTGCAAGAGAGGTCG+CGG 0.562945 4.2:+1033207 MS.gene62652:CDS
AACGGTGTCTGCCGAGAAGG+AGG 0.579454 4.2:-1033305 None:intergenic
GCAGTTACCCACTGCAAGAG+AGG 0.580125 4.2:+1033201 MS.gene62652:CDS
TGGCTGTCCAATCGAACTGG+TGG 0.587642 4.2:+1033245 MS.gene62652:CDS
TTCTTAGGCTCACAGCGTCT+AGG 0.590494 4.2:-1033510 None:intergenic
TGTCTGCCGAGAAGGAGGAT+TGG 0.604124 4.2:-1033300 None:intergenic
CTTCGCAATACTCTGACGAA+TGG 0.610127 4.2:-1033388 None:intergenic
ACCGCGACCTCTCTTGCAGT+GGG 0.618077 4.2:-1033208 None:intergenic
CATTCGTCAGAGTATTGCGA+AGG 0.620290 4.2:+1033389 MS.gene62652:CDS
GACCGCGACCTCTCTTGCAG+TGG 0.624398 4.2:-1033209 None:intergenic
TGATATGAGGATCCGTGTGA+AGG 0.626071 4.2:+1033338 MS.gene62652:CDS
ATGAGGATCCGTGTGAAGGG+TGG 0.634725 4.2:+1033342 MS.gene62652:CDS
TGTGACCTCCACCCTTCACA+CGG 0.645312 4.2:-1033350 None:intergenic
ACGGATCCTCATATCAACTC+CGG 0.648153 4.2:-1033331 None:intergenic
GATATGAGGATCCGTGTGAA+GGG 0.662094 4.2:+1033339 MS.gene62652:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAGAGTAAGAAGGAGATTA+AGG + chr4.2:1033446-1033465 MS.gene62652:CDS 35.0%
! TGTTGATGAACAGAGTAAGA+AGG + chr4.2:1033437-1033456 MS.gene62652:CDS 35.0%
ACGGATCCTCATATCAACTC+CGG - chr4.2:1033334-1033353 None:intergenic 45.0%
ATGGAACAGGTGCAATGCTT+TGG + chr4.2:1033159-1033178 MS.gene62652:CDS 45.0%
CTTCGCAATACTCTGACGAA+TGG - chr4.2:1033391-1033410 None:intergenic 45.0%
GATATGAGGATCCGTGTGAA+GGG + chr4.2:1033339-1033358 MS.gene62652:CDS 45.0%
GCCTGAGATTCTTCGTTTCA+AGG + chr4.2:1033269-1033288 MS.gene62652:CDS 45.0%
GCCTTGAAACGAAGAATCTC+AGG - chr4.2:1033273-1033292 None:intergenic 45.0%
TACGAACCAATCCTCCTTCT+CGG + chr4.2:1033294-1033313 MS.gene62652:CDS 45.0%
TCATATCAACTCCGGCGAAA+CGG - chr4.2:1033326-1033345 None:intergenic 45.0%
TGATATGAGGATCCGTGTGA+AGG + chr4.2:1033338-1033357 MS.gene62652:CDS 45.0%
TGTGAGCCTAAGAAGTTTGG+TGG + chr4.2:1033519-1033538 MS.gene62652:CDS 45.0%
!! CATTCGTCAGAGTATTGCGA+AGG + chr4.2:1033389-1033408 MS.gene62652:CDS 45.0%
!! TCAGAGTATTGCGAAGGCTT+TGG + chr4.2:1033395-1033414 MS.gene62652:CDS 45.0%
AACAGGTGCAATGCTTTGGC+CGG + chr4.2:1033163-1033182 MS.gene62652:CDS 50.0%
CAATGGCTGTCCAATCGAAC+TGG + chr4.2:1033242-1033261 MS.gene62652:CDS 50.0%
CCACGACCACCAAACTTCTT+AGG - chr4.2:1033528-1033547 None:intergenic 50.0%
CGCGGTCTCATCAAGATCAA+TGG + chr4.2:1033225-1033244 MS.gene62652:CDS 50.0%
CGCTGTGAGCCTAAGAAGTT+TGG + chr4.2:1033516-1033535 MS.gene62652:CDS 50.0%
CTGCAACAGCGTTCTTCTTC+CGG - chr4.2:1033185-1033204 None:intergenic 50.0%
TTCTTAGGCTCACAGCGTCT+AGG - chr4.2:1033513-1033532 None:intergenic 50.0%
! CCTAAGAAGTTTGGTGGTCG+TGG + chr4.2:1033525-1033544 MS.gene62652:CDS 50.0%
!! GTTTCGCCGGAGTTGATATG+AGG + chr4.2:1033325-1033344 MS.gene62652:CDS 50.0%
ATGAGGATCCGTGTGAAGGG+TGG + chr4.2:1033342-1033361 MS.gene62652:CDS 55.0%
GCAGTTACCCACTGCAAGAG+AGG + chr4.2:1033201-1033220 MS.gene62652:CDS 55.0%
TCAGGCTCCACCAGTTCGAT+TGG - chr4.2:1033255-1033274 None:intergenic 55.0%
TGGCTGTCCAATCGAACTGG+TGG + chr4.2:1033245-1033264 MS.gene62652:CDS 55.0%
TGTCTGCCGAGAAGGAGGAT+TGG - chr4.2:1033303-1033322 None:intergenic 55.0%
TGTGACCTCCACCCTTCACA+CGG - chr4.2:1033353-1033372 None:intergenic 55.0%
AACGGTGTCTGCCGAGAAGG+AGG - chr4.2:1033308-1033327 None:intergenic 60.0%
ACCCACTGCAAGAGAGGTCG+CGG + chr4.2:1033207-1033226 MS.gene62652:CDS 60.0%
ACCGCGACCTCTCTTGCAGT+GGG - chr4.2:1033211-1033230 None:intergenic 60.0%
AGGATCCGTGTGAAGGGTGG+AGG + chr4.2:1033345-1033364 MS.gene62652:CDS 60.0%
CGAAACGGTGTCTGCCGAGA+AGG - chr4.2:1033311-1033330 None:intergenic 60.0%
CTCGGCAGACACCGTTTCGC+CGG + chr4.2:1033312-1033331 MS.gene62652:CDS 65.0%
GACCGCGACCTCTCTTGCAG+TGG - chr4.2:1033212-1033231 None:intergenic 65.0%
GTGGTCGTGGTGCTCGTGCT+AGG + chr4.2:1033538-1033557 MS.gene62652:CDS 65.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 1033159 1033581 1033159 ID=MS.gene62652
chr4.2 mRNA 1033159 1033581 1033159 ID=MS.gene62652.t1;Parent=MS.gene62652
chr4.2 exon 1033159 1033581 1033159 ID=MS.gene62652.t1.exon1;Parent=MS.gene62652.t1
chr4.2 CDS 1033159 1033581 1033159 ID=cds.MS.gene62652.t1;Parent=MS.gene62652.t1
Gene Sequence

>MS.gene62652

ATGGAACAGGTGCAATGCTTTGGCCGGAAGAAGAACGCTGTTGCAGTTACCCACTGCAAGAGAGGTCGCGGTCTCATCAAGATCAATGGCTGTCCAATCGAACTGGTGGAGCCTGAGATTCTTCGTTTCAAGGCATACGAACCAATCCTCCTTCTCGGCAGACACCGTTTCGCCGGAGTTGATATGAGGATCCGTGTGAAGGGTGGAGGTCACACTTCTCAGATCTATGCCATTCGTCAGAGTATTGCGAAGGCTTTGGTTGCTTATTATCAGAAATATGTTGATGAACAGAGTAAGAAGGAGATTAAGGATATTCTTGTTCGTTATGATCGTACTCTTCTTGTTGCTGATCCTAGACGCTGTGAGCCTAAGAAGTTTGGTGGTCGTGGTGCTCGTGCTAGGTTCCAGAAATCTTATCGTTAG
Protein sequence

>MS.gene62652.t1

MEQVQCFGRKKNAVAVTHCKRGRGLIKINGCPIELVEPEILRFKAYEPILLLGRHRFAGVDMRIRVKGGGHTSQIYAIRQSIAKALVAYYQKYVDEQSKKEIKDILVRYDRTLLVADPRRCEPKKFGGRGARARFQKSYR