AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063979

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063979.t1 MTR_8g106080 100.000 140 0 0 1 140 1 140 1.17e-100 285
MS.gene063979.t1 MTR_8g106020 100.000 140 0 0 1 140 1 140 1.17e-100 285
MS.gene063979.t1 MTR_5g075240 99.286 140 1 0 1 140 1 140 2.63e-100 283
MS.gene063979.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.gene063979.t1 AT2G09990 89.928 139 14 0 2 140 8 146 5.16e-92 263
MS.gene063979.t1 AT5G18380 89.209 139 15 0 2 140 8 146 8.83e-92 262
MS.gene063979.t1 AT3G04230 84.173 139 22 0 2 140 8 146 1.84e-85 246
MS.gene063979.t1 AT5G18380 87.200 125 16 0 2 126 8 132 3.68e-79 230
MS.gene063979.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 5.2:+36454004 None:intergenic
ACAGAGTAAGAAGGAGATTA+AGG 0.258952 5.2:-36454121 MS.gene063979:CDS
CGCTGTGAGCCTAAGAAGTT+TGG 0.359075 5.2:-36454051 MS.gene063979:CDS
CTGCAACGGCGTTCTTCTTC+CGG 0.366311 5.2:+36454385 None:intergenic
GCCTGAGATTCTTCGTTTCA+AGG 0.392228 5.2:-36454298 MS.gene063979:CDS
TCAGAGTATTGCGAAGGCTT+TGG 0.400647 5.2:-36454172 MS.gene063979:CDS
CCACGACCACCAAACTTCTT+AGG 0.436009 5.2:+36454042 None:intergenic
TACGAACCAATCCTCCTTCT+CGG 0.444217 5.2:-36454273 MS.gene063979:CDS
ATGGAACAGGTGCAATGCTT+TGG 0.453443 5.2:-36454408 MS.gene063979:CDS
GCCTTGAAACGAAGAATCTC+AGG 0.478888 5.2:+36454297 None:intergenic
GAAGCTCAGCAAGATGGAAC+AGG 0.488449 5.2:-36454421 None:intergenic
CGCGGTCTCATCAAGATCAA+TGG 0.494184 5.2:-36454342 MS.gene063979:CDS
TCATATCAACTCCGGCGAAA+CGG 0.494924 5.2:+36454244 None:intergenic
TCAGGCTCCACGAGTTCGAT+TGG 0.496656 5.2:+36454315 None:intergenic
GTGGTCGTGGTGCTCGTGCT+AGG 0.502073 5.2:-36454029 MS.gene063979:CDS
CTCGGAAGACACCGTTTCGC+CGG 0.504037 5.2:-36454255 MS.gene063979:CDS
GTTTCGCCGGAGTTGATATG+AGG 0.511168 5.2:-36454242 MS.gene063979:CDS
CCTAAGAAGTTTGGTGGTCG+TGG 0.511400 5.2:-36454042 MS.gene063979:CDS
AGGATCCGTGTGAAGGGAGG+AGG 0.521481 5.2:-36454222 MS.gene063979:CDS
TGTTGATGAACAGAGTAAGA+AGG 0.534508 5.2:-36454130 MS.gene063979:CDS
AACAGGTGCAATGCTTTGGC+CGG 0.546867 5.2:-36454404 MS.gene063979:CDS
AACGGTGTCTTCCGAGAAGG+AGG 0.549270 5.2:+36454262 None:intergenic
TGTGAGCCTAAGAAGTTTGG+TGG 0.558448 5.2:-36454048 MS.gene063979:CDS
ACCCACTGCAAGAGAGGTCG+CGG 0.562945 5.2:-36454360 MS.gene063979:CDS
TGATATGAGGATCCGTGTGA+AGG 0.569818 5.2:-36454229 MS.gene063979:CDS
GCAGTTACCCACTGCAAGAG+AGG 0.582565 5.2:-36454366 MS.gene063979:CDS
TGGCTGTCCAATCGAACTCG+TGG 0.587642 5.2:-36454322 MS.gene063979:CDS
TTCTTAGGCTCACAGCGTCT+AGG 0.590494 5.2:+36454057 None:intergenic
TGTCTTCCGAGAAGGAGGAT+TGG 0.592227 5.2:+36454267 None:intergenic
GATATGAGGATCCGTGTGAA+GGG 0.594162 5.2:-36454228 MS.gene063979:CDS
CTTCGCAATACTCTGACGAA+TGG 0.610127 5.2:+36454179 None:intergenic
ATGAGGATCCGTGTGAAGGG+AGG 0.615322 5.2:-36454225 MS.gene063979:CDS
ACCGCGACCTCTCTTGCAGT+GGG 0.618077 5.2:+36454359 None:intergenic
CATTCGTCAGAGTATTGCGA+AGG 0.620290 5.2:-36454178 MS.gene063979:CDS
CGAAACGGTGTCTTCCGAGA+AGG 0.622095 5.2:+36454259 None:intergenic
GACCGCGACCTCTCTTGCAG+TGG 0.624398 5.2:+36454358 None:intergenic
TGTGACCTCCTCCCTTCACA+CGG 0.629480 5.2:+36454217 None:intergenic
CTTGCAGTGGGTAACTGCAA+CGG 0.644084 5.2:+36454371 None:intergenic
ACGGATCCTCATATCAACTC+CGG 0.648153 5.2:+36454236 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACAGAGTAAGAAGGAGATTA+AGG - chr5.2:36454295-36454314 MS.gene063979:CDS 35.0%
! TGTTGATGAACAGAGTAAGA+AGG - chr5.2:36454286-36454305 MS.gene063979:CDS 35.0%
ACGGATCCTCATATCAACTC+CGG + chr5.2:36454183-36454202 None:intergenic 45.0%
ATGGAACAGGTGCAATGCTT+TGG - chr5.2:36454008-36454027 MS.gene063979:CDS 45.0%
CTTCGCAATACTCTGACGAA+TGG + chr5.2:36454240-36454259 None:intergenic 45.0%
GATATGAGGATCCGTGTGAA+GGG - chr5.2:36454188-36454207 MS.gene063979:CDS 45.0%
GCCTGAGATTCTTCGTTTCA+AGG - chr5.2:36454118-36454137 MS.gene063979:CDS 45.0%
GCCTTGAAACGAAGAATCTC+AGG + chr5.2:36454122-36454141 None:intergenic 45.0%
TACGAACCAATCCTCCTTCT+CGG - chr5.2:36454143-36454162 MS.gene063979:CDS 45.0%
TCATATCAACTCCGGCGAAA+CGG + chr5.2:36454175-36454194 None:intergenic 45.0%
TGATATGAGGATCCGTGTGA+AGG - chr5.2:36454187-36454206 MS.gene063979:CDS 45.0%
TGTGAGCCTAAGAAGTTTGG+TGG - chr5.2:36454368-36454387 MS.gene063979:CDS 45.0%
!! CATTCGTCAGAGTATTGCGA+AGG - chr5.2:36454238-36454257 MS.gene063979:CDS 45.0%
!! TCAGAGTATTGCGAAGGCTT+TGG - chr5.2:36454244-36454263 MS.gene063979:CDS 45.0%
AACAGGTGCAATGCTTTGGC+CGG - chr5.2:36454012-36454031 MS.gene063979:CDS 50.0%
CCACGACCACCAAACTTCTT+AGG + chr5.2:36454377-36454396 None:intergenic 50.0%
CGCGGTCTCATCAAGATCAA+TGG - chr5.2:36454074-36454093 MS.gene063979:CDS 50.0%
CGCTGTGAGCCTAAGAAGTT+TGG - chr5.2:36454365-36454384 MS.gene063979:CDS 50.0%
CTTGCAGTGGGTAACTGCAA+CGG + chr5.2:36454048-36454067 None:intergenic 50.0%
TGTCTTCCGAGAAGGAGGAT+TGG + chr5.2:36454152-36454171 None:intergenic 50.0%
TTCTTAGGCTCACAGCGTCT+AGG + chr5.2:36454362-36454381 None:intergenic 50.0%
! CCTAAGAAGTTTGGTGGTCG+TGG - chr5.2:36454374-36454393 MS.gene063979:CDS 50.0%
!! GTTTCGCCGGAGTTGATATG+AGG - chr5.2:36454174-36454193 MS.gene063979:CDS 50.0%
AACGGTGTCTTCCGAGAAGG+AGG + chr5.2:36454157-36454176 None:intergenic 55.0%
ATGAGGATCCGTGTGAAGGG+AGG - chr5.2:36454191-36454210 MS.gene063979:CDS 55.0%
CGAAACGGTGTCTTCCGAGA+AGG + chr5.2:36454160-36454179 None:intergenic 55.0%
CTGCAACGGCGTTCTTCTTC+CGG + chr5.2:36454034-36454053 None:intergenic 55.0%
GCAGTTACCCACTGCAAGAG+AGG - chr5.2:36454050-36454069 MS.gene063979:CDS 55.0%
TCAGGCTCCACGAGTTCGAT+TGG + chr5.2:36454104-36454123 None:intergenic 55.0%
TGGCTGTCCAATCGAACTCG+TGG - chr5.2:36454094-36454113 MS.gene063979:CDS 55.0%
TGTGACCTCCTCCCTTCACA+CGG + chr5.2:36454202-36454221 None:intergenic 55.0%
ACCCACTGCAAGAGAGGTCG+CGG - chr5.2:36454056-36454075 MS.gene063979:CDS 60.0%
ACCGCGACCTCTCTTGCAGT+GGG + chr5.2:36454060-36454079 None:intergenic 60.0%
AGGATCCGTGTGAAGGGAGG+AGG - chr5.2:36454194-36454213 MS.gene063979:CDS 60.0%
CTCGGAAGACACCGTTTCGC+CGG - chr5.2:36454161-36454180 MS.gene063979:CDS 60.0%
GACCGCGACCTCTCTTGCAG+TGG + chr5.2:36454061-36454080 None:intergenic 65.0%
GTGGTCGTGGTGCTCGTGCT+AGG - chr5.2:36454387-36454406 MS.gene063979:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 36454008 36454430 36454008 ID=MS.gene063979
chr5.2 mRNA 36454008 36454430 36454008 ID=MS.gene063979.t1;Parent=MS.gene063979
chr5.2 exon 36454008 36454430 36454008 ID=MS.gene063979.t1.exon1;Parent=MS.gene063979.t1
chr5.2 CDS 36454008 36454430 36454008 ID=cds.MS.gene063979.t1;Parent=MS.gene063979.t1
Gene Sequence

>MS.gene063979

ATGGAACAGGTGCAATGCTTTGGCCGGAAGAAGAACGCCGTTGCAGTTACCCACTGCAAGAGAGGTCGCGGTCTCATCAAGATCAATGGCTGTCCAATCGAACTCGTGGAGCCTGAGATTCTTCGTTTCAAGGCATACGAACCAATCCTCCTTCTCGGAAGACACCGTTTCGCCGGAGTTGATATGAGGATCCGTGTGAAGGGAGGAGGTCACACTTCTCAGATATATGCCATTCGTCAGAGTATTGCGAAGGCTTTGGTTGCTTATTATCAGAAATATGTTGATGAACAGAGTAAGAAGGAGATTAAGGATATTCTTGTTCGTTATGATCGTACTCTTCTTGTTGCTGATCCTAGACGCTGTGAGCCTAAGAAGTTTGGTGGTCGTGGTGCTCGTGCTAGGTTCCAGAAATCTTATCGTTAG
Protein sequence

>MS.gene063979.t1

MEQVQCFGRKKNAVAVTHCKRGRGLIKINGCPIELVEPEILRFKAYEPILLLGRHRFAGVDMRIRVKGGGHTSQIYAIRQSIAKALVAYYQKYVDEQSKKEIKDILVRYDRTLLVADPRRCEPKKFGGRGARARFQKSYR