AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380015897.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015897.01.T01 MTR_3g079480 93.056 144 10 0 1 144 37 180 7.56e-93 278
MsG0380015897.01.T01 MTR_3g479620 85.034 147 22 0 1 147 22 168 1.67e-89 258
MsG0380015897.01.T01 MTR_3g479520 78.082 146 32 0 1 146 31 176 6.34e-79 242
MsG0380015897.01.T01 MTR_3g479490 80.556 144 28 0 1 144 22 165 1.63e-78 241
MsG0380015897.01.T01 MTR_3g479470 63.889 144 52 0 1 144 29 172 7.20e-56 182
MsG0380015897.01.T01 MTR_5g464810 51.034 145 70 1 1 144 28 172 2.32e-45 154
MsG0380015897.01.T01 MTR_5g064240 51.034 145 70 1 1 144 28 172 2.32e-45 154
MsG0380015897.01.T01 MTR_5g464760 50.345 145 71 1 1 144 28 172 4.68e-44 151
MsG0380015897.01.T01 MTR_0036s0220 48.966 145 73 1 1 144 28 172 8.31e-43 148
MsG0380015897.01.T01 MTR_2g008210 48.966 145 69 2 1 144 27 167 5.64e-39 137
MsG0380015897.01.T01 MTR_6g014290 44.898 147 79 1 2 146 27 173 1.25e-36 131
MsG0380015897.01.T01 MTR_6g014040 46.980 149 73 3 2 144 27 175 3.13e-36 130
MsG0380015897.01.T01 MTR_6g014195 45.638 149 76 2 1 144 26 174 1.91e-35 122
MsG0380015897.01.T01 MTR_6g014250 43.151 146 81 1 1 144 26 171 2.20e-35 128
MsG0380015897.01.T01 MTR_3g008010 43.537 147 81 1 2 146 27 173 3.15e-35 127
MsG0380015897.01.T01 MTR_6g014220 44.828 145 78 1 2 144 27 171 3.77e-34 124
MsG0380015897.01.T01 MTR_4g094220 44.667 150 81 1 1 148 23 172 3.78e-34 125
MsG0380015897.01.T01 MTR_0199s0010 42.177 147 82 2 2 146 27 172 1.61e-33 119
MsG0380015897.01.T01 MTR_6g014270 43.709 151 78 2 1 144 23 173 3.07e-33 122
MsG0380015897.01.T01 MTR_6g014020 42.000 150 82 2 2 146 27 176 1.21e-32 120
MsG0380015897.01.T01 MTR_8g007585 42.759 145 80 2 2 144 27 170 3.60e-32 118
MsG0380015897.01.T01 MTR_8g059425 40.940 149 85 1 1 146 26 174 4.67e-32 119
MsG0380015897.01.T01 MTR_6g013440 45.333 150 77 2 2 146 28 177 6.87e-32 119
MsG0380015897.01.T01 MTR_6g014300 44.000 150 79 2 2 146 29 178 8.20e-32 118
MsG0380015897.01.T01 MTR_6g014186 38.926 149 86 2 1 144 23 171 2.63e-31 116
MsG0380015897.01.T01 MTR_6g014150 41.727 139 76 2 11 144 33 171 6.50e-31 116
MsG0380015897.01.T01 MTR_6g014310 44.604 139 72 2 11 144 37 175 1.15e-30 115
MsG0380015897.01.T01 MTR_6g014200 43.262 141 75 2 11 146 33 173 2.63e-30 114
MsG0380015897.01.T01 MTR_6g014170 41.497 147 84 1 2 146 27 173 1.36e-29 112
MsG0380015897.01.T01 MTR_0288s0020 40.268 149 83 2 2 144 27 175 3.80e-29 111
MsG0380015897.01.T01 MTR_6g013450 40.940 149 83 2 3 146 28 176 4.80e-29 110
MsG0380015897.01.T01 MTR_6g014050 46.043 139 70 3 11 144 37 175 1.18e-28 110
MsG0380015897.01.T01 MTR_6g014240 39.726 146 75 2 1 144 23 157 2.39e-26 103
MsG0380015897.01.T01 MTR_7g011470 39.860 143 81 2 11 148 36 178 6.76e-26 102
MsG0380015897.01.T01 MTR_0475s0020 47.748 111 52 2 2 106 27 137 1.69e-25 97.1
MsG0380015897.01.T01 MTR_7g011470 39.568 139 79 2 11 144 36 174 7.09e-25 99.4
MsG0380015897.01.T01 MTR_6g013960 38.255 149 87 2 1 144 26 174 1.12e-24 99.0
MsG0380015897.01.T01 MTR_6g014187 39.073 151 87 2 1 146 26 176 1.32e-24 99.0
MsG0380015897.01.T01 MTR_6g011340 41.727 139 76 2 11 144 36 174 1.60e-24 98.6
MsG0380015897.01.T01 MTR_6g013990 40.559 143 80 2 11 148 36 178 1.86e-24 98.2
MsG0380015897.01.T01 MTR_5g058320 40.136 147 73 4 2 146 27 160 9.41e-22 90.9
MsG0380015897.01.T01 MTR_6g013920 37.143 140 84 2 11 146 36 175 9.50e-22 90.9
MsG0380015897.01.T01 MTR_6g013900 35.461 141 87 2 11 147 36 176 6.12e-20 85.5
MsG0380015897.01.T01 MTR_6g013680 38.017 121 70 2 31 146 3 123 2.27e-17 77.8
MsG0380015897.01.T01 MTR_7g013200 31.293 147 91 5 1 145 21 159 5.52e-12 62.8
MsG0380015897.01.T01 MTR_7g013220 29.605 152 98 3 1 145 21 170 5.95e-12 62.8
MsG0380015897.01.T01 MTR_5g031860 29.801 151 91 5 1 145 28 169 5.35e-11 60.1
MsG0380015897.01.T01 MTR_3g069690 31.250 144 87 3 1 144 24 155 6.19e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380015897.01.T01 AT1G22360 49.306 144 73 0 1 144 26 169 1.47e-45 155
MsG0380015897.01.T01 AT1G22360 49.306 144 73 0 1 144 26 169 1.59e-45 155
MsG0380015897.01.T01 AT1G22380 49.306 144 73 0 1 144 29 172 2.02e-45 155
MsG0380015897.01.T01 AT1G22370 47.260 146 77 0 1 146 29 174 4.84e-45 154
MsG0380015897.01.T01 AT1G78270 47.917 144 75 0 1 144 29 172 9.94e-44 150
MsG0380015897.01.T01 AT1G22400 46.528 144 77 0 1 144 29 172 4.03e-43 149
MsG0380015897.01.T01 AT1G22340 43.836 146 82 0 1 146 29 174 7.77e-39 137

Find 39 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGCATCTTTATCTGATTC+TGG 0.253266 3:+76444097 None:intergenic
TGGAAGAGTGGCTAAGGATT+TGG 0.280456 3:-76443936 MsG0380015897.01.T01:CDS
CTTGGAGCTGACTTTGTTAA+GGG 0.310099 3:-76444160 MsG0380015897.01.T01:CDS
TCTTGGAGCTGACTTTGTTA+AGG 0.346942 3:-76444161 MsG0380015897.01.T01:CDS
ACCATTACAACGTAGGAGTT+TGG 0.354802 3:+76444237 None:intergenic
TGCTTCTACTTGTGGGTTTG+TGG 0.362942 3:-76443888 MsG0380015897.01.T01:CDS
GATGGCAATTATGACTTTGC+TGG 0.363761 3:-76443956 MsG0380015897.01.T01:CDS
GGAAGAGTGGCTAAGGATTT+GGG 0.372307 3:-76443935 MsG0380015897.01.T01:CDS
TCAGCAATTATACAAGTAAC+TGG 0.373014 3:+76443977 None:intergenic
TTTGGACTGCTTCTACTTGT+GGG 0.381446 3:-76443895 MsG0380015897.01.T01:CDS
ATGGTCTCAAATTGAAAATC+AGG 0.386462 3:+76444133 None:intergenic
CTTTGGACTGCTTCTACTTG+TGG 0.406475 3:-76443896 MsG0380015897.01.T01:CDS
GCTTCTACTTGTGGGTTTGT+GGG 0.409693 3:-76443887 MsG0380015897.01.T01:CDS
GGGTTTAATTTACCTTTGAA+TGG 0.413029 3:+76443824 None:intergenic
TGAATTCAACCACAAACGTT+TGG 0.432420 3:-76444191 MsG0380015897.01.T01:CDS
TCTGATTCTGGTAAACCATC+AGG 0.441558 3:+76444109 None:intergenic
AAACGTTTGGTAAAGTCTCT+TGG 0.443702 3:-76444178 MsG0380015897.01.T01:CDS
GCCAAACTCCTACGTTGTAA+TGG 0.460605 3:-76444238 MsG0380015897.01.T01:CDS
GAGACTTTACCAAACGTTTG+TGG 0.473697 3:+76444182 None:intergenic
TAATCACGAGCTCTTTGAAA+GGG 0.474754 3:+76444026 None:intergenic
CAGTGTTCACAAAGGTTATG+TGG 0.477175 3:+76444212 None:intergenic
ATACAAGTAACTGGAATATG+AGG 0.502466 3:+76443986 None:intergenic
AGAGGAATTCTTCCATTCAA+AGG 0.528099 3:-76443836 MsG0380015897.01.T01:CDS
TGTGGGATATTTGCAATTCG+AGG 0.531454 3:-76443870 MsG0380015897.01.T01:CDS
CACAGGATGTTCTAACGTTG+TGG 0.532549 3:-76444075 MsG0380015897.01.T01:CDS
CTTTGCTGGAAGAGTGGCTA+AGG 0.536699 3:-76443942 MsG0380015897.01.T01:CDS
TTCGAGGAGCTTGTCAAAAG+AGG 0.537426 3:-76443854 MsG0380015897.01.T01:CDS
AAGTAGAAGCAGTCCAAAGT+TGG 0.540479 3:+76443900 None:intergenic
TTCTGGTAAACCATCAGGTA+TGG 0.543800 3:+76444114 None:intergenic
GCATTCGAGAGATCCAACTT+TGG 0.550641 3:-76443913 MsG0380015897.01.T01:CDS
GTTACTTGTATAATTGCTGA+TGG 0.554672 3:-76443974 MsG0380015897.01.T01:CDS
TTAATCACGAGCTCTTTGAA+AGG 0.556808 3:+76444025 None:intergenic
ATCAGATAAAGATGCAACAC+AGG 0.561391 3:-76444092 MsG0380015897.01.T01:CDS
TTATGACTTTGCTGGAAGAG+TGG 0.569942 3:-76443948 MsG0380015897.01.T01:CDS
CAATTTGAGACCATACCTGA+TGG 0.571463 3:-76444124 MsG0380015897.01.T01:CDS
ACAGGATGTTCTAACGTTGT+GGG 0.594620 3:-76444074 MsG0380015897.01.T01:CDS
AATCACGAGCTCTTTGAAAG+GGG 0.625697 3:+76444027 None:intergenic
GTTGAATTCAGTGTTCACAA+AGG 0.652579 3:+76444204 None:intergenic
TGTGGAAACCATTACAACGT+AGG 0.697450 3:+76444230 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAACATAGAGAAAAAAAAT+GGG + Chr3:76444242-76444261 None:intergenic 20.0%
! CGAAACATAGAGAAAAAAAA+TGG + Chr3:76444243-76444262 None:intergenic 25.0%
ATACAAGTAACTGGAATATG+AGG + Chr3:76444060-76444079 None:intergenic 30.0%
ATGGTCTCAAATTGAAAATC+AGG + Chr3:76443913-76443932 None:intergenic 30.0%
GTTACTTGTATAATTGCTGA+TGG - Chr3:76444069-76444088 MsG0380015897.01.T01:CDS 30.0%
TCAGCAATTATACAAGTAAC+TGG + Chr3:76444069-76444088 None:intergenic 30.0%
! GGGTTTAATTTACCTTTGAA+TGG + Chr3:76444222-76444241 None:intergenic 30.0%
AAACGTTTGGTAAAGTCTCT+TGG - Chr3:76443865-76443884 MsG0380015897.01.T01:CDS 35.0%
AGAGGAATTCTTCCATTCAA+AGG - Chr3:76444207-76444226 MsG0380015897.01.T01:CDS 35.0%
ATCAGATAAAGATGCAACAC+AGG - Chr3:76443951-76443970 MsG0380015897.01.T01:CDS 35.0%
GTTGAATTCAGTGTTCACAA+AGG + Chr3:76443842-76443861 None:intergenic 35.0%
GTTGCATCTTTATCTGATTC+TGG + Chr3:76443949-76443968 None:intergenic 35.0%
TGAATTCAACCACAAACGTT+TGG - Chr3:76443852-76443871 MsG0380015897.01.T01:CDS 35.0%
TTAATCACGAGCTCTTTGAA+AGG + Chr3:76444021-76444040 None:intergenic 35.0%
! TAATCACGAGCTCTTTGAAA+GGG + Chr3:76444020-76444039 None:intergenic 35.0%
AAGTAGAAGCAGTCCAAAGT+TGG + Chr3:76444146-76444165 None:intergenic 40.0%
ACAGGATGTTCTAACGTTGT+GGG - Chr3:76443969-76443988 MsG0380015897.01.T01:CDS 40.0%
ACCATTACAACGTAGGAGTT+TGG + Chr3:76443809-76443828 None:intergenic 40.0%
CAGTGTTCACAAAGGTTATG+TGG + Chr3:76443834-76443853 None:intergenic 40.0%
GAGACTTTACCAAACGTTTG+TGG + Chr3:76443864-76443883 None:intergenic 40.0%
GATGGCAATTATGACTTTGC+TGG - Chr3:76444087-76444106 MsG0380015897.01.T01:CDS 40.0%
TCTGATTCTGGTAAACCATC+AGG + Chr3:76443937-76443956 None:intergenic 40.0%
TGTGGAAACCATTACAACGT+AGG + Chr3:76443816-76443835 None:intergenic 40.0%
TGTGGGATATTTGCAATTCG+AGG - Chr3:76444173-76444192 MsG0380015897.01.T01:CDS 40.0%
TTATGACTTTGCTGGAAGAG+TGG - Chr3:76444095-76444114 MsG0380015897.01.T01:CDS 40.0%
TTCTGGTAAACCATCAGGTA+TGG + Chr3:76443932-76443951 None:intergenic 40.0%
TTTGGACTGCTTCTACTTGT+GGG - Chr3:76444148-76444167 MsG0380015897.01.T01:CDS 40.0%
! AATCACGAGCTCTTTGAAAG+GGG + Chr3:76444019-76444038 None:intergenic 40.0%
! CAATTTGAGACCATACCTGA+TGG - Chr3:76443919-76443938 MsG0380015897.01.T01:CDS 40.0%
! CTTGGAGCTGACTTTGTTAA+GGG - Chr3:76443883-76443902 MsG0380015897.01.T01:CDS 40.0%
! TCTTGGAGCTGACTTTGTTA+AGG - Chr3:76443882-76443901 MsG0380015897.01.T01:CDS 40.0%
CACAGGATGTTCTAACGTTG+TGG - Chr3:76443968-76443987 MsG0380015897.01.T01:CDS 45.0%
CTTTGGACTGCTTCTACTTG+TGG - Chr3:76444147-76444166 MsG0380015897.01.T01:CDS 45.0%
GCATTCGAGAGATCCAACTT+TGG - Chr3:76444130-76444149 MsG0380015897.01.T01:CDS 45.0%
GCCAAACTCCTACGTTGTAA+TGG - Chr3:76443805-76443824 MsG0380015897.01.T01:CDS 45.0%
GCTTCTACTTGTGGGTTTGT+GGG - Chr3:76444156-76444175 MsG0380015897.01.T01:CDS 45.0%
GGAAGAGTGGCTAAGGATTT+GGG - Chr3:76444108-76444127 MsG0380015897.01.T01:CDS 45.0%
TGCTTCTACTTGTGGGTTTG+TGG - Chr3:76444155-76444174 MsG0380015897.01.T01:CDS 45.0%
TGGAAGAGTGGCTAAGGATT+TGG - Chr3:76444107-76444126 MsG0380015897.01.T01:CDS 45.0%
TTCGAGGAGCTTGTCAAAAG+AGG - Chr3:76444189-76444208 MsG0380015897.01.T01:CDS 45.0%
CTTTGCTGGAAGAGTGGCTA+AGG - Chr3:76444101-76444120 MsG0380015897.01.T01:CDS 50.0%
Chromosome Type Strat End Strand Name
Chr3 gene 76443796 76444269 76443796 ID=MsG0380015897.01;Name=MsG0380015897.01
Chr3 mRNA 76443796 76444269 76443796 ID=MsG0380015897.01.T01;Parent=MsG0380015897.01;Name=MsG0380015897.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|157
Chr3 exon 76443796 76444269 76443796 ID=MsG0380015897.01.T01:exon:1467;Parent=MsG0380015897.01.T01
Chr3 CDS 76443796 76444269 76443796 ID=MsG0380015897.01.T01:cds;Parent=MsG0380015897.01.T01
Gene Sequence

>MsG0380015897.01.T01

ATGCGACTAGCCAAACTCCTACGTTGTAATGGTTTCCACATAACCTTTGTGAACACTGAATTCAACCACAAACGTTTGGTAAAGTCTCTTGGAGCTGACTTTGTTAAGGGTCTACCTGATTTTCAATTTGAGACCATACCTGATGGTTTACCAGAATCAGATAAAGATGCAACACAGGATGTTCTAACGTTGTGGGATGCAACTAGAAATTTTTTTTATGCCCCTTTCAAAGAGCTCGTGATTAAGCTCAACACTTCATCACCTCATATTCCAGTTACTTGTATAATTGCTGATGGCAATTATGACTTTGCTGGAAGAGTGGCTAAGGATTTGGGCATTCGAGAGATCCAACTTTGGACTGCTTCTACTTGTGGGTTTGTGGGATATTTGCAATTCGAGGAGCTTGTCAAAAGAGGAATTCTTCCATTCAAAGGTAAATTAAACCCATTTTTTTTCTCTATGTTTCGTAACTAG

Protein sequence

>MsG0380015897.01.T01

MRLAKLLRCNGFHITFVNTEFNHKRLVKSLGADFVKGLPDFQFETIPDGLPESDKDATQDVLTLWDATRNFFYAPFKELVIKLNTSSPHIPVTCIIADGNYDFAGRVAKDLGIREIQLWTASTCGFVGYLQFEELVKRGILPFKGKLNPFFFSMFRN*