AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480022125.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022125.01.T01 MTR_4g085100 97.906 191 4 0 1 191 1 191 7.98e-135 377
MsG0480022125.01.T01 MTR_1g030740 71.098 173 46 3 1 172 1 170 4.04e-76 228
MsG0480022125.01.T01 MTR_3g067730 51.445 173 72 5 1 164 1 170 6.67e-49 159
MsG0480022125.01.T01 MTR_5g079610 50.282 177 74 5 1 168 1 172 7.18e-49 159
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480022125.01.T01 AT2G01340 59.302 172 65 1 1 172 1 167 3.62e-61 190
MsG0480022125.01.T01 AT1G71015 51.497 167 69 3 1 163 1 159 8.79e-45 148
MsG0480022125.01.T01 AT1G71015 51.497 167 69 3 1 163 1 159 8.79e-45 148
MsG0480022125.01.T01 AT1G66480 46.067 178 78 5 1 164 1 174 5.91e-42 141
MsG0480022125.01.T01 AT5G37840 42.373 177 88 5 1 170 1 170 3.51e-36 126

Find 52 sgRNAs with CRISPR-Local

Find 55 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCTTGGTTTGGTTTCTTT+TGG 0.198709 4:-68566963 None:intergenic
AATGATTATGCGTTTGTATA+AGG 0.263418 4:+68567214 MsG0480022125.01.T01:CDS
ACAAGAAAATAAAGCCTCTT+TGG 0.283419 4:-68566933 None:intergenic
CAAAGATAGACTTGATAATT+TGG 0.287354 4:+68567013 MsG0480022125.01.T01:CDS
CAGTTAAGCATTATGGTGTT+AGG 0.299381 4:+68566877 MsG0480022125.01.T01:CDS
CAAATTATCAAGTCTATCTT+TGG 0.302648 4:-68567012 None:intergenic
GTACTAATGGGGAACACTTT+TGG 0.306983 4:+68566735 None:intergenic
TCTGAAGCAGTTAAGCATTA+TGG 0.310517 4:+68566870 MsG0480022125.01.T01:CDS
TTTGGCACTCATTTGAATTC+CGG 0.326729 4:-68566994 None:intergenic
ATTCCGGAACGAATTCTTCT+TGG 0.341703 4:-68566978 None:intergenic
GGAACGAATTCTTCTTGGTT+TGG 0.362859 4:-68566973 None:intergenic
GCCAATTCTCTTAGAATTTG+AGG 0.367974 4:-68567358 None:intergenic
CAAACCTGTCGTGGTGTTCT+CGG 0.372324 4:-68567296 None:intergenic
GAATGATAATAGTGGTGAAT+TGG 0.372478 4:+68567088 MsG0480022125.01.T01:CDS
CGTGGTGTTCTCGGAGTTCT+CGG 0.376858 4:-68567287 None:intergenic
TTGATAATTTGGTGCTTACT+AGG 0.395266 4:+68567024 MsG0480022125.01.T01:CDS
GACTATGGTTAAGGAGAGTC+CGG 0.404329 4:+68567259 MsG0480022125.01.T01:CDS
ACAAAGGTCATGAAAATAGA+TGG 0.431872 4:+68566771 MsG0480022125.01.T01:CDS
TAGTGGTGAATTGGAAAGTA+AGG 0.435680 4:+68567097 MsG0480022125.01.T01:CDS
GGAAAAGGAGACTATGGTTA+AGG 0.444683 4:+68567250 MsG0480022125.01.T01:CDS
CCAATTCTCTTAGAATTTGA+GGG 0.449389 4:-68567357 None:intergenic
AGGAGAATGGTGGTGGGGTG+AGG 0.452868 4:+68567117 MsG0480022125.01.T01:CDS
TTGTATAAGGCCAGTGGCAA+AGG 0.455846 4:+68567227 MsG0480022125.01.T01:CDS
AAAAGCTGGAGAAGTGCTTA+AGG 0.461047 4:+68566821 MsG0480022125.01.T01:CDS
CTCGGAGTTCTCGGAGTCCC+CGG 0.471338 4:-68567278 None:intergenic
AGTAAAATGAATGATAATAG+TGG 0.471671 4:+68567080 MsG0480022125.01.T01:CDS
TGTATAAGGCCAGTGGCAAA+GGG 0.475209 4:+68567228 MsG0480022125.01.T01:CDS
AGTTAAGCATTATGGTGTTA+GGG 0.475824 4:+68566878 MsG0480022125.01.T01:CDS
AACTTCTCCACCTCTGCCTT+AGG 0.479167 4:-68567155 None:intergenic
GAAAGTAAGGAGAATGGTGG+TGG 0.482857 4:+68567110 MsG0480022125.01.T01:CDS
GGCCAGTGGCAAAGGGGAAA+AGG 0.487730 4:+68567235 MsG0480022125.01.T01:CDS
CAAAGGGGAAAAGGAGACTA+TGG 0.489330 4:+68567244 MsG0480022125.01.T01:CDS
AACTCCGAGAACACCACGAC+AGG 0.518893 4:+68567292 MsG0480022125.01.T01:CDS
GTTGAAAGTTAGACTTCCTA+AGG 0.523556 4:+68567139 MsG0480022125.01.T01:CDS
GCATTATGGTGTTAGGGCAA+AGG 0.538688 4:+68566884 MsG0480022125.01.T01:CDS
AAAGTAAGGAGAATGGTGGT+GGG 0.541122 4:+68567111 MsG0480022125.01.T01:CDS
ACTATGGTTAAGGAGAGTCC+GGG 0.565888 4:+68567260 MsG0480022125.01.T01:CDS
TAGACTTCCTAAGGCAGAGG+TGG 0.572018 4:+68567148 MsG0480022125.01.T01:CDS
AAACCAAGAAGAATTCGTTC+CGG 0.593057 4:+68566975 MsG0480022125.01.T01:CDS
AGTTAGACTTCCTAAGGCAG+AGG 0.603968 4:+68567145 MsG0480022125.01.T01:CDS
GAATCTAACAAAACAAGACC+TGG 0.606823 4:-68566849 None:intergenic
AATCGAAAACAAACCTGTCG+TGG 0.610738 4:-68567305 None:intergenic
GATGAGAGATTGTAAAGATG+AGG 0.620097 4:+68567178 MsG0480022125.01.T01:CDS
ACAAAGAGTTACAACCAAAG+AGG 0.621866 4:+68566919 MsG0480022125.01.T01:CDS
AGATTGTAAAGATGAGGCTG+AGG 0.623789 4:+68567184 MsG0480022125.01.T01:CDS
ATGCGTTTGTATAAGGCCAG+TGG 0.639943 4:+68567221 MsG0480022125.01.T01:CDS
GAAGTGCTTAAGGATCATCC+AGG 0.665688 4:+68566831 MsG0480022125.01.T01:CDS
GAATTGGAAAGTAAGGAGAA+TGG 0.667558 4:+68567104 MsG0480022125.01.T01:CDS
AAGTAAGGAGAATGGTGGTG+GGG 0.675900 4:+68567112 MsG0480022125.01.T01:CDS
CTATGGTTAAGGAGAGTCCG+GGG 0.703935 4:+68567261 MsG0480022125.01.T01:CDS
GTATAAGGCCAGTGGCAAAG+GGG 0.732700 4:+68567229 MsG0480022125.01.T01:CDS
TTGGAAAGTAAGGAGAATGG+TGG 0.733038 4:+68567107 MsG0480022125.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTAAAATGAATGATAATAG+TGG + Chr4:68567080-68567099 MsG0480022125.01.T01:CDS 20.0%
! AATGATTATGCGTTTGTATA+AGG + Chr4:68567214-68567233 MsG0480022125.01.T01:CDS 25.0%
! CAAATTATCAAGTCTATCTT+TGG - Chr4:68567015-68567034 None:intergenic 25.0%
!! CAAAGATAGACTTGATAATT+TGG + Chr4:68567013-68567032 MsG0480022125.01.T01:CDS 25.0%
ACAAAGGTCATGAAAATAGA+TGG + Chr4:68566771-68566790 MsG0480022125.01.T01:CDS 30.0%
ACAAGAAAATAAAGCCTCTT+TGG - Chr4:68566936-68566955 None:intergenic 30.0%
CTAAAAACACCAATAAAAGC+TGG + Chr4:68566807-68566826 MsG0480022125.01.T01:CDS 30.0%
GAATGATAATAGTGGTGAAT+TGG + Chr4:68567088-68567107 MsG0480022125.01.T01:CDS 30.0%
! AGTTAAGCATTATGGTGTTA+GGG + Chr4:68566878-68566897 MsG0480022125.01.T01:CDS 30.0%
! ATCTATTTTCATGACCTTTG+TGG - Chr4:68566772-68566791 None:intergenic 30.0%
!! TTGATAATTTGGTGCTTACT+AGG + Chr4:68567024-68567043 MsG0480022125.01.T01:CDS 30.0%
!!! AAAGAGGCTTTATTTTCTTG+TGG + Chr4:68566935-68566954 MsG0480022125.01.T01:CDS 30.0%
AAACCAAGAAGAATTCGTTC+CGG + Chr4:68566975-68566994 MsG0480022125.01.T01:CDS 35.0%
ACAAAGAGTTACAACCAAAG+AGG + Chr4:68566919-68566938 MsG0480022125.01.T01:CDS 35.0%
CAGTTAAGCATTATGGTGTT+AGG + Chr4:68566877-68566896 MsG0480022125.01.T01:CDS 35.0%
GAATCTAACAAAACAAGACC+TGG - Chr4:68566852-68566871 None:intergenic 35.0%
GAATTGGAAAGTAAGGAGAA+TGG + Chr4:68567104-68567123 MsG0480022125.01.T01:CDS 35.0%
GATGAGAGATTGTAAAGATG+AGG + Chr4:68567178-68567197 MsG0480022125.01.T01:CDS 35.0%
GTTGAAAGTTAGACTTCCTA+AGG + Chr4:68567139-68567158 MsG0480022125.01.T01:CDS 35.0%
TAGTGGTGAATTGGAAAGTA+AGG + Chr4:68567097-68567116 MsG0480022125.01.T01:CDS 35.0%
TGGTTCAAAAAAGACCACAA+AGG + Chr4:68566755-68566774 MsG0480022125.01.T01:CDS 35.0%
TTTGGCACTCATTTGAATTC+CGG - Chr4:68566997-68567016 None:intergenic 35.0%
! TCTGAAGCAGTTAAGCATTA+TGG + Chr4:68566870-68566889 MsG0480022125.01.T01:CDS 35.0%
!!! CTTCTTGGTTTGGTTTCTTT+TGG - Chr4:68566966-68566985 None:intergenic 35.0%
AAAGTAAGGAGAATGGTGGT+GGG + Chr4:68567111-68567130 MsG0480022125.01.T01:CDS 40.0%
AATCGAAAACAAACCTGTCG+TGG - Chr4:68567308-68567327 None:intergenic 40.0%
AGATTGTAAAGATGAGGCTG+AGG + Chr4:68567184-68567203 MsG0480022125.01.T01:CDS 40.0%
ATTCCGGAACGAATTCTTCT+TGG - Chr4:68566981-68567000 None:intergenic 40.0%
GGAAAAGGAGACTATGGTTA+AGG + Chr4:68567250-68567269 MsG0480022125.01.T01:CDS 40.0%
GGAACGAATTCTTCTTGGTT+TGG - Chr4:68566976-68566995 None:intergenic 40.0%
TTGGAAAGTAAGGAGAATGG+TGG + Chr4:68567107-68567126 MsG0480022125.01.T01:CDS 40.0%
! AGCACTTCTCCAGCTTTTAT+TGG - Chr4:68566819-68566838 None:intergenic 40.0%
!! AAAAGCTGGAGAAGTGCTTA+AGG + Chr4:68566821-68566840 MsG0480022125.01.T01:CDS 40.0%
ACTATGGTTAAGGAGAGTCC+GGG + Chr4:68567260-68567279 MsG0480022125.01.T01:CDS 45.0%
AGTTAGACTTCCTAAGGCAG+AGG + Chr4:68567145-68567164 MsG0480022125.01.T01:CDS 45.0%
ATGCGTTTGTATAAGGCCAG+TGG + Chr4:68567221-68567240 MsG0480022125.01.T01:CDS 45.0%
CAAAGGGGAAAAGGAGACTA+TGG + Chr4:68567244-68567263 MsG0480022125.01.T01:CDS 45.0%
GAAAGTAAGGAGAATGGTGG+TGG + Chr4:68567110-68567129 MsG0480022125.01.T01:CDS 45.0%
GACTATGGTTAAGGAGAGTC+CGG + Chr4:68567259-68567278 MsG0480022125.01.T01:CDS 45.0%
TGTATAAGGCCAGTGGCAAA+GGG + Chr4:68567228-68567247 MsG0480022125.01.T01:CDS 45.0%
TTGTATAAGGCCAGTGGCAA+AGG + Chr4:68567227-68567246 MsG0480022125.01.T01:CDS 45.0%
! AAGTAAGGAGAATGGTGGTG+GGG + Chr4:68567112-68567131 MsG0480022125.01.T01:CDS 45.0%
! GAAGTGCTTAAGGATCATCC+AGG + Chr4:68566831-68566850 MsG0480022125.01.T01:CDS 45.0%
! GCATTATGGTGTTAGGGCAA+AGG + Chr4:68566884-68566903 MsG0480022125.01.T01:CDS 45.0%
AACTTCTCCACCTCTGCCTT+AGG - Chr4:68567158-68567177 None:intergenic 50.0%
CAAACCTGTCGTGGTGTTCT+CGG - Chr4:68567299-68567318 None:intergenic 50.0%
CTATGGTTAAGGAGAGTCCG+GGG + Chr4:68567261-68567280 MsG0480022125.01.T01:CDS 50.0%
GTATAAGGCCAGTGGCAAAG+GGG + Chr4:68567229-68567248 MsG0480022125.01.T01:CDS 50.0%
TAGACTTCCTAAGGCAGAGG+TGG + Chr4:68567148-68567167 MsG0480022125.01.T01:CDS 50.0%
AACTCCGAGAACACCACGAC+AGG + Chr4:68567292-68567311 MsG0480022125.01.T01:CDS 55.0%
CGTGGTGTTCTCGGAGTTCT+CGG - Chr4:68567290-68567309 None:intergenic 55.0%
! CTCCTTTTCCCCTTTGCCAC+TGG - Chr4:68567240-68567259 None:intergenic 55.0%
GGCCAGTGGCAAAGGGGAAA+AGG + Chr4:68567235-68567254 MsG0480022125.01.T01:CDS 60.0%
!! AGGAGAATGGTGGTGGGGTG+AGG + Chr4:68567117-68567136 MsG0480022125.01.T01:CDS 60.0%
CTCGGAGTTCTCGGAGTCCC+CGG - Chr4:68567281-68567300 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 68566741 68567370 68566741 ID=MsG0480022125.01;Name=MsG0480022125.01
Chr4 mRNA 68566741 68567370 68566741 ID=MsG0480022125.01.T01;Parent=MsG0480022125.01;Name=MsG0480022125.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|209
Chr4 exon 68566741 68567370 68566741 ID=MsG0480022125.01.T01:exon:856;Parent=MsG0480022125.01.T01
Chr4 CDS 68566741 68567370 68566741 ID=MsG0480022125.01.T01:cds;Parent=MsG0480022125.01.T01
Gene Sequence

>MsG0480022125.01.T01

ATGGGGAACACTTTTGGTTCAAAAAAGACCACAAAGGTCATGAAAATAGATGGTGAAACAATGAAGCTAAAAACACCAATAAAAGCTGGAGAAGTGCTTAAGGATCATCCAGGTCTTGTTTTGTTAGATTCTGAAGCAGTTAAGCATTATGGTGTTAGGGCAAAGGCAATTGAAGCACACAAAGAGTTACAACCAAAGAGGCTTTATTTTCTTGTGGAGCTTCCAAAAGAAACCAAACCAAGAAGAATTCGTTCCGGAATTCAAATGAGTGCCAAAGATAGACTTGATAATTTGGTGCTTACTAGGAGATCTGCTTCTGATTTGTCAATTTTGAAACAAAGTAAAATGAATGATAATAGTGGTGAATTGGAAAGTAAGGAGAATGGTGGTGGGGTGAGGTTGAAAGTTAGACTTCCTAAGGCAGAGGTGGAGAAGTTGATGAGAGATTGTAAAGATGAGGCTGAGGCTGCAGAAATGATTATGCGTTTGTATAAGGCCAGTGGCAAAGGGGAAAAGGAGACTATGGTTAAGGAGAGTCCGGGGACTCCGAGAACTCCGAGAACACCACGACAGGTTTGTTTTCGATTAATTTTGCATGCTAATTTTTTTGTCTTAACCCTCAAATTCTAA

Protein sequence

>MsG0480022125.01.T01

MGNTFGSKKTTKVMKIDGETMKLKTPIKAGEVLKDHPGLVLLDSEAVKHYGVRAKAIEAHKELQPKRLYFLVELPKETKPRRIRSGIQMSAKDRLDNLVLTRRSASDLSILKQSKMNDNSGELESKENGGGVRLKVRLPKAEVEKLMRDCKDEAEAAEMIMRLYKASGKGEKETMVKESPGTPRTPRTPRQVCFRLILHANFFVLTLKF*