AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031451.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031451.01.T01 MTR_6g023340 94.702 302 15 1 1 301 1 302 0.0 563
MsG0680031451.01.T01 MTR_1g099310 54.762 294 125 6 10 301 9 296 1.34e-107 315
MsG0680031451.01.T01 MTR_7g116850 55.556 297 122 7 10 301 35 326 6.89e-104 306
MsG0680031451.01.T01 MTR_5g043550 52.740 292 129 5 12 301 10 294 8.10e-103 303
MsG0680031451.01.T01 MTR_8g055940 50.165 303 139 6 1 301 5 297 3.01e-98 291
MsG0680031451.01.T01 MTR_1g099290 53.199 297 129 6 4 298 7 295 2.75e-97 298
MsG0680031451.01.T01 MTR_7g116350 51.515 297 128 5 5 301 4 284 3.40e-97 303
MsG0680031451.01.T01 MTR_0027s0260 50.000 292 138 5 12 301 13 298 1.55e-96 287
MsG0680031451.01.T01 MTR_1g099350 51.418 282 127 5 22 301 18 291 2.38e-94 281
MsG0680031451.01.T01 MTR_8g467650 49.324 296 140 6 10 301 9 298 1.90e-92 276
MsG0680031451.01.T01 MTR_1g099320 51.418 282 129 7 23 301 21 297 1.90e-92 276
MsG0680031451.01.T01 MTR_2g040830 49.296 284 135 7 22 301 22 300 3.81e-89 269
MsG0680031451.01.T01 MTR_2g040690 47.887 284 139 7 22 301 24 302 6.21e-87 263
MsG0680031451.01.T01 MTR_2g102020 45.455 308 153 8 5 301 10 313 5.36e-84 256
MsG0680031451.01.T01 MTR_2g040740 48.070 285 138 8 21 301 21 299 5.17e-83 253
MsG0680031451.01.T01 MTR_2g040650 43.662 284 149 7 21 301 21 296 1.83e-72 226
MsG0680031451.01.T01 MTR_2g040870 48.980 147 71 3 23 168 20 163 2.82e-37 130
MsG0680031451.01.T01 MTR_2g040890 40.107 187 102 7 1 181 2 184 2.84e-36 129
MsG0680031451.01.T01 MTR_2g040880 50.000 116 54 3 189 301 3 117 9.13e-32 115
MsG0680031451.01.T01 MTR_2g040850 41.060 151 82 2 1 145 1 150 3.33e-31 117
MsG0680031451.01.T01 MTR_4g077310 45.055 91 47 3 208 298 3 90 1.55e-18 79.3
MsG0680031451.01.T01 MTR_2g040900 36.508 126 75 4 180 301 17 141 1.14e-17 79.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031451.01.T01 AT5G24090 49.333 300 145 6 4 301 8 302 2.78e-94 281

Find 58 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATGCTATCTCTCAAAATT+TGG 0.160551 6:-20645232 None:intergenic
CAATTCTATGTCAACTAAAA+AGG 0.209957 6:+20645688 MsG0680031451.01.T01:CDS
CAGGAGATCTCGTAATTTAT+TGG 0.261238 6:+20645066 MsG0680031451.01.T01:CDS
ATCTCTCAAAATTTGGCAAT+TGG 0.274795 6:-20645225 None:intergenic
CAACTAGCTTTAAGAATTCA+TGG 0.286597 6:+20645654 MsG0680031451.01.T01:CDS
TTGTCAGAGTAGAGGCATTA+AGG 0.300844 6:+20645259 MsG0680031451.01.T01:CDS
GATCTCCTGCATTTGTTGAT+TGG 0.302680 6:-20645052 None:intergenic
AATTCACCATCTAGACCTTT+TGG 0.316226 6:+20645386 MsG0680031451.01.T01:CDS
ATCAACTTGCTGACTACATT+TGG 0.318182 6:+20645345 MsG0680031451.01.T01:CDS
AGGAGATCTCGTAATTTATT+GGG 0.320382 6:+20645067 MsG0680031451.01.T01:CDS
TTTCCATTGGTGGTGAATAT+AGG 0.346539 6:+20645288 MsG0680031451.01.T01:CDS
ATAGCATTCCTCTCGACATT+TGG 0.352873 6:+20645155 MsG0680031451.01.T01:CDS
CATGAATTCTTAAAGCTAGT+TGG 0.353578 6:-20645653 None:intergenic
CTTCAAAAGGCAATTAATAC+TGG 0.354046 6:+20645563 MsG0680031451.01.T01:CDS
GTTAAGCCTTCACCTAAGTA+TGG 0.359968 6:+20645800 MsG0680031451.01.T01:CDS
TTTGGTGATGCTATACTAGA+TGG 0.378616 6:+20645404 MsG0680031451.01.T01:CDS
TCAAGATAATATACTTCAAA+AGG 0.403270 6:+20645550 MsG0680031451.01.T01:CDS
AGGCGCTTTGATGTGCAATC+TGG 0.431069 6:+20645842 MsG0680031451.01.T01:CDS
TCTCTCAAAATTTGGCAATT+GGG 0.431386 6:-20645224 None:intergenic
GCATCACCAAAAGGTCTAGA+TGG 0.447604 6:-20645392 None:intergenic
TTAGGTGAAGGCTTAACAAT+AGG 0.450586 6:-20645794 None:intergenic
AAGGTTATGCTTTCCATTGG+TGG 0.459465 6:+20645278 MsG0680031451.01.T01:CDS
CTCAAAATTTGGCAATTGGG+TGG 0.462072 6:-20645221 None:intergenic
ATTGAAAGGAGAAGAAGTAA+AGG 0.473274 6:-20645011 None:intergenic
TTGAAAGGAGAAGAAGTAAA+GGG 0.486379 6:-20645010 None:intergenic
TCAAAATTTGGCAATTGGGT+GGG 0.495887 6:-20645220 None:intergenic
ATTAAGGTTATGCTTTCCAT+TGG 0.497247 6:+20645275 MsG0680031451.01.T01:CDS
GTGGGTTACAATGACCTGCT+AGG 0.510490 6:-20645202 None:intergenic
GCAAGTTGATTAGCATCCTC+TGG 0.511315 6:-20645332 None:intergenic
AAGCTCCATCACCATTGTCT+TGG 0.520789 6:-20645091 None:intergenic
TTAAAGCAAGTGTTTCATAG+TGG 0.522210 6:-20645460 None:intergenic
GTGGTGTGATGCTATGGAAC+AGG 0.527073 6:+20645822 MsG0680031451.01.T01:CDS
AGTATGGTGGTGTGATGCTA+TGG 0.534317 6:+20645816 MsG0680031451.01.T01:CDS
GGAGCTGCATTAGATGTAGC+AGG 0.550066 6:-20645725 None:intergenic
ACAAGGTGAGTGAAATTGAA+AGG 0.556746 6:-20645025 None:intergenic
TTGAGAGACACATGCAACAC+TGG 0.557422 6:+20645113 MsG0680031451.01.T01:CDS
TTGACATAGAATTGATCCAC+TGG 0.558667 6:-20645679 None:intergenic
AAGCAAGTGTTTCATAGTGG+AGG 0.561982 6:-20645457 None:intergenic
TTCCTCTCGACATTTGGAAG+TGG 0.563728 6:+20645161 MsG0680031451.01.T01:CDS
TCTAGTATAGCATCACCAAA+AGG 0.573657 6:-20645401 None:intergenic
CAACCACAGTTAAACCTAGC+AGG 0.574651 6:+20645188 MsG0680031451.01.T01:CDS
TGGGGCCAAGACAATGGTGA+TGG 0.582724 6:+20645086 MsG0680031451.01.T01:CDS
ATAAATATTTGTCAGAGTAG+AGG 0.583574 6:+20645251 MsG0680031451.01.T01:CDS
AGCATCACACCACCATACTT+AGG 0.588331 6:-20645812 None:intergenic
ATTTATTGGGGCCAAGACAA+TGG 0.590739 6:+20645080 MsG0680031451.01.T01:CDS
GAAACAAAGTTACAAGCACC+AGG 0.591014 6:-20645623 None:intergenic
GTTCCTATATTCACCACCAA+TGG 0.600926 6:-20645291 None:intergenic
GCTTCCACAAAACCACCACT+TGG 0.607122 6:-20645746 None:intergenic
TTAAGAATTCATGGAGCCAG+TGG 0.613696 6:+20645663 MsG0680031451.01.T01:CDS
GGAGATCTCGTAATTTATTG+GGG 0.614535 6:+20645068 MsG0680031451.01.T01:CDS
TCTAATGCAGCTCCAAGTGG+TGG 0.633619 6:+20645734 MsG0680031451.01.T01:CDS
ACACCACCATACTTAGGTGA+AGG 0.640622 6:-20645806 None:intergenic
TGATGCTATACTAGATGGAG+TGG 0.641976 6:+20645409 MsG0680031451.01.T01:CDS
AAGCCTTCACCTAAGTATGG+TGG 0.668101 6:+20645803 MsG0680031451.01.T01:CDS
ACATCTAATGCAGCTCCAAG+TGG 0.681050 6:+20645731 MsG0680031451.01.T01:CDS
GACCACTTCCAAATGTCGAG+AGG 0.688510 6:-20645163 None:intergenic
TTATCTTGAAAGATACACAA+TGG 0.689340 6:-20645536 None:intergenic
TGACCTGCTAGGTTTAACTG+TGG 0.784209 6:-20645191 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TCAAGATAATATACTTCAAA+AGG + Chr6:20645550-20645569 MsG0680031451.01.T01:CDS 20.0%
! ATAAATATTTGTCAGAGTAG+AGG + Chr6:20645251-20645270 MsG0680031451.01.T01:CDS 25.0%
! CAATTCTATGTCAACTAAAA+AGG + Chr6:20645688-20645707 MsG0680031451.01.T01:CDS 25.0%
! TTATCTTGAAAGATACACAA+TGG - Chr6:20645539-20645558 None:intergenic 25.0%
! TTATGCTATCTCTCAAAATT+TGG - Chr6:20645235-20645254 None:intergenic 25.0%
!! ATTTGTTGATTGGAAAAACA+AGG - Chr6:20645045-20645064 None:intergenic 25.0%
!! TCAACTAAAAAGGTTTTTGT+TGG + Chr6:20645698-20645717 MsG0680031451.01.T01:CDS 25.0%
!!! TACATTTGGAACAACTTTTT+GGG + Chr6:20645359-20645378 MsG0680031451.01.T01:CDS 25.0%
!!! TCAAACACTTCTTTTGATTT+GGG - Chr6:20645876-20645895 None:intergenic 25.0%
AGGAGATCTCGTAATTTATT+GGG + Chr6:20645067-20645086 MsG0680031451.01.T01:CDS 30.0%
ATCTCTCAAAATTTGGCAAT+TGG - Chr6:20645228-20645247 None:intergenic 30.0%
ATTAAGGTTATGCTTTCCAT+TGG + Chr6:20645275-20645294 MsG0680031451.01.T01:CDS 30.0%
ATTGAAAGGAGAAGAAGTAA+AGG - Chr6:20645014-20645033 None:intergenic 30.0%
CATGAATTCTTAAAGCTAGT+TGG - Chr6:20645656-20645675 None:intergenic 30.0%
CTTCAAAAGGCAATTAATAC+TGG + Chr6:20645563-20645582 MsG0680031451.01.T01:CDS 30.0%
TCTCTCAAAATTTGGCAATT+GGG - Chr6:20645227-20645246 None:intergenic 30.0%
TTAAAGCAAGTGTTTCATAG+TGG - Chr6:20645463-20645482 None:intergenic 30.0%
TTGAAAGGAGAAGAAGTAAA+GGG - Chr6:20645013-20645032 None:intergenic 30.0%
! GTTCAATTTTACAATAGTCC+TGG + Chr6:20645605-20645624 MsG0680031451.01.T01:CDS 30.0%
! TTTTTCCAATCAACAAATGC+AGG + Chr6:20645047-20645066 MsG0680031451.01.T01:CDS 30.0%
!! CAACTAGCTTTAAGAATTCA+TGG + Chr6:20645654-20645673 MsG0680031451.01.T01:CDS 30.0%
!! CTACATTTGGAACAACTTTT+TGG + Chr6:20645358-20645377 MsG0680031451.01.T01:CDS 30.0%
!! TGGACTTTTTGACTATGTTT+GGG + Chr6:20645583-20645602 MsG0680031451.01.T01:CDS 30.0%
ACAAGGTGAGTGAAATTGAA+AGG - Chr6:20645028-20645047 None:intergenic 35.0%
CAGGAGATCTCGTAATTTAT+TGG + Chr6:20645066-20645085 MsG0680031451.01.T01:CDS 35.0%
GGAGATCTCGTAATTTATTG+GGG + Chr6:20645068-20645087 MsG0680031451.01.T01:CDS 35.0%
TCAAAATTTGGCAATTGGGT+GGG - Chr6:20645223-20645242 None:intergenic 35.0%
TCTAGTATAGCATCACCAAA+AGG - Chr6:20645404-20645423 None:intergenic 35.0%
TTAGGTGAAGGCTTAACAAT+AGG - Chr6:20645797-20645816 None:intergenic 35.0%
TTGACATAGAATTGATCCAC+TGG - Chr6:20645682-20645701 None:intergenic 35.0%
! AATTCACCATCTAGACCTTT+TGG + Chr6:20645386-20645405 MsG0680031451.01.T01:CDS 35.0%
!! ATACTCTTTTTCATCACCAG+AGG + Chr6:20645316-20645335 MsG0680031451.01.T01:CDS 35.0%
!! ATCAACTTGCTGACTACATT+TGG + Chr6:20645345-20645364 MsG0680031451.01.T01:CDS 35.0%
!! ATTTGGAACAACTTTTTGGG+AGG + Chr6:20645362-20645381 MsG0680031451.01.T01:CDS 35.0%
!! CTGGACTTTTTGACTATGTT+TGG + Chr6:20645582-20645601 MsG0680031451.01.T01:CDS 35.0%
!! GGAGTGGATTTTGATATTGA+AGG + Chr6:20645425-20645444 MsG0680031451.01.T01:CDS 35.0%
!! GTGGATTTTGATATTGAAGG+AGG + Chr6:20645428-20645447 MsG0680031451.01.T01:CDS 35.0%
!! TTTCCATTGGTGGTGAATAT+AGG + Chr6:20645288-20645307 MsG0680031451.01.T01:CDS 35.0%
!! TTTGGTGATGCTATACTAGA+TGG + Chr6:20645404-20645423 MsG0680031451.01.T01:CDS 35.0%
AAGCAAGTGTTTCATAGTGG+AGG - Chr6:20645460-20645479 None:intergenic 40.0%
AAGGTTATGCTTTCCATTGG+TGG + Chr6:20645278-20645297 MsG0680031451.01.T01:CDS 40.0%
ATAGCATTCCTCTCGACATT+TGG + Chr6:20645155-20645174 MsG0680031451.01.T01:CDS 40.0%
ATTTATTGGGGCCAAGACAA+TGG + Chr6:20645080-20645099 MsG0680031451.01.T01:CDS 40.0%
CTCAAAATTTGGCAATTGGG+TGG - Chr6:20645224-20645243 None:intergenic 40.0%
GAAACAAAGTTACAAGCACC+AGG - Chr6:20645626-20645645 None:intergenic 40.0%
GTTAAGCCTTCACCTAAGTA+TGG + Chr6:20645800-20645819 MsG0680031451.01.T01:CDS 40.0%
GTTCCTATATTCACCACCAA+TGG - Chr6:20645294-20645313 None:intergenic 40.0%
TGATGCTATACTAGATGGAG+TGG + Chr6:20645409-20645428 MsG0680031451.01.T01:CDS 40.0%
TTAAGAATTCATGGAGCCAG+TGG + Chr6:20645663-20645682 MsG0680031451.01.T01:CDS 40.0%
! GATCTCCTGCATTTGTTGAT+TGG - Chr6:20645055-20645074 None:intergenic 40.0%
!! TTGTCAGAGTAGAGGCATTA+AGG + Chr6:20645259-20645278 MsG0680031451.01.T01:CDS 40.0%
AAGCCTTCACCTAAGTATGG+TGG + Chr6:20645803-20645822 MsG0680031451.01.T01:CDS 45.0%
AAGCTCCATCACCATTGTCT+TGG - Chr6:20645094-20645113 None:intergenic 45.0%
ACACCACCATACTTAGGTGA+AGG - Chr6:20645809-20645828 None:intergenic 45.0%
ACATCTAATGCAGCTCCAAG+TGG + Chr6:20645731-20645750 MsG0680031451.01.T01:CDS 45.0%
AGCATCACACCACCATACTT+AGG - Chr6:20645815-20645834 None:intergenic 45.0%
CAACCACAGTTAAACCTAGC+AGG + Chr6:20645188-20645207 MsG0680031451.01.T01:CDS 45.0%
GCATCACCAAAAGGTCTAGA+TGG - Chr6:20645395-20645414 None:intergenic 45.0%
TGACCTGCTAGGTTTAACTG+TGG - Chr6:20645194-20645213 None:intergenic 45.0%
TTCCTCTCGACATTTGGAAG+TGG + Chr6:20645161-20645180 MsG0680031451.01.T01:CDS 45.0%
TTGAGAGACACATGCAACAC+TGG + Chr6:20645113-20645132 MsG0680031451.01.T01:CDS 45.0%
! AGTATGGTGGTGTGATGCTA+TGG + Chr6:20645816-20645835 MsG0680031451.01.T01:CDS 45.0%
!! GCAAGTTGATTAGCATCCTC+TGG - Chr6:20645335-20645354 None:intergenic 45.0%
AGGCGCTTTGATGTGCAATC+TGG + Chr6:20645842-20645861 MsG0680031451.01.T01:CDS 50.0%
GACCACTTCCAAATGTCGAG+AGG - Chr6:20645166-20645185 None:intergenic 50.0%
GCTTCCACAAAACCACCACT+TGG - Chr6:20645749-20645768 None:intergenic 50.0%
GGAGCTGCATTAGATGTAGC+AGG - Chr6:20645728-20645747 None:intergenic 50.0%
GTGGTGTGATGCTATGGAAC+AGG + Chr6:20645822-20645841 MsG0680031451.01.T01:CDS 50.0%
TCTAATGCAGCTCCAAGTGG+TGG + Chr6:20645734-20645753 MsG0680031451.01.T01:CDS 50.0%
! GTGGGTTACAATGACCTGCT+AGG - Chr6:20645205-20645224 None:intergenic 50.0%
!! AGCTCCAAGTGGTGGTTTTG+TGG + Chr6:20645742-20645761 MsG0680031451.01.T01:CDS 50.0%
TGGGGCCAAGACAATGGTGA+TGG + Chr6:20645086-20645105 MsG0680031451.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 20644990 20645895 20644990 ID=MsG0680031451.01;Name=MsG0680031451.01
Chr6 mRNA 20644990 20645895 20644990 ID=MsG0680031451.01.T01;Parent=MsG0680031451.01;Name=MsG0680031451.01.T01;_AED=0.10;_eAED=0.10;_QI=0|-1|0|1|-1|1|1|0|301
Chr6 exon 20644990 20645895 20644990 ID=MsG0680031451.01.T01:exon:11444;Parent=MsG0680031451.01.T01
Chr6 CDS 20644990 20645895 20644990 ID=MsG0680031451.01.T01:cds;Parent=MsG0680031451.01.T01
Gene Sequence

>MsG0680031451.01.T01

ATGAGCAACAAATATTCTTACCCTTTACTTCTTCTCCTTTCAATTTCACTCACCTTGTTTTTCCAATCAACAAATGCAGGAGATCTCGTAATTTATTGGGGCCAAGACAATGGTGATGGAGCTTTGAGAGACACATGCAACACTGGTCTCTTCAATATAGTAAACATAGCATTCCTCTCGACATTTGGAAGTGGTCGTCAACCACAGTTAAACCTAGCAGGTCATTGTAACCCACCCAATTGCCAAATTTTGAGAGATAGCATAAATATTTGTCAGAGTAGAGGCATTAAGGTTATGCTTTCCATTGGTGGTGAATATAGGAACACATACTCTTTTTCATCACCAGAGGATGCTAATCAACTTGCTGACTACATTTGGAACAACTTTTTGGGAGGTAATTCACCATCTAGACCTTTTGGTGATGCTATACTAGATGGAGTGGATTTTGATATTGAAGGAGGTAGTAACCTCCACTATGAAACACTTGCTTTAAAGCTAAACGATCATTATAAATCAAAGTCTAGAAAGTTTTACTTAACTGCTGCTCCATTGTGTATCTTTCAAGATAATATACTTCAAAAGGCAATTAATACTGGACTTTTTGACTATGTTTGGGTTCAATTTTACAATAGTCCTGGTGCTTGTAACTTTGTTTCAAACAATCCAACTAGCTTTAAGAATTCATGGAGCCAGTGGATCAATTCTATGTCAACTAAAAAGGTTTTTGTTGGACTTCCTGCTACATCTAATGCAGCTCCAAGTGGTGGTTTTGTGGAAGCACATGATCTCATAAATCAATTGCTGCCTATTGTTAAGCCTTCACCTAAGTATGGTGGTGTGATGCTATGGAACAGGCGCTTTGATGTGCAATCTGGATATAGTTCCCAAATCAAAAGAAGTGTTTGA

Protein sequence

>MsG0680031451.01.T01

MSNKYSYPLLLLLSISLTLFFQSTNAGDLVIYWGQDNGDGALRDTCNTGLFNIVNIAFLSTFGSGRQPQLNLAGHCNPPNCQILRDSINICQSRGIKVMLSIGGEYRNTYSFSSPEDANQLADYIWNNFLGGNSPSRPFGDAILDGVDFDIEGGSNLHYETLALKLNDHYKSKSRKFYLTAAPLCIFQDNILQKAINTGLFDYVWVQFYNSPGACNFVSNNPTSFKNSWSQWINSMSTKKVFVGLPATSNAAPSGGFVEAHDLINQLLPIVKPSPKYGGVMLWNRRFDVQSGYSSQIKRSV*