AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680035744.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035744.01.T01 MTR_3g030260 67.249 229 63 3 1 217 1 229 3.78e-92 270
MsG0680035744.01.T01 MTR_6g033455 61.472 231 75 4 1 217 1 231 3.12e-86 254
MsG0680035744.01.T01 MTR_2g009950 65.198 227 67 3 1 215 1 227 1.05e-85 255
MsG0680035744.01.T01 MTR_0510s0010 57.576 231 84 4 1 217 8 238 2.00e-76 230
MsG0680035744.01.T01 MTR_7g016020 63.212 193 59 3 1 181 1 193 2.60e-59 191
MsG0680035744.01.T01 MTR_2g083020 63.731 193 58 4 1 181 1 193 1.77e-56 191
MsG0680035744.01.T01 MTR_7g045350 62.044 137 40 3 92 216 23 159 8.08e-42 139
MsG0680035744.01.T01 MTR_0053s0080 52.105 190 78 3 1 177 1 190 2.28e-34 126
MsG0680035744.01.T01 MTR_8g461570 78.378 74 15 1 145 217 5 78 3.90e-33 114
MsG0680035744.01.T01 MTR_7g074720 80.822 73 13 1 146 217 2 74 5.05e-32 111
MsG0680035744.01.T01 MTR_0012s0290 63.415 123 33 3 92 202 1147 1269 1.18e-31 122
MsG0680035744.01.T01 MTR_5g454260 63.793 116 42 0 1 116 1 116 9.06e-31 113
MsG0680035744.01.T01 MTR_3g026190 47.664 107 51 2 66 167 825 931 9.07e-15 73.2
MsG0680035744.01.T03 MTR_3g030260 60.432 139 43 3 2 128 91 229 1.01e-47 153
MsG0680035744.01.T03 MTR_6g033455 64.179 134 36 3 7 128 98 231 1.45e-47 153
MsG0680035744.01.T03 MTR_0510s0010 62.319 138 40 3 3 128 101 238 4.59e-44 144
MsG0680035744.01.T03 MTR_7g045350 62.044 137 40 3 3 127 23 159 3.22e-42 137
MsG0680035744.01.T03 MTR_2g009950 58.088 136 45 3 3 126 92 227 6.96e-42 140
MsG0680035744.01.T03 MTR_8g461570 78.378 74 15 1 56 128 5 78 9.91e-34 113
MsG0680035744.01.T03 MTR_7g074720 80.822 73 13 1 57 128 2 74 1.59e-32 109
MsG0680035744.01.T03 MTR_0012s0290 63.415 123 33 3 3 113 1147 1269 3.05e-32 119
MsG0680035744.01.T03 MTR_7g016020 51.961 102 37 3 3 92 92 193 9.06e-18 77.8
MsG0680035744.01.T03 MTR_2g083020 50.980 102 38 3 3 92 92 193 2.32e-17 77.4
MsG0680035744.01.T03 MTR_3g026190 56.790 81 30 2 3 78 851 931 7.04e-15 70.1
MsG0680035744.01.T03 MTR_0053s0080 53.608 97 34 2 3 88 94 190 3.74e-14 67.8
MsG0680035744.01.T02 MTR_3g030260 64.362 188 55 3 1 176 42 229 5.23e-75 224
MsG0680035744.01.T02 MTR_2g009950 62.366 186 58 3 1 174 42 227 4.09e-69 211
MsG0680035744.01.T02 MTR_6g033455 58.947 190 64 4 1 176 42 231 2.01e-62 192
MsG0680035744.01.T02 MTR_0510s0010 57.368 190 67 4 1 176 49 238 9.31e-58 181
MsG0680035744.01.T02 MTR_7g016020 58.553 152 51 3 1 140 42 193 1.18e-42 146
MsG0680035744.01.T02 MTR_7g045350 62.044 137 40 3 51 175 23 159 1.50e-42 140
MsG0680035744.01.T02 MTR_2g083020 59.211 152 50 4 1 140 42 193 4.12e-41 147
MsG0680035744.01.T02 MTR_8g461570 78.378 74 15 1 104 176 5 78 1.30e-33 114
MsG0680035744.01.T02 MTR_7g074720 80.822 73 13 1 105 176 2 74 1.78e-32 111
MsG0680035744.01.T02 MTR_0012s0290 63.415 123 33 3 51 161 1147 1269 2.77e-32 122
MsG0680035744.01.T02 MTR_0053s0080 51.007 149 60 3 1 136 42 190 3.03e-26 102
MsG0680035744.01.T02 MTR_5g454260 66.667 75 25 0 1 75 42 116 7.75e-24 94.0
MsG0680035744.01.T02 MTR_3g026190 47.664 107 51 2 25 126 825 931 4.02e-15 72.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 51 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCGACTCTCTCAAACATATT+TGG 0.156108 6:-111488246 None:intergenic
GTGATAAATTCTTCAATCTT+TGG 0.234620 6:-111488143 None:intergenic
GGAGGAATTCCATGAACTTT+AGG 0.268489 6:-111488560 None:intergenic
ATGTGTTGTCCGTCTCATTT+TGG 0.313383 6:+111488607 MsG0680035744.01.T01:CDS
TCCTTTGAAACCCTACGCTT+TGG 0.349397 6:-111488582 None:intergenic
GCCAACAATCAATCCATTCT+TGG 0.351499 6:+111488207 MsG0680035744.01.T01:CDS
CCTTTGAAACCCTACGCTTT+GGG 0.365038 6:-111488581 None:intergenic
GGTATCTTGCATGTTTATCA+TGG 0.380452 6:-111488118 None:intergenic
AGAAGTGATAGAGGTGGTAG+AGG 0.393182 6:+111488398 MsG0680035744.01.T01:CDS
GGAAGAAACATTTGAACAAA+AGG 0.395964 6:+111488437 MsG0680035744.01.T01:CDS
TGAGCAAGGCTGAAATTTAC+CGG 0.398275 6:+111488469 MsG0680035744.01.T01:CDS
ACATTGTTGATATTGTTGAT+AGG 0.404560 6:-111488034 None:intergenic
TCCAAGAATGGATTGATTGT+TGG 0.413744 6:-111488208 None:intergenic
GTCCATGACCTCCTGAACTT+TGG 0.414042 6:-111488522 None:intergenic
TCAGCTGTACCTAAAGTTCA+TGG 0.424076 6:+111488551 MsG0680035744.01.T01:CDS
TTATGAAGATGAGAGATATT+CGG 0.429317 6:+111488059 MsG0680035744.01.T01:CDS
GTTGATTCAAGCACAAATCA+TGG 0.442225 6:+111488176 MsG0680035744.01.T01:CDS
CCTTGTTCAAACCAAAGTTC+AGG 0.445067 6:+111488511 MsG0680035744.01.T01:CDS
GAATGGATTGATTGTTGGCT+TGG 0.457063 6:-111488203 None:intergenic
GTGGCCAACACTGTTGATAA+TGG 0.457450 6:+111488375 MsG0680035744.01.T01:CDS
TAAATTCTTCAATCTTTGGC+TGG 0.462835 6:-111488139 None:intergenic
TTGTTGATAGGATTCATACT+TGG 0.469352 6:-111488022 None:intergenic
GAAGAAACATTTGAACAAAA+GGG 0.474308 6:+111488438 MsG0680035744.01.T01:CDS
GACAAAATCATGGCTGATCA+TGG 0.485385 6:+111487976 None:intergenic
AGAAGTTGTTGTTCAAAATG+AGG 0.492337 6:+111488281 MsG0680035744.01.T01:CDS
CCTGAACTTTGGTTTGAACA+AGG 0.502302 6:-111488511 None:intergenic
CGCAAATTTCATCAATGACC+CGG 0.514753 6:-111488488 None:intergenic
TGTTGATAGGATTCATACTT+GGG 0.517284 6:-111488021 None:intergenic
AAGACAAACTTCCTCAAGAA+AGG 0.522043 6:+111488340 MsG0680035744.01.T01:CDS
AACTTTAGGTACAGCTGATG+TGG 0.527312 6:-111488546 None:intergenic
TTCTCCATTATCAACAGTGT+TGG 0.531055 6:-111488379 None:intergenic
AACCAAAGTTCAGGAGGTCA+TGG 0.540463 6:+111488520 MsG0680035744.01.T01:CDS
TGGAATTCCTCCCAAAGCGT+AGG 0.545471 6:+111488571 MsG0680035744.01.T01:CDS
CCCAAAGCGTAGGGTTTCAA+AGG 0.548667 6:+111488581 MsG0680035744.01.T01:CDS
TCAATATTTGACCTTTCTTG+AGG 0.555926 6:-111488351 None:intergenic
CCAAATATGTTTGAGAGAGT+CGG 0.559778 6:+111488246 MsG0680035744.01.T01:CDS
GGAATTCCTCCCAAAGCGTA+GGG 0.566799 6:+111488572 MsG0680035744.01.T01:CDS
TGAGGAAGTTTGTCTTTGTG+TGG 0.576515 6:-111488333 None:intergenic
TGATAATGGAGAAGTGATAG+AGG 0.583165 6:+111488389 MsG0680035744.01.T01:CDS
AGAAAGGTCAAATATTGAAG+TGG 0.590226 6:+111488356 MsG0680035744.01.T01:CDS
AGAGGAACGGTTACTTAGCA+AGG 0.590261 6:+111488416 MsG0680035744.01.T01:CDS
AAGAAACATTTGAACAAAAG+GGG 0.596132 6:+111488439 MsG0680035744.01.T01:CDS
TGATAGGATTCATACTTGGG+TGG 0.604185 6:-111488018 None:intergenic
TTGAAACCCTACGCTTTGGG+AGG 0.607057 6:-111488578 None:intergenic
TGATAGAGGTGGTAGAGGAA+CGG 0.612805 6:+111488403 MsG0680035744.01.T01:CDS
GTTACAACATTAGAAGAATG+TGG 0.625446 6:+111488306 MsG0680035744.01.T01:CDS
TAATGGAGAAGTGATAGAGG+TGG 0.631937 6:+111488392 MsG0680035744.01.T01:CDS
AAAGGGGAAGAAAGTGAGCA+AGG 0.636089 6:+111488455 MsG0680035744.01.T01:CDS
TGTTCAAACCAAAGTTCAGG+AGG 0.642083 6:+111488514 MsG0680035744.01.T01:CDS
GAGCAAGGCTGAAATTTACC+GGG 0.643159 6:+111488470 MsG0680035744.01.T01:CDS
TTAGGGTGGCCAAAATGAGA+CGG 0.662957 6:-111488616 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGAAACATTTGAACAAAAG+GGG + Chr6:111488439-111488458 MsG0680035744.01.T01:CDS 25.0%
! ACATTGTTGATATTGTTGAT+AGG - Chr6:111488037-111488056 None:intergenic 25.0%
! GAAGAAACATTTGAACAAAA+GGG + Chr6:111488438-111488457 MsG0680035744.01.T01:CDS 25.0%
! GTGATAAATTCTTCAATCTT+TGG - Chr6:111488146-111488165 None:intergenic 25.0%
! TTATGAAGATGAGAGATATT+CGG + Chr6:111488059-111488078 MsG0680035744.01.T01:CDS 25.0%
AGAAAGGTCAAATATTGAAG+TGG + Chr6:111488356-111488375 MsG0680035744.01.T01:CDS 30.0%
GGAAGAAACATTTGAACAAA+AGG + Chr6:111488437-111488456 MsG0680035744.01.T01:CDS 30.0%
GTTACAACATTAGAAGAATG+TGG + Chr6:111488306-111488325 MsG0680035744.01.T01:CDS 30.0%
TAAATTCTTCAATCTTTGGC+TGG - Chr6:111488142-111488161 None:intergenic 30.0%
TCAATATTTGACCTTTCTTG+AGG - Chr6:111488354-111488373 None:intergenic 30.0%
! AGAAGTTGTTGTTCAAAATG+AGG + Chr6:111488281-111488300 MsG0680035744.01.T01:CDS 30.0%
! ATTTTCTTGTTCTCCAAGAA+TGG - Chr6:111488223-111488242 None:intergenic 30.0%
! TGTTGATAGGATTCATACTT+GGG - Chr6:111488024-111488043 None:intergenic 30.0%
! TTGTTGATAGGATTCATACT+TGG - Chr6:111488025-111488044 None:intergenic 30.0%
AAGACAAACTTCCTCAAGAA+AGG + Chr6:111488340-111488359 MsG0680035744.01.T01:CDS 35.0%
CCAAATATGTTTGAGAGAGT+CGG + Chr6:111488246-111488265 MsG0680035744.01.T01:CDS 35.0%
GGTATCTTGCATGTTTATCA+TGG - Chr6:111488121-111488140 None:intergenic 35.0%
TTCTCCATTATCAACAGTGT+TGG - Chr6:111488382-111488401 None:intergenic 35.0%
! GTTGATTCAAGCACAAATCA+TGG + Chr6:111488176-111488195 MsG0680035744.01.T01:CDS 35.0%
!! TCCAAGAATGGATTGATTGT+TGG - Chr6:111488211-111488230 None:intergenic 35.0%
!! TGATAATGGAGAAGTGATAG+AGG + Chr6:111488389-111488408 MsG0680035744.01.T01:CDS 35.0%
AACTTTAGGTACAGCTGATG+TGG - Chr6:111488549-111488568 None:intergenic 40.0%
CCGACTCTCTCAAACATATT+TGG - Chr6:111488249-111488268 None:intergenic 40.0%
CCTTGTTCAAACCAAAGTTC+AGG + Chr6:111488511-111488530 MsG0680035744.01.T01:CDS 40.0%
CGCAAATTTCATCAATGACC+CGG - Chr6:111488491-111488510 None:intergenic 40.0%
GCCAACAATCAATCCATTCT+TGG + Chr6:111488207-111488226 MsG0680035744.01.T01:CDS 40.0%
GGAGGAATTCCATGAACTTT+AGG - Chr6:111488563-111488582 None:intergenic 40.0%
TAATGGAGAAGTGATAGAGG+TGG + Chr6:111488392-111488411 MsG0680035744.01.T01:CDS 40.0%
TCAGCTGTACCTAAAGTTCA+TGG + Chr6:111488551-111488570 MsG0680035744.01.T01:CDS 40.0%
TGAGCAAGGCTGAAATTTAC+CGG + Chr6:111488469-111488488 MsG0680035744.01.T01:CDS 40.0%
TGAGGAAGTTTGTCTTTGTG+TGG - Chr6:111488336-111488355 None:intergenic 40.0%
TGATAGGATTCATACTTGGG+TGG - Chr6:111488021-111488040 None:intergenic 40.0%
TGTTCAAACCAAAGTTCAGG+AGG + Chr6:111488514-111488533 MsG0680035744.01.T01:CDS 40.0%
! ATGTGTTGTCCGTCTCATTT+TGG + Chr6:111488607-111488626 MsG0680035744.01.T01:CDS 40.0%
!! CCTGAACTTTGGTTTGAACA+AGG - Chr6:111488514-111488533 None:intergenic 40.0%
!! GAATGGATTGATTGTTGGCT+TGG - Chr6:111488206-111488225 None:intergenic 40.0%
AAAGGGGAAGAAAGTGAGCA+AGG + Chr6:111488455-111488474 MsG0680035744.01.T01:CDS 45.0%
AACCAAAGTTCAGGAGGTCA+TGG + Chr6:111488520-111488539 MsG0680035744.01.T01:CDS 45.0%
AGAAGTGATAGAGGTGGTAG+AGG + Chr6:111488398-111488417 MsG0680035744.01.T01:CDS 45.0%
AGAGGAACGGTTACTTAGCA+AGG + Chr6:111488416-111488435 MsG0680035744.01.T01:CDS 45.0%
GAGCAAGGCTGAAATTTACC+GGG + Chr6:111488470-111488489 MsG0680035744.01.T01:CDS 45.0%
TGATAGAGGTGGTAGAGGAA+CGG + Chr6:111488403-111488422 MsG0680035744.01.T01:CDS 45.0%
TTAGGGTGGCCAAAATGAGA+CGG - Chr6:111488619-111488638 None:intergenic 45.0%
! GTGGCCAACACTGTTGATAA+TGG + Chr6:111488375-111488394 MsG0680035744.01.T01:CDS 45.0%
!! CCTTTGAAACCCTACGCTTT+GGG - Chr6:111488584-111488603 None:intergenic 45.0%
!! TCCTTTGAAACCCTACGCTT+TGG - Chr6:111488585-111488604 None:intergenic 45.0%
CCCAAAGCGTAGGGTTTCAA+AGG + Chr6:111488581-111488600 MsG0680035744.01.T01:CDS 50.0%
GGAATTCCTCCCAAAGCGTA+GGG + Chr6:111488572-111488591 MsG0680035744.01.T01:CDS 50.0%
GTCCATGACCTCCTGAACTT+TGG - Chr6:111488525-111488544 None:intergenic 50.0%
TGGAATTCCTCCCAAAGCGT+AGG + Chr6:111488571-111488590 MsG0680035744.01.T01:CDS 50.0%
! TTGAAACCCTACGCTTTGGG+AGG - Chr6:111488581-111488600 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr6 gene 111487985 111488638 111487985 ID=MsG0680035744.01;Name=MsG0680035744.01
Chr6 mRNA 111487985 111488638 111487985 ID=MsG0680035744.01.T01;Parent=MsG0680035744.01;Name=MsG0680035744.01.T01;_AED=0.00;_eAED=0.00;_QI=0|-1|0|1|-1|1|1|0|217
Chr6 exon 111487985 111488638 111487985 ID=MsG0680035744.01.T01:exon:9205;Parent=MsG0680035744.01.T01
Chr6 CDS 111487985 111488638 111487985 ID=MsG0680035744.01.T01:cds;Parent=MsG0680035744.01.T01
Chr6 mRNA 111488108 111488638 111488108 ID=MsG0680035744.01.T02;Parent=MsG0680035744.01;Name=MsG0680035744.01.T02;_AED=0.10;_eAED=0.10;_QI=0|-1|0|1|-1|0|1|0|176
Chr6 exon 111488108 111488638 111488108 ID=MsG0680035744.01.T02:exon:9206;Parent=MsG0680035744.01.T02
Chr6 CDS 111488108 111488638 111488108 ID=MsG0680035744.01.T02:cds;Parent=MsG0680035744.01.T02
Chr6 mRNA 111488252 111488638 111488252 ID=MsG0680035744.01.T03;Parent=MsG0680035744.01;Name=MsG0680035744.01.T03;_AED=0.21;_eAED=0.21;_QI=0|-1|0|1|-1|0|1|0|128
Chr6 exon 111488252 111488638 111488252 ID=MsG0680035744.01.T03:exon:9207;Parent=MsG0680035744.01.T03
Chr6 CDS 111488252 111488638 111488252 ID=MsG0680035744.01.T03:cds;Parent=MsG0680035744.01.T03
Gene Sequence

>MsG0680035744.01.T01

ATGGCTGATCATGGTTATAACAACTTCTATACTCCACCCAAGTATGAATCCTATCAACAATATCAACAATGTTCTTATGAAGATGAGAGATATTCGGTGATAGAAAATACTTTGAACATCTTCATGCAACAATCCATGATAAACATGCAAGATACCAGCCAAAGATTGAAGAATTTATCACTTCAACTTGAGTTGATTCAAGCACAAATCATGGATAACCAAGCCAACAATCAATCCATTCTTGGAGAACAAGAAAATAATCCAAATATGTTTGAGAGAGTCGGAGAGATTGTTGAAGAAGTTGTTGTTCAAAATGAGGAAGTTACAACATTAGAAGAATGTGGTGCACCACACAAAGACAAACTTCCTCAAGAAAGGTCAAATATTGAAGTGGCCAACACTGTTGATAATGGAGAAGTGATAGAGGTGGTAGAGGAACGGTTACTTAGCAAGGAAGAAACATTTGAACAAAAGGGGAAGAAAGTGAGCAAGGCTGAAATTTACCGGGTCATTGATGAAATTTGCGCCTTGTTCAAACCAAAGTTCAGGAGGTCATGGACTCCACATCAGCTGTACCTAAAGTTCATGGAATTCCTCCCAAAGCGTAGGGTTTCAAAGGATGATGTGTTGTCCGTCTCATTTTGGCCACCCTAA

>MsG0680035744.01.T03

ATGTTTGAGAGAGTCGGAGAGATTGTTGAAGAAGTTGTTGTTCAAAATGAGGAAGTTACAACATTAGAAGAATGTGGTGCACCACACAAAGACAAACTTCCTCAAGAAAGGTCAAATATTGAAGTGGCCAACACTGTTGATAATGGAGAAGTGATAGAGGTGGTAGAGGAACGGTTACTTAGCAAGGAAGAAACATTTGAACAAAAGGGGAAGAAAGTGAGCAAGGCTGAAATTTACCGGGTCATTGATGAAATTTGCGCCTTGTTCAAACCAAAGTTCAGGAGGTCATGGACTCCACATCAGCTGTACCTAAAGTTCATGGAATTCCTCCCAAAGCGTAGGGTTTCAAAGGATGATGTGTTGTCCGTCTCATTTTGGCCACCCTAA

>MsG0680035744.01.T02

ATGCAACAATCCATGATAAACATGCAAGATACCAGCCAAAGATTGAAGAATTTATCACTTCAACTTGAGTTGATTCAAGCACAAATCATGGATAACCAAGCCAACAATCAATCCATTCTTGGAGAACAAGAAAATAATCCAAATATGTTTGAGAGAGTCGGAGAGATTGTTGAAGAAGTTGTTGTTCAAAATGAGGAAGTTACAACATTAGAAGAATGTGGTGCACCACACAAAGACAAACTTCCTCAAGAAAGGTCAAATATTGAAGTGGCCAACACTGTTGATAATGGAGAAGTGATAGAGGTGGTAGAGGAACGGTTACTTAGCAAGGAAGAAACATTTGAACAAAAGGGGAAGAAAGTGAGCAAGGCTGAAATTTACCGGGTCATTGATGAAATTTGCGCCTTGTTCAAACCAAAGTTCAGGAGGTCATGGACTCCACATCAGCTGTACCTAAAGTTCATGGAATTCCTCCCAAAGCGTAGGGTTTCAAAGGATGATGTGTTGTCCGTCTCATTTTGGCCACCCTAA

Protein sequence

>MsG0680035744.01.T01

MADHGYNNFYTPPKYESYQQYQQCSYEDERYSVIENTLNIFMQQSMINMQDTSQRLKNLSLQLELIQAQIMDNQANNQSILGEQENNPNMFERVGEIVEEVVVQNEEVTTLEECGAPHKDKLPQERSNIEVANTVDNGEVIEVVEERLLSKEETFEQKGKKVSKAEIYRVIDEICALFKPKFRRSWTPHQLYLKFMEFLPKRRVSKDDVLSVSFWPP*

>MsG0680035744.01.T03

MFERVGEIVEEVVVQNEEVTTLEECGAPHKDKLPQERSNIEVANTVDNGEVIEVVEERLLSKEETFEQKGKKVSKAEIYRVIDEICALFKPKFRRSWTPHQLYLKFMEFLPKRRVSKDDVLSVSFWPP*

>MsG0680035744.01.T02

MQQSMINMQDTSQRLKNLSLQLELIQAQIMDNQANNQSILGEQENNPNMFERVGEIVEEVVVQNEEVTTLEECGAPHKDKLPQERSNIEVANTVDNGEVIEVVEERLLSKEETFEQKGKKVSKAEIYRVIDEICALFKPKFRRSWTPHQLYLKFMEFLPKRRVSKDDVLSVSFWPP*