AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030565.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030565.01.T01 MTR_6g015850 81.846 325 32 2 1 300 138 460 0.0 530
MsG0680030565.01.T01 MTR_6g015830 80.615 325 38 1 1 300 139 463 0.0 529
MsG0680030565.01.T01 MTR_6g015815 72.086 326 65 2 1 300 138 463 2.51e-166 470
MsG0680030565.01.T01 MTR_6g015315 51.515 330 125 7 1 300 131 455 1.12e-107 320
MsG0680030565.01.T01 MTR_6g015320 48.640 331 132 7 1 300 134 457 1.22e-96 292
MsG0680030565.01.T01 MTR_6g015310 48.201 278 118 7 1 275 79 333 3.69e-80 246
MsG0680030565.01.T01 MTR_7g014230 41.617 334 150 9 4 300 136 461 2.22e-77 243
MsG0680030565.01.T01 MTR_7g014250 40.597 335 150 10 4 299 134 458 1.01e-74 236
MsG0680030565.01.T01 MTR_7g014330 40.000 335 152 10 4 299 134 458 1.27e-74 236
MsG0680030565.01.T01 MTR_7g014360 41.456 316 154 11 4 299 84 388 2.26e-71 225
MsG0680030565.01.T01 MTR_7g014160 32.845 341 180 9 1 297 138 473 2.36e-52 178
MsG0680030565.01.T01 MTR_7g014200 33.728 338 175 9 1 297 139 468 7.30e-51 174
MsG0680030565.01.T01 MTR_7g013850 32.081 346 179 10 1 297 142 480 6.73e-47 164
MsG0680030565.01.T01 MTR_7g014610 33.832 334 163 12 16 299 152 477 6.77e-46 161
MsG0680030565.01.T01 MTR_7g014310 34.868 304 117 10 4 279 55 305 1.71e-41 145
MsG0680030565.01.T01 MTR_2g089765 30.564 337 177 12 10 300 160 485 7.91e-36 134
MsG0680030565.01.T01 MTR_8g012750 31.700 347 176 12 3 300 141 475 8.84e-35 131
MsG0680030565.01.T01 MTR_3g028210 28.829 333 181 12 10 300 149 467 2.62e-34 130
MsG0680030565.01.T01 MTR_2g089755 28.012 332 182 10 10 300 163 478 1.17e-33 128
MsG0680030565.01.T01 MTR_2g089735 30.000 330 178 11 10 300 149 464 4.10e-32 124
MsG0680030565.01.T01 MTR_7g014620 28.869 336 174 10 1 297 123 432 7.01e-32 123
MsG0680030565.01.T01 MTR_2g089670 28.354 328 188 9 8 300 165 480 4.79e-31 121
MsG0680030565.01.T01 MTR_2g089650 28.916 332 175 12 10 300 155 466 5.61e-31 121
MsG0680030565.01.T01 MTR_3g087640 30.606 330 174 8 10 298 158 473 6.15e-31 121
MsG0680030565.01.T01 MTR_7g015860 27.523 327 174 9 11 293 149 456 2.53e-28 113
MsG0680030565.01.T01 MTR_7g014670 32.258 186 96 4 143 298 75 260 6.77e-22 92.8
MsG0680030565.01.T01 MTR_3g435290 38.333 120 70 3 182 300 4 120 1.07e-18 80.5
MsG0680030565.01.T01 MTR_7g014205 46.667 90 44 2 179 265 32 120 1.76e-18 80.1
MsG0680030565.01.T01 MTR_7g014630 33.588 131 81 4 8 134 146 274 4.98e-18 83.6
MsG0680030565.01.T01 MTR_7g014210 43.878 98 50 3 174 267 42 138 7.60e-17 76.6
MsG0680030565.01.T01 MTR_4g094842 25.484 310 175 10 10 288 152 436 5.87e-14 72.4
MsG0680030565.01.T01 MTR_2g089745 45.714 70 38 0 231 300 11 80 1.21e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030565.01.T01 AT3G29635 34.940 332 174 7 1 300 136 457 2.49e-55 186
MsG0680030565.01.T01 AT5G39090 33.333 327 177 8 1 298 134 448 8.14e-52 176
MsG0680030565.01.T01 AT5G39080 33.735 332 173 11 1 293 134 457 8.42e-51 174
MsG0680030565.01.T01 AT5G39050 33.923 339 174 12 1 298 139 468 1.16e-48 169
MsG0680030565.01.T01 AT3G29590 33.739 329 176 10 1 298 132 449 3.02e-48 167
MsG0680030565.01.T01 AT3G29670 32.110 327 184 7 1 299 135 451 1.45e-47 165
MsG0680030565.01.T01 AT5G61160 28.834 326 185 7 6 297 138 450 8.48e-42 150
MsG0680030565.01.T01 AT3G29680 31.250 320 170 9 14 298 144 448 4.25e-41 148
MsG0680030565.01.T01 AT1G03940 27.879 330 181 9 10 298 152 465 2.06e-28 114
MsG0680030565.01.T01 AT3G29636 35.149 202 90 7 111 300 23 195 1.04e-21 90.9
MsG0680030565.01.T01 AT3G29720 35.484 155 87 5 1 153 58 201 6.23e-21 89.4
MsG0680030565.01.T01 AT5G67150 27.244 312 178 10 9 291 146 437 4.80e-14 72.4
MsG0680030565.01.T01 AT3G50280 28.788 264 155 10 10 252 14 265 9.36e-13 68.2
MsG0680030565.01.T01 AT3G50280 28.788 264 155 10 10 252 144 395 1.48e-12 68.2
MsG0680030565.01.T01 AT5G23940 25.321 312 179 13 10 287 148 439 6.62e-12 66.2
MsG0680030565.01.T01 AT3G29690 33.333 126 68 4 179 298 64 179 1.85e-11 62.4

Find 32 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAATAGTGTGAAAGATTT+TGG 0.160146 6:+5334697 MsG0680030565.01.T01:CDS
TTAAACTTTGAAACTTTAAA+TGG 0.189685 6:-5334992 None:intergenic
TCTTAAATGGAGCTGAAAAT+TGG 0.216555 6:+5334722 MsG0680030565.01.T01:CDS
TAGAATTAGAACATGTAATA+TGG 0.221123 6:-5334163 None:intergenic
ATTCAAGTCCTTGAATAAAA+AGG 0.227984 6:-5334969 None:intergenic
TAATTCCAATTCCATTATTA+TGG 0.255026 6:-5334256 None:intergenic
AGTTACATGTGCTTATGTTT+TGG 0.261109 6:+5334475 MsG0680030565.01.T01:CDS
CAAGACCATAATAATGGAAT+TGG 0.332443 6:+5334251 MsG0680030565.01.T01:CDS
GGTAAAATTTACTCTATTGC+TGG 0.339239 6:+5334772 MsG0680030565.01.T01:CDS
TTGATACAAGACCATAATAA+TGG 0.367593 6:+5334245 MsG0680030565.01.T01:CDS
AACAATGGTGGAATTGAGAT+TGG 0.373662 6:+5334907 MsG0680030565.01.T01:CDS
ATCAATGATCTATCAAATAA+AGG 0.374744 6:-5334227 None:intergenic
TTTGAGACAAAGAACTTAGT+TGG 0.379238 6:+5334631 MsG0680030565.01.T01:CDS
TTAACTAGATCATGTTTCAT+TGG 0.379287 6:-5334356 None:intergenic
CTTAAATGGAGCTGAAAATT+GGG 0.394510 6:+5334723 MsG0680030565.01.T01:CDS
ACACATCATGCTGCTTTAGA+TGG 0.395750 6:+5334107 MsG0680030565.01.T01:CDS
AGAATTAGAACATGTAATAT+GGG 0.428687 6:-5334162 None:intergenic
GATTGGTTTGGCTTTAAGTA+AGG 0.439820 6:+5334924 MsG0680030565.01.T01:CDS
ATGACTTCAACTGATAAATC+AGG 0.442475 6:+5334856 MsG0680030565.01.T01:CDS
GGCTTTAAGTAAGGAAGAGA+TGG 0.477261 6:+5334933 MsG0680030565.01.T01:CDS
ATACTATAAAACTCAAACCT+TGG 0.492343 6:-5334799 None:intergenic
TTCTAATATGTCTAGTGGAA+TGG 0.511771 6:+5334747 MsG0680030565.01.T01:CDS
GTCACTTTGTTTCCAAACAA+TGG 0.518249 6:+5334065 MsG0680030565.01.T01:CDS
TGGTGGAATTGAGATTGGTT+TGG 0.519435 6:+5334912 MsG0680030565.01.T01:CDS
TGGGTTTCTAATATGTCTAG+TGG 0.525925 6:+5334742 MsG0680030565.01.T01:CDS
AACAAAAGCAGAAGAACCTA+AGG 0.532232 6:+5334505 MsG0680030565.01.T01:CDS
GAAAGTAGGAATAACAATGG+TGG 0.573498 6:+5334895 MsG0680030565.01.T01:CDS
AATATGTCTAGTGGAATGGA+AGG 0.600539 6:+5334751 MsG0680030565.01.T01:CDS
AGTGAAAGTAGGAATAACAA+TGG 0.608579 6:+5334892 MsG0680030565.01.T01:CDS
GTTGTTGATTTGATGAAACA+AGG 0.620622 6:+5334290 MsG0680030565.01.T01:CDS
ACTCTATTGCTGGATCACCA+AGG 0.676816 6:+5334782 MsG0680030565.01.T01:CDS
GTTGATTTGATGAAACAAGG+TGG 0.705834 6:+5334293 MsG0680030565.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATACAATTTCCAATATACA+TGG - Chr6:5334593-5334612 None:intergenic 20.0%
!! AGAATTAGAACATGTAATAT+GGG - Chr6:5334165-5334184 None:intergenic 20.0%
!! ATCAATGATCTATCAAATAA+AGG - Chr6:5334230-5334249 None:intergenic 20.0%
!! TAATTCCAATTCCATTATTA+TGG - Chr6:5334259-5334278 None:intergenic 20.0%
!! TAGAATTAGAACATGTAATA+TGG - Chr6:5334166-5334185 None:intergenic 20.0%
!!! ATCTTGAGACTTTTATTATT+TGG - Chr6:5334320-5334339 None:intergenic 20.0%
!!! GAGTTTTATAGTATTGATTT+TGG + Chr6:5334808-5334827 MsG0680030565.01.T01:CDS 20.0%
!!! GATTTTTAAATGCTTTAGAA+GGG + Chr6:5334662-5334681 MsG0680030565.01.T01:CDS 20.0%
!!! TATAGTATTGATTTTGGATT+TGG + Chr6:5334814-5334833 MsG0680030565.01.T01:CDS 20.0%
!!! TTAAGCTTTTGAATATTTGA+AGG - Chr6:5334401-5334420 None:intergenic 20.0%
! AAGAACTTAGTTGGAAAAAA+TGG + Chr6:5334640-5334659 MsG0680030565.01.T01:CDS 25.0%
! ATACTATAAAACTCAAACCT+TGG - Chr6:5334802-5334821 None:intergenic 25.0%
! ATATACATGGTAGAAATTGA+AGG - Chr6:5334580-5334599 None:intergenic 25.0%
! ATTCAAGTCCTTGAATAAAA+AGG - Chr6:5334972-5334991 None:intergenic 25.0%
! TATACATGGTAGAAATTGAA+GGG - Chr6:5334579-5334598 None:intergenic 25.0%
! TATATTGGAAATTGTATTGC+AGG + Chr6:5334595-5334614 MsG0680030565.01.T01:intron 25.0%
! TCAATTTCTACCATGTATAT+TGG + Chr6:5334580-5334599 MsG0680030565.01.T01:intron 25.0%
! TGAAAAAGTGGTTTCATATT+TGG + Chr6:5334529-5334548 MsG0680030565.01.T01:CDS 25.0%
! TTAACTAGATCATGTTTCAT+TGG - Chr6:5334359-5334378 None:intergenic 25.0%
! TTCAAGTCCTTGAATAAAAA+GGG - Chr6:5334971-5334990 None:intergenic 25.0%
! TTGATACAAGACCATAATAA+TGG + Chr6:5334245-5334264 MsG0680030565.01.T01:CDS 25.0%
!! CATTTTCTATTAGTGAAAGT+AGG + Chr6:5334881-5334900 MsG0680030565.01.T01:CDS 25.0%
!! CTCAAGATTATGAATTTTTC+TGG + Chr6:5334332-5334351 MsG0680030565.01.T01:CDS 25.0%
!! TTGAATAGTGTGAAAGATTT+TGG + Chr6:5334697-5334716 MsG0680030565.01.T01:CDS 25.0%
!! TTTTCTACCCTTTTTATTCA+AGG + Chr6:5334961-5334980 MsG0680030565.01.T01:CDS 25.0%
!!! AAAGATTTTGGAGTCTTAAA+TGG + Chr6:5334709-5334728 MsG0680030565.01.T01:CDS 25.0%
!!! AATAAAGGTGTTAGATTTTC+AGG - Chr6:5334215-5334234 None:intergenic 25.0%
!!! CAACTACTTTTATGAAATCA+TGG + Chr6:5334138-5334157 MsG0680030565.01.T01:CDS 25.0%
!!! GAAGTCATATCAACTTTTTT+TGG - Chr6:5334844-5334863 None:intergenic 25.0%
!!! GGATTTTTAAATGCTTTAGA+AGG + Chr6:5334661-5334680 MsG0680030565.01.T01:CDS 25.0%
AAGTGGTTTCATATTTGGTA+TGG + Chr6:5334534-5334553 MsG0680030565.01.T01:intron 30.0%
AGTGAAAGTAGGAATAACAA+TGG + Chr6:5334892-5334911 MsG0680030565.01.T01:CDS 30.0%
ATGACTTCAACTGATAAATC+AGG + Chr6:5334856-5334875 MsG0680030565.01.T01:CDS 30.0%
CTTAAATGGAGCTGAAAATT+GGG + Chr6:5334723-5334742 MsG0680030565.01.T01:CDS 30.0%
GGTAAAATTTACTCTATTGC+TGG + Chr6:5334772-5334791 MsG0680030565.01.T01:CDS 30.0%
TCTTAAATGGAGCTGAAAAT+TGG + Chr6:5334722-5334741 MsG0680030565.01.T01:CDS 30.0%
TTCTAATATGTCTAGTGGAA+TGG + Chr6:5334747-5334766 MsG0680030565.01.T01:CDS 30.0%
! AGTTACATGTGCTTATGTTT+TGG + Chr6:5334475-5334494 MsG0680030565.01.T01:CDS 30.0%
! CAAGACCATAATAATGGAAT+TGG + Chr6:5334251-5334270 MsG0680030565.01.T01:CDS 30.0%
! TATGGATTGTAGATCAAGAT+TGG + Chr6:5334552-5334571 MsG0680030565.01.T01:intron 30.0%
! TTTGAGACAAAGAACTTAGT+TGG + Chr6:5334631-5334650 MsG0680030565.01.T01:CDS 30.0%
!! GTTGTTGATTTGATGAAACA+AGG + Chr6:5334290-5334309 MsG0680030565.01.T01:CDS 30.0%
AACAAAAGCAGAAGAACCTA+AGG + Chr6:5334505-5334524 MsG0680030565.01.T01:CDS 35.0%
AATATGTCTAGTGGAATGGA+AGG + Chr6:5334751-5334770 MsG0680030565.01.T01:CDS 35.0%
AGAACCTAAGGTTGAAAAAG+TGG + Chr6:5334517-5334536 MsG0680030565.01.T01:CDS 35.0%
CCAATGCAAAAACCATTGTT+TGG - Chr6:5334080-5334099 None:intergenic 35.0%
GAAAGTAGGAATAACAATGG+TGG + Chr6:5334895-5334914 MsG0680030565.01.T01:CDS 35.0%
TGGGTTTCTAATATGTCTAG+TGG + Chr6:5334742-5334761 MsG0680030565.01.T01:CDS 35.0%
! AACAATGGTGGAATTGAGAT+TGG + Chr6:5334907-5334926 MsG0680030565.01.T01:CDS 35.0%
! CCAAACAATGGTTTTTGCAT+TGG + Chr6:5334077-5334096 MsG0680030565.01.T01:CDS 35.0%
! GTCACTTTGTTTCCAAACAA+TGG + Chr6:5334065-5334084 MsG0680030565.01.T01:CDS 35.0%
!! GATTGGTTTGGCTTTAAGTA+AGG + Chr6:5334924-5334943 MsG0680030565.01.T01:CDS 35.0%
!! GTTGATTTGATGAAACAAGG+TGG + Chr6:5334293-5334312 MsG0680030565.01.T01:CDS 35.0%
!!! GAAACCACTTTTTCAACCTT+AGG - Chr6:5334524-5334543 None:intergenic 35.0%
! TGGTGGAATTGAGATTGGTT+TGG + Chr6:5334912-5334931 MsG0680030565.01.T01:CDS 40.0%
!! ACACATCATGCTGCTTTAGA+TGG + Chr6:5334107-5334126 MsG0680030565.01.T01:CDS 40.0%
!! GGCTTTAAGTAAGGAAGAGA+TGG + Chr6:5334933-5334952 MsG0680030565.01.T01:CDS 40.0%
ACTCTATTGCTGGATCACCA+AGG + Chr6:5334782-5334801 MsG0680030565.01.T01:CDS 45.0%
Chromosome Type Strat End Strand Name
Chr6 gene 5334023 5334999 5334023 ID=MsG0680030565.01;Name=MsG0680030565.01
Chr6 mRNA 5334023 5334999 5334023 ID=MsG0680030565.01.T01;Parent=MsG0680030565.01;Name=MsG0680030565.01.T01;_AED=0.21;_eAED=0.22;_QI=0|0|0|1|1|1|2|0|300
Chr6 exon 5334023 5334550 5334023 ID=MsG0680030565.01.T01:exon:4380;Parent=MsG0680030565.01.T01
Chr6 exon 5334625 5334999 5334625 ID=MsG0680030565.01.T01:exon:4381;Parent=MsG0680030565.01.T01
Chr6 CDS 5334023 5334550 5334023 ID=MsG0680030565.01.T01:cds;Parent=MsG0680030565.01.T01
Chr6 CDS 5334625 5334999 5334625 ID=MsG0680030565.01.T01:cds;Parent=MsG0680030565.01.T01
Gene Sequence

>MsG0680030565.01.T01

TTGAAAAATTCTCATGAAAAGGCTTCTTTACTTGCAATACAAGTCACTTTGTTTCCAAACAATGGTTTTTGCATTGGAATAACAACACATCATGCTGCTTTAGATGGAAGATCTGCAACTACTTTTATGAAATCATGGTCCCATATTACATGTTCTAATTCTAAACTTGATTCATCTTTTTTATCATTACCTGAAAATCTAACACCTTTATTTGATAGATCATTGATACAAGACCATAATAATGGAATTGGAATTAGTGAAGCATATGTTGTTGATTTGATGAAACAAGGTGGACCAAATAATAAAAGTCTCAAGATTATGAATTTTTCTGGTCCAATGAAACATGATCTAGTTAAAAGTTTGTATGAATTGACACCTTCAAATATTCAAAAGCTTAAAGAACATGCAAAAAATGAGATGAAAATGAATGCTATAAATTTGTCAACTTTTTCAGTTACATGTGCTTATGTTTTGGCATGTTTAACAAAAGCAGAAGAACCTAAGGTTGAAAAAGTGGTTTCATATTTGATTGTGTTTGAGACAAAGAACTTAGTTGGAAAAAATGGATTTTTAAATGCTTTAGAAGGGATAAATAAAGCTTTGAATAGTGTGAAAGATTTTGGAGTCTTAAATGGAGCTGAAAATTGGGTTTCTAATATGTCTAGTGGAATGGAAGGTAAAATTTACTCTATTGCTGGATCACCAAGGTTTGAGTTTTATAGTATTGATTTTGGATTTGGAAAGCCAAAAAAAGTTGATATGACTTCAACTGATAAATCAGGAGCATTTTCTATTAGTGAAAGTAGGAATAACAATGGTGGAATTGAGATTGGTTTGGCTTTAAGTAAGGAAGAGATGGAAGCTTTTTCTACCCTTTTTATTCAAGGACTTGAATCCATTTAA

Protein sequence

>MsG0680030565.01.T01

LKNSHEKASLLAIQVTLFPNNGFCIGITTHHAALDGRSATTFMKSWSHITCSNSKLDSSFLSLPENLTPLFDRSLIQDHNNGIGISEAYVVDLMKQGGPNNKSLKIMNFSGPMKHDLVKSLYELTPSNIQKLKEHAKNEMKMNAINLSTFSVTCAYVLACLTKAEEPKVEKVVSYLIVFETKNLVGKNGFLNALEGINKALNSVKDFGVLNGAENWVSNMSSGMEGKIYSIAGSPRFEFYSIDFGFGKPKKVDMTSTDKSGAFSISESRNNNGGIEIGLALSKEEMEAFSTLFIQGLESI*