AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380013594.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013594.01.T01 MTR_3g047140 75.801 281 36 2 1 249 1 281 7.49e-146 409
MsG0380013594.01.T01 MTR_0684s0020 60.000 275 80 1 1 245 1 275 8.22e-100 292
MsG0380013594.01.T01 MTR_0163s0020 60.000 275 80 1 1 245 2 276 8.22e-100 292
MsG0380013594.01.T01 MTR_1g090973 49.425 261 99 3 1 229 1 260 1.66e-74 228
MsG0380013594.01.T01 MTR_3g054170 49.597 248 96 1 11 229 7 254 4.58e-73 223
MsG0380013594.01.T01 MTR_1g090960 49.430 263 85 5 1 237 1 241 2.37e-70 216
MsG0380013594.01.T01 MTR_3g054200 48.178 247 99 1 12 229 8 254 6.51e-69 213
MsG0380013594.01.T01 MTR_3g054180 49.398 249 95 2 12 229 12 260 7.51e-68 210
MsG0380013594.01.T01 MTR_1g090943 54.592 196 83 3 46 237 78 271 1.38e-60 192
MsG0380013594.01.T01 MTR_3g027280 45.357 280 101 9 1 235 1 273 2.26e-56 182
MsG0380013594.01.T01 MTR_1g090930 42.857 273 115 7 1 235 1 270 4.29e-48 160
MsG0380013594.01.T01 MTR_1g090937 41.264 269 121 7 1 235 1 266 1.96e-47 158
MsG0380013594.01.T01 MTR_1g090957 40.925 281 104 9 1 237 1 263 5.89e-45 152
MsG0380013594.01.T01 MTR_8g068050 43.069 202 104 4 46 237 81 281 6.91e-39 143
MsG0380013594.01.T01 MTR_8g068030 41.089 202 99 6 44 227 64 263 7.24e-38 134
MsG0380013594.01.T01 MTR_4g023810 40.517 232 125 9 12 235 34 260 2.08e-37 132
MsG0380013594.01.T01 MTR_8g068040 40.500 200 105 5 44 230 64 262 1.08e-36 130
MsG0380013594.01.T01 MTR_5g031160 42.714 199 100 5 44 229 90 287 1.06e-35 128
MsG0380013594.01.T01 MTR_5g031140 42.929 198 97 6 46 229 91 286 4.76e-35 127
MsG0380013594.01.T01 MTR_5g031100 42.640 197 98 6 46 229 84 278 1.90e-34 125
MsG0380013594.01.T01 MTR_8g023510 43.684 190 98 7 46 229 73 259 7.22e-34 123
MsG0380013594.01.T01 MTR_5g031120 42.132 197 100 5 46 229 84 279 9.24e-34 123
MsG0380013594.01.T01 MTR_8g067980 41.538 195 100 9 43 227 67 257 3.97e-32 118
MsG0380013594.01.T01 MTR_8g067990 40.513 195 102 7 43 227 67 257 1.28e-31 117
MsG0380013594.01.T01 MTR_4g093080 37.438 203 113 5 46 236 66 266 1.71e-30 119
MsG0380013594.01.T01 MTR_5g031090 38.191 199 107 6 46 229 78 275 7.05e-29 110
MsG0380013594.01.T01 MTR_8g067960 38.579 197 106 6 43 229 50 241 8.91e-29 109
MsG0380013594.01.T01 MTR_4g093140 32.453 265 134 10 4 229 6 264 2.83e-28 113
MsG0380013594.01.T01 MTR_8g067940 37.864 206 110 8 39 227 75 279 4.21e-28 108
MsG0380013594.01.T01 MTR_7g115740 35.000 200 116 6 43 230 64 261 4.71e-28 112
MsG0380013594.01.T01 MTR_5g031030 40.437 183 97 6 58 229 93 274 2.99e-27 106
MsG0380013594.01.T01 MTR_1g014240 35.545 211 121 5 46 242 79 288 3.61e-27 110
MsG0380013594.01.T01 MTR_8g067735 35.426 223 126 8 33 239 68 288 1.47e-26 108
MsG0380013594.01.T01 MTR_7g116130 35.407 209 118 8 37 232 60 264 3.49e-26 107
MsG0380013594.01.T01 MTR_4g093040 38.462 182 97 6 43 210 72 252 4.50e-25 103
MsG0380013594.01.T01 MTR_4g093110 31.061 264 139 9 4 229 6 264 1.07e-24 102
MsG0380013594.01.T01 MTR_4g093040 39.645 169 87 6 56 210 3 170 5.21e-24 100
MsG0380013594.01.T01 MTR_3g463370 35.000 240 134 7 11 240 6 233 7.42e-24 96.3
MsG0380013594.01.T01 MTR_4g093070 35.204 196 114 4 46 229 72 266 1.32e-23 99.8
MsG0380013594.01.T01 MTR_4g056320 33.333 264 101 10 8 235 11 235 4.21e-23 94.7
MsG0380013594.01.T01 MTR_8g067630 35.025 197 113 6 33 216 55 249 8.52e-23 97.4
MsG0380013594.01.T01 MTR_8g067930 34.804 204 118 7 46 236 65 266 1.84e-22 96.3
MsG0380013594.01.T01 MTR_8g067720 32.599 227 136 8 33 246 49 271 1.55e-21 93.6
MsG0380013594.01.T01 MTR_8g067690 33.491 212 126 7 32 229 84 294 6.49e-20 89.0
MsG0380013594.01.T01 MTR_5g025020 30.841 214 120 7 45 240 87 290 2.95e-19 87.0
MsG0380013594.01.T01 MTR_4g093050 29.353 201 114 7 46 227 73 264 3.20e-17 80.9
MsG0380013594.01.T01 MTR_1g048360 31.443 194 116 6 46 228 74 261 1.04e-15 76.6
MsG0380013594.01.T01 MTR_5g068770 29.596 223 126 9 32 227 59 277 1.76e-13 70.1
MsG0380013594.01.T01 MTR_7g062940 31.000 200 114 9 48 226 60 256 6.38e-13 68.2
MsG0380013594.01.T01 MTR_7g115740 35.644 101 59 3 43 138 64 163 1.08e-12 67.8
MsG0380013594.01.T01 MTR_5g077100 32.143 196 116 7 45 231 67 254 6.25e-12 65.5
MsG0380013594.01.T01 MTR_2g090410 35.714 112 65 4 43 148 55 165 9.93e-12 65.1
MsG0380013594.01.T01 MTR_7g062890 30.622 209 116 10 42 226 54 257 1.96e-11 63.9
MsG0380013594.01.T01 MTR_2g090250 26.047 215 134 7 30 225 51 259 2.76e-11 63.5
MsG0380013594.01.T01 MTR_7g063010 30.653 199 118 8 46 226 61 257 3.52e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380013594.01.T01 AT5G65600 35.714 196 110 6 31 210 60 255 2.17e-23 99.0
MsG0380013594.01.T01 AT5G10530 36.220 254 124 14 10 230 7 255 5.87e-23 97.8
MsG0380013594.01.T01 AT4G29050 29.469 207 123 7 41 226 69 273 5.15e-15 74.7
MsG0380013594.01.T01 AT4G29050 29.469 207 123 7 41 226 55 259 5.51e-15 74.3
MsG0380013594.01.T01 AT5G55830 31.718 227 124 11 44 246 68 287 1.27e-14 73.6
MsG0380013594.01.T01 AT5G03140 30.688 189 119 6 44 223 72 257 1.14e-13 70.5
MsG0380013594.01.T01 AT4G04960 28.643 199 123 6 43 223 56 253 1.28e-12 67.4
MsG0380013594.01.T01 AT4G04960 28.643 199 123 6 43 223 56 253 1.95e-12 67.0
MsG0380013594.01.T01 AT4G02410 30.000 210 121 9 44 231 64 269 8.90e-11 62.0

Find 40 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTAGGAATCACACTATT+TGG 0.202064 3:-41374617 None:intergenic
ATACCAACGCTAACTGTTTC+TGG 0.220985 3:-41374932 None:intergenic
GATCCTAACAATGCACATAT+TGG 0.297717 3:+41374731 MsG0380013594.01.T01:CDS
GGGACATGGAAAACAGAAAT+TGG 0.305299 3:+41374788 MsG0380013594.01.T01:CDS
ACACAAAGGAAAATAGTTTC+TGG 0.315222 3:-41374266 None:intergenic
TCTCCACCATGTGTGTTCTT+AGG 0.322895 3:-41374632 None:intergenic
GGGAACGGGTGTTGGATATA+AGG 0.323393 3:-41374480 None:intergenic
ATCCAACACCCGTTCCCATT+TGG 0.326894 3:+41374486 MsG0380013594.01.T01:CDS
TCTTTAATTTCATCCAAGAT+AGG 0.332334 3:+41374767 MsG0380013594.01.T01:CDS
TTGATAATTATCACAATGAA+TGG 0.357039 3:+41374708 MsG0380013594.01.T01:CDS
GAACACACATGGTGGAGATC+TGG 0.367028 3:+41374637 MsG0380013594.01.T01:CDS
TCCAACACCCGTTCCCATTT+GGG 0.369296 3:+41374487 MsG0380013594.01.T01:CDS
ACCGCTTTCAATCAATTTGT+TGG 0.409746 3:+41374677 MsG0380013594.01.T01:CDS
ATCCTAACAATGCACATATT+GGG 0.411998 3:+41374732 MsG0380013594.01.T01:CDS
TCCCAAATGGGAACGGGTGT+TGG 0.421568 3:-41374488 None:intergenic
CCCATTTGGGATAAAACAAC+TGG 0.423041 3:+41374500 MsG0380013594.01.T01:CDS
GAAAATAGTTTCTGGTTATG+TGG 0.433314 3:-41374258 None:intergenic
GTTTCTCTCATTGATGAGCT+TGG 0.446561 3:+41374863 MsG0380013594.01.T01:CDS
ATCCCAATATGTGCATTGTT+AGG 0.450564 3:-41374734 None:intergenic
CTCAGTTGCAAGCAAGAGAA+AGG 0.475267 3:-41374307 None:intergenic
GGTGGTCTTCAACCAGCTGA+TGG 0.478343 3:+41374572 MsG0380013594.01.T01:CDS
TGATAATTATCACAATGAAT+GGG 0.484393 3:+41374709 MsG0380013594.01.T01:CDS
AACACACATGGTGGAGATCT+GGG 0.502642 3:+41374638 MsG0380013594.01.T01:CDS
CTTTAATTTCATCCAAGATA+GGG 0.502694 3:+41374768 MsG0380013594.01.T01:CDS
TTAGGAATCACACTATTTGG+TGG 0.526107 3:-41374614 None:intergenic
GCTGGTTGAAGACCACCAAC+CGG 0.528758 3:-41374566 None:intergenic
GACTTAGCTGAGTACACCTC+TGG 0.546275 3:+41374360 MsG0380013594.01.T01:CDS
GTGGTGCAAGAAAGAAGATA+AGG 0.570237 3:-41374595 None:intergenic
GTGGACCATATCAACTCATA+CGG 0.574991 3:-41375075 None:intergenic
ACCAACAAATTGATTGAAAG+CGG 0.579038 3:-41374678 None:intergenic
CTTCCAGAAACAGTTAGCGT+TGG 0.583927 3:+41374929 MsG0380013594.01.T01:CDS
AAGAAGATAAGGCCATCAGC+TGG 0.583975 3:-41374584 None:intergenic
TTGACGTTGTTCAAATGATG+TGG 0.619970 3:-41374963 None:intergenic
TTTCATCCAAGATAGGGACA+TGG 0.631840 3:+41374774 MsG0380013594.01.T01:CDS
AAATACATGTCATTGAAACA+TGG 0.641886 3:+41374984 MsG0380013594.01.T01:CDS
CGGGTGTTGGATATAAGGCA+CGG 0.656236 3:-41374475 None:intergenic
GGTGTACTCAGCTAAGTCGA+AGG 0.656926 3:-41374355 None:intergenic
TGTAAAGATGACCAACACAA+AGG 0.670119 3:-41374280 None:intergenic
ATTCCTAAGAACACACATGG+TGG 0.680802 3:+41374629 MsG0380013594.01.T01:CDS
GTGATTCCTAAGAACACACA+TGG 0.690560 3:+41374626 MsG0380013594.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGATAATTATCACAATGAAT+GGG + Chr3:41374709-41374728 MsG0380013594.01.T01:CDS 20.0%
!!! TTGATAATTATCACAATGAA+TGG + Chr3:41374708-41374727 MsG0380013594.01.T01:CDS 20.0%
! AAAAAAAACTAACCCTTCAA+GGG + Chr3:41374384-41374403 MsG0380013594.01.T01:intron 25.0%
! AAATACATGTCATTGAAACA+TGG + Chr3:41374984-41375003 MsG0380013594.01.T01:CDS 25.0%
! ACTCATTAAAGAAAATCACT+TGG + Chr3:41374412-41374431 MsG0380013594.01.T01:intron 25.0%
! TAAAAAAAACTAACCCTTCA+AGG + Chr3:41374383-41374402 MsG0380013594.01.T01:intron 25.0%
!! CTTTAATTTCATCCAAGATA+GGG + Chr3:41374768-41374787 MsG0380013594.01.T01:CDS 25.0%
!! TCTTTAATTTCATCCAAGAT+AGG + Chr3:41374767-41374786 MsG0380013594.01.T01:CDS 25.0%
ACACAAAGGAAAATAGTTTC+TGG - Chr3:41374269-41374288 None:intergenic 30.0%
ACCAACAAATTGATTGAAAG+CGG - Chr3:41374681-41374700 None:intergenic 30.0%
ATCCTAACAATGCACATATT+GGG + Chr3:41374732-41374751 MsG0380013594.01.T01:CDS 30.0%
TTCTTAGGAATCACACTATT+TGG - Chr3:41374620-41374639 None:intergenic 30.0%
! GAAACTATTTTCCTTTGTGT+TGG + Chr3:41374269-41374288 MsG0380013594.01.T01:CDS 30.0%
!! GAAAATAGTTTCTGGTTATG+TGG - Chr3:41374261-41374280 None:intergenic 30.0%
ACCGCTTTCAATCAATTTGT+TGG + Chr3:41374677-41374696 MsG0380013594.01.T01:CDS 35.0%
ATCCCAATATGTGCATTGTT+AGG - Chr3:41374737-41374756 None:intergenic 35.0%
GATCCTAACAATGCACATAT+TGG + Chr3:41374731-41374750 MsG0380013594.01.T01:CDS 35.0%
TGTAAAGATGACCAACACAA+AGG - Chr3:41374283-41374302 None:intergenic 35.0%
TTAGGAATCACACTATTTGG+TGG - Chr3:41374617-41374636 None:intergenic 35.0%
TTGACGTTGTTCAAATGATG+TGG - Chr3:41374966-41374985 None:intergenic 35.0%
! TGTTTTATCCCAAATGGGAA+CGG - Chr3:41374498-41374517 None:intergenic 35.0%
!! CCAGTTGTTTTATCCCAAAT+GGG - Chr3:41374503-41374522 None:intergenic 35.0%
!!! GGGTTAGTTTTTTTTACCAG+AGG - Chr3:41374379-41374398 None:intergenic 35.0%
AATGAGTGCATTCCCTTGAA+GGG - Chr3:41374399-41374418 None:intergenic 40.0%
ATAAGGGTCATCTTGAATGC+TGG - Chr3:41374444-41374463 None:intergenic 40.0%
ATACCAACGCTAACTGTTTC+TGG - Chr3:41374935-41374954 None:intergenic 40.0%
ATTCCTAAGAACACACATGG+TGG + Chr3:41374629-41374648 MsG0380013594.01.T01:CDS 40.0%
GATGACCCTTATACGATTGT+AGG + Chr3:41374452-41374471 MsG0380013594.01.T01:intron 40.0%
GGGACATGGAAAACAGAAAT+TGG + Chr3:41374788-41374807 MsG0380013594.01.T01:CDS 40.0%
GTGATTCCTAAGAACACACA+TGG + Chr3:41374626-41374645 MsG0380013594.01.T01:CDS 40.0%
GTGGTGCAAGAAAGAAGATA+AGG - Chr3:41374598-41374617 None:intergenic 40.0%
GTTTCTCTCATTGATGAGCT+TGG + Chr3:41374863-41374882 MsG0380013594.01.T01:CDS 40.0%
TAATGAGTGCATTCCCTTGA+AGG - Chr3:41374400-41374419 None:intergenic 40.0%
TTTCATCCAAGATAGGGACA+TGG + Chr3:41374774-41374793 MsG0380013594.01.T01:CDS 40.0%
! CCCATTTGGGATAAAACAAC+TGG + Chr3:41374500-41374519 MsG0380013594.01.T01:CDS 40.0%
! CTTCTCTTTTTCTCTTGTGC+CGG + Chr3:41374547-41374566 MsG0380013594.01.T01:CDS 40.0%
! GTTTTATCCCAAATGGGAAC+GGG - Chr3:41374497-41374516 None:intergenic 40.0%
! TGTTTTCCATGTCCCTATCT+TGG - Chr3:41374783-41374802 None:intergenic 40.0%
!! GCCAGTTGTTTTATCCCAAA+TGG - Chr3:41374504-41374523 None:intergenic 40.0%
AAGAAGATAAGGCCATCAGC+TGG - Chr3:41374587-41374606 None:intergenic 45.0%
CACGGCCTACAATCGTATAA+GGG - Chr3:41374460-41374479 None:intergenic 45.0%
CGGCACAAGAGAAAAAGAGA+AGG - Chr3:41374549-41374568 None:intergenic 45.0%
CTCAGTTGCAAGCAAGAGAA+AGG - Chr3:41374310-41374329 None:intergenic 45.0%
CTTCCAGAAACAGTTAGCGT+TGG + Chr3:41374929-41374948 MsG0380013594.01.T01:CDS 45.0%
TCTCCACCATGTGTGTTCTT+AGG - Chr3:41374635-41374654 None:intergenic 45.0%
! AACACACATGGTGGAGATCT+GGG + Chr3:41374638-41374657 MsG0380013594.01.T01:CDS 45.0%
!! TCTTTTTCTCTTGTGCCGGT+TGG + Chr3:41374551-41374570 MsG0380013594.01.T01:CDS 45.0%
ATCCAACACCCGTTCCCATT+TGG + Chr3:41374486-41374505 MsG0380013594.01.T01:CDS 50.0%
GACTTAGCTGAGTACACCTC+TGG + Chr3:41374360-41374379 MsG0380013594.01.T01:CDS 50.0%
GCACGGCCTACAATCGTATA+AGG - Chr3:41374461-41374480 None:intergenic 50.0%
GGTGTACTCAGCTAAGTCGA+AGG - Chr3:41374358-41374377 None:intergenic 50.0%
TCCAACACCCGTTCCCATTT+GGG + Chr3:41374487-41374506 MsG0380013594.01.T01:CDS 50.0%
! GAACACACATGGTGGAGATC+TGG + Chr3:41374637-41374656 MsG0380013594.01.T01:CDS 50.0%
!! CGGGTGTTGGATATAAGGCA+CGG - Chr3:41374478-41374497 None:intergenic 50.0%
!! GGGAACGGGTGTTGGATATA+AGG - Chr3:41374483-41374502 None:intergenic 50.0%
!!! TTTTCTCTTGTGCCGGTTGG+TGG + Chr3:41374554-41374573 MsG0380013594.01.T01:CDS 50.0%
GCTGGTTGAAGACCACCAAC+CGG - Chr3:41374569-41374588 None:intergenic 55.0%
GGTGGTCTTCAACCAGCTGA+TGG + Chr3:41374572-41374591 MsG0380013594.01.T01:CDS 55.0%
TCCCAAATGGGAACGGGTGT+TGG - Chr3:41374491-41374510 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 41374246 41375087 41374246 ID=MsG0380013594.01;Name=MsG0380013594.01
Chr3 mRNA 41374246 41375087 41374246 ID=MsG0380013594.01.T01;Parent=MsG0380013594.01;Name=MsG0380013594.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|2|0|249
Chr3 exon 41374246 41374381 41374246 ID=MsG0380013594.01.T01:exon:22508;Parent=MsG0380013594.01.T01
Chr3 exon 41374474 41375087 41374474 ID=MsG0380013594.01.T01:exon:22509;Parent=MsG0380013594.01.T01
Chr3 CDS 41374246 41374381 41374246 ID=MsG0380013594.01.T01:cds;Parent=MsG0380013594.01.T01
Chr3 CDS 41374474 41375087 41374474 ID=MsG0380013594.01.T01:cds;Parent=MsG0380013594.01.T01
Gene Sequence

>MsG0380013594.01.T01

ATGGCTTTCTTTCCACATAACCAGAAACTATTTTCCTTTGTGTTGGTCATCTTTACAATTTCCTTTCTCTTGCTTGCAACTGAGTTAGTGAACTCAGATGAAAGAGTTTCCTTCGACTTAGCTGAGTACACCTCTGGCCGTGCCTTATATCCAACACCCGTTCCCATTTGGGATAAAACAACTGGCAATGTCGCTAGTTTTGTGACTTCCTTCTCTTTTTCTCTTGTGCCGGTTGGTGGTCTTCAACCAGCTGATGGCCTTATCTTCTTTCTTGCACCACCAAATAGTGTGATTCCTAAGAACACACATGGTGGAGATCTGGGAGTAGTCGATGAGACTACCGCTTTCAATCAATTTGTTGGTGTAGAATTTGATAATTATCACAATGAATGGGATCCTAACAATGCACATATTGGGATCGATGTCAACTCTTTAATTTCATCCAAGATAGGGACATGGAAAACAGAAATTGGAGTGTTGTTCAATGTTAATATCATCTATGATTCTCTCTCTAAGACTTTGAGTGTTTCTCTCATTGATGAGCTTGGTCAAGTTTCTACTGTTGCTCAAGTCGTTGATTTGAAAGATGTGCTTCCAGAAACAGTTAGCGTTGGTATATCTGCTGCCACATCATTTGAACAACGTCAAATACATGTCATTGAAACATGGTCTTTCAAGTCAATTTTGAAGACAACTATAAGCAGCAACATCTTAGAGAACACAAATCATACTGCTATCCGTATGAGTTGA

Protein sequence

>MsG0380013594.01.T01

MAFFPHNQKLFSFVLVIFTISFLLLATELVNSDERVSFDLAEYTSGRALYPTPVPIWDKTTGNVASFVTSFSFSLVPVGGLQPADGLIFFLAPPNSVIPKNTHGGDLGVVDETTAFNQFVGVEFDNYHNEWDPNNAHIGIDVNSLISSKIGTWKTEIGVLFNVNIIYDSLSKTLSVSLIDELGQVSTVAQVVDLKDVLPETVSVGISAATSFEQRQIHVIETWSFKSILKTTISSNILENTNHTAIRMS*