AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680030905.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030905.01.T01 MTR_6g014186 81.481 135 17 1 1 127 307 441 3.06e-71 219
MsG0680030905.01.T01 MTR_6g014270 65.341 176 15 1 1 130 309 484 2.53e-69 216
MsG0680030905.01.T01 MTR_6g014150 66.477 176 13 1 1 130 307 482 2.84e-69 216
MsG0680030905.01.T01 MTR_8g043470 64.205 176 17 1 1 130 208 383 9.39e-69 212
MsG0680030905.01.T01 MTR_6g014200 63.006 173 18 1 1 127 307 479 1.05e-65 206
MsG0680030905.01.T01 MTR_6g014190 60.795 176 23 1 1 130 117 292 1.18e-65 201
MsG0680030905.01.T01 MTR_6g014050 58.286 175 27 1 1 129 311 485 8.12e-62 196
MsG0680030905.01.T01 MTR_6g014040 60.000 175 24 1 1 129 311 485 5.15e-61 194
MsG0680030905.01.T01 MTR_6g014240 59.091 176 26 1 1 130 277 452 1.16e-60 192
MsG0680030905.01.T01 MTR_6g014187 58.523 176 27 1 1 130 310 485 6.18e-60 192
MsG0680030905.01.T01 MTR_6g014170 58.757 177 27 1 1 131 292 468 6.68e-60 191
MsG0680030905.01.T01 MTR_8g059425 57.955 176 28 1 1 130 308 483 7.03e-60 191
MsG0680030905.01.T01 MTR_6g011340 59.195 174 25 1 1 128 310 483 2.04e-59 190
MsG0680030905.01.T01 MTR_6g014300 54.023 174 34 1 1 128 296 469 1.48e-58 187
MsG0680030905.01.T01 MTR_8g007585 55.429 175 32 1 1 129 222 396 1.50e-58 186
MsG0680030905.01.T01 MTR_6g013450 55.172 174 32 1 1 128 311 484 1.78e-58 188
MsG0680030905.01.T01 MTR_5g058320 55.747 174 31 1 1 128 295 468 2.69e-58 187
MsG0680030905.01.T01 MTR_6g014290 54.286 175 34 1 1 129 308 482 4.04e-58 187
MsG0680030905.01.T01 MTR_0288s0020 56.897 174 29 1 1 128 291 464 6.59e-58 186
MsG0680030905.01.T01 MTR_6g014220 57.225 173 28 1 1 127 308 480 1.42e-57 185
MsG0680030905.01.T01 MTR_6g013900 56.000 175 31 1 1 129 309 483 2.08e-57 185
MsG0680030905.01.T01 MTR_6g014020 56.000 175 31 1 1 129 310 484 3.47e-57 184
MsG0680030905.01.T01 MTR_6g013960 55.429 175 32 1 1 129 310 484 4.11e-57 184
MsG0680030905.01.T01 MTR_6g013920 56.897 174 29 1 1 128 309 482 1.80e-56 182
MsG0680030905.01.T01 MTR_7g011470 55.172 174 32 1 1 128 292 465 2.06e-56 182
MsG0680030905.01.T01 MTR_7g011470 55.172 174 32 1 1 128 296 469 2.77e-56 182
MsG0680030905.01.T01 MTR_3g008010 53.143 175 36 1 1 129 308 482 3.01e-56 182
MsG0680030905.01.T01 MTR_6g014310 52.874 174 36 1 1 128 311 484 4.36e-55 179
MsG0680030905.01.T01 MTR_6g014250 53.714 175 35 1 1 129 308 482 4.93e-55 179
MsG0680030905.01.T01 MTR_6g013990 56.322 174 30 1 1 128 308 481 4.48e-54 176
MsG0680030905.01.T01 MTR_6g013440 51.724 174 38 1 1 128 311 484 2.23e-53 174
MsG0680030905.01.T01 MTR_0477s0010 51.724 174 38 1 1 128 147 320 1.17e-52 169
MsG0680030905.01.T01 MTR_5g066390 52.469 162 31 1 14 129 58 219 2.91e-50 159
MsG0680030905.01.T01 MTR_6g013435 60.769 130 49 2 1 128 181 310 3.80e-46 152
MsG0680030905.01.T01 MTR_6g013680 59.375 128 46 2 1 128 257 378 1.80e-42 144
MsG0680030905.01.T01 MTR_2086s0010 40.116 172 56 2 1 125 1 172 5.51e-36 122
MsG0680030905.01.T01 MTR_1996s0010 40.116 172 56 2 1 125 1 172 5.51e-36 122
MsG0680030905.01.T01 MTR_6g014185 48.276 145 28 2 28 125 201 345 1.22e-33 120
MsG0680030905.01.T01 MTR_5g464810 39.655 174 57 3 1 127 308 480 1.36e-32 119
MsG0680030905.01.T01 MTR_5g064240 39.655 174 57 3 1 127 308 480 1.36e-32 119
MsG0680030905.01.T01 MTR_3g479520 40.116 172 56 3 1 125 312 483 4.80e-32 118
MsG0680030905.01.T01 MTR_0036s0220 39.306 173 57 4 1 126 308 479 8.18e-32 117
MsG0680030905.01.T01 MTR_3g479490 38.202 178 62 3 1 131 303 479 2.46e-31 116
MsG0680030905.01.T01 MTR_0891s0010 38.636 176 60 3 1 129 119 293 3.35e-31 112
MsG0680030905.01.T01 MTR_4g094220 39.881 168 54 2 1 121 308 475 3.45e-31 115
MsG0680030905.01.T01 MTR_2g008210 41.714 175 53 3 1 126 304 478 4.20e-31 115
MsG0680030905.01.T01 MTR_3g479610 39.535 172 57 2 1 125 142 313 7.24e-31 112
MsG0680030905.01.T01 MTR_3g079480 38.953 172 58 2 1 125 318 489 1.32e-30 114
MsG0680030905.01.T01 MTR_5g464760 37.572 173 60 3 1 126 310 481 3.07e-29 110
MsG0680030905.01.T01 MTR_6g014160 48.837 129 45 3 9 130 284 398 6.66e-29 108
MsG0680030905.01.T01 MTR_6g013890 65.116 86 19 2 16 90 155 240 1.05e-28 105
MsG0680030905.01.T01 MTR_6g014000 46.457 127 22 1 42 122 27 153 1.15e-28 108
MsG0680030905.01.T01 MTR_3g479470 38.012 171 60 1 1 125 310 480 6.12e-23 93.2
MsG0680030905.01.T01 MTR_3g069710 26.012 173 80 2 1 125 280 452 1.62e-16 74.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680030905.01.T01 AT1G22340 39.429 175 58 3 1 127 310 484 1.80e-30 114
MsG0680030905.01.T01 AT1G22380 35.838 173 64 2 1 126 310 482 1.26e-29 111
MsG0680030905.01.T01 AT1G22400 34.857 175 67 2 1 128 311 485 1.10e-28 108
MsG0680030905.01.T01 AT1G78270 34.104 173 66 3 1 125 309 481 1.02e-25 100
MsG0680030905.01.T01 AT1G22360 33.714 175 69 3 1 128 307 481 1.00e-24 98.2
MsG0680030905.01.T01 AT1G22370 37.143 175 63 2 1 128 135 309 6.96e-24 94.0
MsG0680030905.01.T01 AT1G22370 37.143 175 63 2 1 128 305 479 2.53e-23 94.0
MsG0680030905.01.T01 AT1G22360 32.515 163 75 5 1 128 307 469 2.55e-17 77.0
MsG0680030905.01.T01 AT3G11340 27.976 168 73 2 5 124 277 444 1.49e-15 72.0
MsG0680030905.01.T01 AT3G46690 28.824 170 73 3 1 122 278 447 1.21e-13 66.6

Find 30 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAGAGATGAGGTGGAGAATT+TGG 0.247456 6:+11386422 MsG0680030905.01.T01:CDS
CAAAACCACGGAACTGATAA+TGG 0.337207 6:-11386154 None:intergenic
GCAGATATATTTGCAATGAA+TGG 0.361352 6:+11386367 MsG0680030905.01.T01:intron
ATTAGAGTTTGCTTGGGGTT+TGG 0.376179 6:+11386086 MsG0680030905.01.T01:CDS
AAAACTATTAGAGTTTGCTT+GGG 0.398810 6:+11386080 MsG0680030905.01.T01:CDS
ATTTGCAATGAATGGGAGAT+TGG 0.404882 6:+11386375 MsG0680030905.01.T01:CDS
AAGAATGAAATTTCAGATAG+AGG 0.408729 6:+11386189 MsG0680030905.01.T01:CDS
CAGATATATTTGCAATGAAT+GGG 0.436651 6:+11386368 MsG0680030905.01.T01:intron
GAATTTGGTCAATGAATTGA+TGG 0.459913 6:+11386437 MsG0680030905.01.T01:CDS
GAATTGATGGTGGGAGAGAA+AGG 0.475632 6:+11386450 MsG0680030905.01.T01:CDS
ACGGGCACCAATCGGCGATT+AGG 0.498723 6:-11386212 None:intergenic
GATAATTGAGATGAAGAAGA+AGG 0.531263 6:+11386491 MsG0680030905.01.T01:CDS
GAACTGATAATGGCAAGATC+AGG 0.535005 6:-11386144 None:intergenic
CACCTCATCTCTCTTCACAT+TGG 0.543207 6:-11386412 None:intergenic
TTGCTCTTACGGGCACCAAT+CGG 0.563562 6:-11386220 None:intergenic
GAGAGAAAGGAAAGAAGATG+AGG 0.567553 6:+11386463 MsG0680030905.01.T01:CDS
TGGTTGTTCATACATGAACT+TGG 0.585259 6:+11386536 MsG0680030905.01.T01:CDS
CAATGAATGGGAGATTGGCA+TGG 0.589803 6:+11386380 MsG0680030905.01.T01:CDS
TCTTGCCATTATCAGTTCCG+TGG 0.598182 6:+11386149 MsG0680030905.01.T01:CDS
CAATGTGAAGAGAGATGAGG+TGG 0.598206 6:+11386413 MsG0680030905.01.T01:CDS
ATAGAGGCCTAATCGCCGAT+TGG 0.602105 6:+11386205 MsG0680030905.01.T01:CDS
TTTGGTCAATGAATTGATGG+TGG 0.603132 6:+11386440 MsG0680030905.01.T01:CDS
ACCAGGTCTCGTGTCTTCGT+CGG 0.613735 6:-11386514 None:intergenic
TTGGTCAATGAATTGATGGT+GGG 0.614013 6:+11386441 MsG0680030905.01.T01:CDS
AAACTATTAGAGTTTGCTTG+GGG 0.622826 6:+11386081 MsG0680030905.01.T01:CDS
GCCGACGAAGACACGAGACC+TGG 0.626847 6:+11386513 MsG0680030905.01.T01:CDS
TTCATGTATGAACAACCACC+AGG 0.629091 6:-11386531 None:intergenic
GACGAAGACACGAGACCTGG+TGG 0.685009 6:+11386516 MsG0680030905.01.T01:CDS
AAACTCAGATGACAAAACCA+CGG 0.694388 6:-11386166 None:intergenic
CTCCAATGTGAAGAGAGATG+AGG 0.755052 6:+11386410 MsG0680030905.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AACATTTTTTATGGATCATT+AGG + Chr6:11386121-11386140 MsG0680030905.01.T01:CDS 20.0%
! AAGAATGAAATTTCAGATAG+AGG + Chr6:11386189-11386208 MsG0680030905.01.T01:CDS 25.0%
! CAGATATATTTGCAATGAAT+GGG + Chr6:11386368-11386387 MsG0680030905.01.T01:intron 25.0%
! GTATTAAACCATACTTCAAT+TGG + Chr6:11386243-11386262 MsG0680030905.01.T01:intron 25.0%
!! AAAAACTATTAGAGTTTGCT+TGG + Chr6:11386079-11386098 MsG0680030905.01.T01:CDS 25.0%
!! AAAACTATTAGAGTTTGCTT+GGG + Chr6:11386080-11386099 MsG0680030905.01.T01:CDS 25.0%
!! AAACTCTAATAGTTTTTCTG+CGG - Chr6:11386076-11386095 None:intergenic 25.0%
!!! ATAGCAAGCAACATTTTTTA+TGG + Chr6:11386112-11386131 MsG0680030905.01.T01:CDS 25.0%
!!! TAAAAAATGTTGCTTGCTAT+TGG - Chr6:11386112-11386131 None:intergenic 25.0%
GAACTTGGAAAAAGTGATTA+AGG + Chr6:11386551-11386570 MsG0680030905.01.T01:CDS 30.0%
GAATTTGGTCAATGAATTGA+TGG + Chr6:11386437-11386456 MsG0680030905.01.T01:CDS 30.0%
GATAATTGAGATGAAGAAGA+AGG + Chr6:11386491-11386510 MsG0680030905.01.T01:CDS 30.0%
GCAGATATATTTGCAATGAA+TGG + Chr6:11386367-11386386 MsG0680030905.01.T01:intron 30.0%
GTTAGTTGATCAGCAAAAAA+AGG - Chr6:11386342-11386361 None:intergenic 30.0%
TGGTTTAATACTTGCTCTTA+CGG - Chr6:11386234-11386253 None:intergenic 30.0%
TTAAACCATACTTCAATTGG+TGG + Chr6:11386246-11386265 MsG0680030905.01.T01:intron 30.0%
! AAACTATTAGAGTTTGCTTG+GGG + Chr6:11386081-11386100 MsG0680030905.01.T01:CDS 30.0%
AAAAAAGGCCAACACAACAT+TGG - Chr6:11386327-11386346 None:intergenic 35.0%
AAACTCAGATGACAAAACCA+CGG - Chr6:11386169-11386188 None:intergenic 35.0%
AGAATCCACCAATTGAAGTA+TGG - Chr6:11386254-11386273 None:intergenic 35.0%
ATTTGCAATGAATGGGAGAT+TGG + Chr6:11386375-11386394 MsG0680030905.01.T01:CDS 35.0%
CTTGGAAAAAGTGATTAAGG+AGG + Chr6:11386554-11386573 MsG0680030905.01.T01:CDS 35.0%
GGTTTAATACTTGCTCTTAC+GGG - Chr6:11386233-11386252 None:intergenic 35.0%
TGGTTGTTCATACATGAACT+TGG + Chr6:11386536-11386555 MsG0680030905.01.T01:CDS 35.0%
TTTGGTCAATGAATTGATGG+TGG + Chr6:11386440-11386459 MsG0680030905.01.T01:CDS 35.0%
! TTGGTCAATGAATTGATGGT+GGG + Chr6:11386441-11386460 MsG0680030905.01.T01:CDS 35.0%
CAAAACCACGGAACTGATAA+TGG - Chr6:11386157-11386176 None:intergenic 40.0%
GAGAGAAAGGAAAGAAGATG+AGG + Chr6:11386463-11386482 MsG0680030905.01.T01:CDS 40.0%
GATTCTTGACTCATTGTGGA+TGG + Chr6:11386268-11386287 MsG0680030905.01.T01:intron 40.0%
TTCATGTATGAACAACCACC+AGG - Chr6:11386534-11386553 None:intergenic 40.0%
! ATTAGAGTTTGCTTGGGGTT+TGG + Chr6:11386086-11386105 MsG0680030905.01.T01:CDS 40.0%
!! GAACTGATAATGGCAAGATC+AGG - Chr6:11386147-11386166 None:intergenic 40.0%
CAATGAATGGGAGATTGGCA+TGG + Chr6:11386380-11386399 MsG0680030905.01.T01:CDS 45.0%
CAATGTGAAGAGAGATGAGG+TGG + Chr6:11386413-11386432 MsG0680030905.01.T01:CDS 45.0%
CACCTCATCTCTCTTCACAT+TGG - Chr6:11386415-11386434 None:intergenic 45.0%
CCAACACAACATTGGAACTC+CGG - Chr6:11386319-11386338 None:intergenic 45.0%
CTCCAATGTGAAGAGAGATG+AGG + Chr6:11386410-11386429 MsG0680030905.01.T01:CDS 45.0%
GAGAGATGAGGTGGAGAATT+TGG + Chr6:11386422-11386441 MsG0680030905.01.T01:CDS 45.0%
TCTTGCCATTATCAGTTCCG+TGG + Chr6:11386149-11386168 MsG0680030905.01.T01:CDS 45.0%
! GGTGGATTCTTGACTCATTG+TGG + Chr6:11386264-11386283 MsG0680030905.01.T01:intron 45.0%
!! GAATTGATGGTGGGAGAGAA+AGG + Chr6:11386450-11386469 MsG0680030905.01.T01:CDS 45.0%
ATAGAGGCCTAATCGCCGAT+TGG + Chr6:11386205-11386224 MsG0680030905.01.T01:CDS 50.0%
CCGGAGTTCCAATGTTGTGT+TGG + Chr6:11386316-11386335 MsG0680030905.01.T01:intron 50.0%
TTGCTCTTACGGGCACCAAT+CGG - Chr6:11386223-11386242 None:intergenic 50.0%
ACCAGGTCTCGTGTCTTCGT+CGG - Chr6:11386517-11386536 None:intergenic 55.0%
!! ACCACTGAAAGCATCTGCGC+CGG + Chr6:11386297-11386316 MsG0680030905.01.T01:intron 55.0%
ACGGGCACCAATCGGCGATT+AGG - Chr6:11386215-11386234 None:intergenic 60.0%
GACGAAGACACGAGACCTGG+TGG + Chr6:11386516-11386535 MsG0680030905.01.T01:CDS 60.0%
TCCGGCGCAGATGCTTTCAG+TGG - Chr6:11386301-11386320 None:intergenic 60.0%
GCCGACGAAGACACGAGACC+TGG + Chr6:11386513-11386532 MsG0680030905.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 11386069 11386602 11386069 ID=MsG0680030905.01;Name=MsG0680030905.01
Chr6 mRNA 11386069 11386602 11386069 ID=MsG0680030905.01.T01;Parent=MsG0680030905.01;Name=MsG0680030905.01.T01;_AED=0.50;_eAED=0.51;_QI=0|0|0|1|1|1|2|0|131
Chr6 exon 11386069 11386232 11386069 ID=MsG0680030905.01.T01:exon:8433;Parent=MsG0680030905.01.T01
Chr6 exon 11386371 11386602 11386371 ID=MsG0680030905.01.T01:exon:8434;Parent=MsG0680030905.01.T01
Chr6 CDS 11386069 11386232 11386069 ID=MsG0680030905.01.T01:cds;Parent=MsG0680030905.01.T01
Chr6 CDS 11386371 11386602 11386371 ID=MsG0680030905.01.T01:cds;Parent=MsG0680030905.01.T01
Gene Sequence

>MsG0680030905.01.T01

ATGACCGCAGAAAAACTATTAGAGTTTGCTTGGGGTTTGGCCAATAGCAAGCAACATTTTTTATGGATCATTAGGCCTGATCTTGCCATTATCAGTTCCGTGGTTTTGTCATCTGAGTTTAAGAATGAAATTTCAGATAGAGGCCTAATCGCCGATTGGTGCCCATATATTTGCAATGAATGGGAGATTGGCATGGAAATTGACTCCAATGTGAAGAGAGATGAGGTGGAGAATTTGGTCAATGAATTGATGGTGGGAGAGAAAGGAAAGAAGATGAGGAAAAAGATAATTGAGATGAAGAAGAAGGCCGACGAAGACACGAGACCTGGTGGTTGTTCATACATGAACTTGGAAAAAGTGATTAAGGAGGTTTTTCTTAAACAAAATCAATTCTAA

Protein sequence

>MsG0680030905.01.T01

MTAEKLLEFAWGLANSKQHFLWIIRPDLAIISSVVLSSEFKNEISDRGLIADWCPYICNEWEIGMEIDSNVKRDEVENLVNELMVGEKGKKMRKKIIEMKKKADEDTRPGGCSYMNLEKVIKEVFLKQNQF*