AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580027808.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027808.01.T01 MTR_5g076170 94.677 263 10 1 1 259 1 263 1.03e-161 449
MsG0580027808.01.T01 MTR_3g063310 62.162 259 90 4 1 259 2 252 1.41e-96 283
MsG0580027808.01.T01 MTR_1g077560 48.276 261 122 8 1 259 1 250 5.47e-67 208
MsG0580027808.01.T01 MTR_5g087760 38.500 200 116 3 63 259 59 254 1.47e-42 145
MsG0580027808.01.T01 MTR_3g078800 37.566 189 109 4 75 259 69 252 1.39e-34 125
MsG0580027808.01.T01 MTR_2g012550 35.751 193 119 3 70 259 74 264 4.34e-32 119
MsG0580027808.01.T01 MTR_2g011350 32.099 162 103 3 87 245 35 192 2.37e-21 89.0
MsG0580027808.01.T01 MTR_3g078820 32.450 151 95 3 94 241 44 190 2.95e-20 86.3
MsG0580027808.01.T01 MTR_7g106000 31.319 182 112 5 64 237 30 206 1.21e-18 82.4
MsG0580027808.01.T01 MTR_2g100060 33.939 165 105 3 71 233 60 222 4.04e-18 81.6
MsG0580027808.01.T01 MTR_2g090225 30.435 161 109 3 100 259 62 220 8.87e-18 80.1
MsG0580027808.01.T01 MTR_3g078810 37.008 127 77 3 122 246 9 134 9.00e-18 78.2
MsG0580027808.01.T01 MTR_3g074150 27.273 187 119 6 62 244 59 232 1.71e-17 79.7
MsG0580027808.01.T01 MTR_3g104460 27.363 201 133 5 68 259 57 253 2.03e-17 79.7
MsG0580027808.01.T01 MTR_7g105970 27.461 193 133 4 66 253 32 222 4.40e-17 78.2
MsG0580027808.01.T01 MTR_1g057400 30.726 179 115 5 66 237 11 187 1.21e-16 76.6
MsG0580027808.01.T01 MTR_6g071410 31.847 157 95 4 69 218 2 153 1.69e-16 76.3
MsG0580027808.01.T01 MTR_6g070890 31.847 157 95 4 69 218 2 153 1.69e-16 76.3
MsG0580027808.01.T01 MTR_6g070900 34.395 157 91 7 69 218 2 153 2.47e-16 75.9
MsG0580027808.01.T01 MTR_6g071400 34.395 157 91 7 69 218 2 153 2.47e-16 75.9
MsG0580027808.01.T01 MTR_1g057270 27.746 173 115 5 93 258 74 243 6.97e-16 75.1
MsG0580027808.01.T01 MTR_2g086790 25.641 195 132 2 76 257 19 213 1.38e-15 73.9
MsG0580027808.01.T01 MTR_4g119428 32.979 188 114 7 66 245 41 224 1.41e-15 74.3
MsG0580027808.01.T01 MTR_7g106050 29.379 177 124 1 77 253 22 197 3.30e-15 72.8
MsG0580027808.01.T01 MTR_7g106120 33.871 124 75 3 62 179 4 126 7.42e-15 71.6
MsG0580027808.01.T01 MTR_7g106010 30.097 206 123 8 66 257 29 227 1.75e-14 70.9
MsG0580027808.01.T01 MTR_6g471090 31.788 151 92 5 69 218 11 151 5.18e-14 69.3
MsG0580027808.01.T01 MTR_7g106030 29.064 203 133 7 51 245 16 215 5.20e-14 69.7
MsG0580027808.01.T01 MTR_8g016370 28.571 196 110 5 43 233 25 195 1.15e-13 68.6
MsG0580027808.01.T01 MTR_4g051880 30.769 169 106 4 99 257 44 211 1.23e-13 68.6
MsG0580027808.01.T01 MTR_2g087000 25.568 176 127 4 71 245 45 217 2.63e-11 62.4
MsG0580027808.01.T01 MTR_8g090320 25.888 197 123 6 65 256 79 257 2.84e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580027808.01.T01 AT1G65690 51.504 266 108 4 1 259 1 252 2.56e-87 260
MsG0580027808.01.T01 AT5G36970 52.510 259 112 5 1 259 1 248 1.62e-85 255
MsG0580027808.01.T01 AT1G54540 44.788 259 123 4 1 259 1 239 3.90e-62 195
MsG0580027808.01.T01 AT2G27080 37.500 192 116 3 63 253 65 253 1.45e-39 138
MsG0580027808.01.T01 AT2G27080 37.500 192 116 3 63 253 65 253 1.45e-39 138
MsG0580027808.01.T01 AT5G21130 28.311 219 145 3 41 247 52 270 1.13e-26 105
MsG0580027808.01.T01 AT3G11650 31.776 214 136 5 40 245 13 224 4.48e-25 100
MsG0580027808.01.T01 AT5G06320 35.542 166 100 5 76 237 48 210 3.39e-24 97.4
MsG0580027808.01.T01 AT2G35980 35.260 173 103 5 66 233 31 199 2.11e-22 92.4
MsG0580027808.01.T01 AT2G35460 31.325 166 107 4 76 237 54 216 6.48e-21 89.0
MsG0580027808.01.T01 AT3G52470 29.050 179 124 3 78 255 22 198 7.33e-17 77.4
MsG0580027808.01.T01 AT5G22870 27.778 180 127 2 74 253 27 203 9.10e-17 77.0
MsG0580027808.01.T01 AT3G11660 26.087 184 134 1 76 257 18 201 5.22e-16 75.1
MsG0580027808.01.T01 AT4G09590 29.787 188 120 4 74 255 20 201 8.19e-16 74.3
MsG0580027808.01.T01 AT2G35970 29.787 188 120 4 74 255 20 201 6.06e-15 72.0
MsG0580027808.01.T01 AT2G35960 28.488 172 111 4 90 255 35 200 2.21e-14 70.5
MsG0580027808.01.T01 AT2G22180 27.536 207 124 6 58 258 104 290 1.08e-13 69.7
MsG0580027808.01.T01 AT3G44220 29.032 155 104 1 85 233 23 177 5.70e-13 66.6
MsG0580027808.01.T01 AT1G17620 26.667 180 114 3 66 233 55 228 6.62e-13 67.4
MsG0580027808.01.T01 AT5G53730 27.389 157 106 3 86 237 37 190 3.16e-12 64.7
MsG0580027808.01.T01 AT5G06330 28.082 146 103 1 95 238 39 184 5.05e-12 63.9

Find 42 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAACCCTGAAATTAATTT+TGG 0.050421 5:-68865127 None:intergenic
AGTTCATCGACTGAGTATTT+TGG 0.228141 5:-68864760 None:intergenic
CTAATAATTCTATTAGAATT+AGG 0.234955 5:+68865178 MsG0580027808.01.T01:CDS
GGAGCAGTAGTTGTAAATTT+AGG 0.237234 5:+68865199 MsG0580027808.01.T01:CDS
TTGTGACCTTGATAGAATTT+AGG 0.240879 5:-68864946 None:intergenic
AGAAATCCAAACAAGAAAAT+TGG 0.264628 5:+68864853 MsG0580027808.01.T01:CDS
AGCTTCCCAAAATTAATTTC+AGG 0.315887 5:+68865121 MsG0580027808.01.T01:CDS
GGAGGACCATGTTGTTGTTC+AGG 0.329559 5:-68864559 None:intergenic
CCAAAATTAATTTCAGGGTT+AGG 0.341912 5:+68865127 MsG0580027808.01.T01:CDS
TTTGATTGATTAATAGGAAT+AGG 0.363545 5:-68864610 None:intergenic
GGCAAAGTTTGTTGTGTACT+AGG 0.373858 5:-68864589 None:intergenic
TCTTTCAAACAACAATAGTT+TGG 0.396672 5:+68864801 MsG0580027808.01.T01:CDS
TGTTTCACCTTCAATTTAAG+AGG 0.407730 5:-68865069 None:intergenic
GACATGTTTCTTGGTACTAA+AGG 0.408989 5:-68864523 None:intergenic
GTAGTTGTAAATTTAGGTTT+AGG 0.411847 5:+68865205 MsG0580027808.01.T01:CDS
GTTGCTGCAAATTCTTCTGT+TGG 0.423745 5:+68864656 MsG0580027808.01.T01:CDS
ATAGCACTTGGCATAACAAT+TGG 0.433295 5:+68864706 MsG0580027808.01.T01:CDS
GTTCTTAGTATACCTTTGAC+AGG 0.440681 5:+68864979 MsG0580027808.01.T01:CDS
GTTTGTTGTGTACTAGGAAA+AGG 0.446325 5:-68864583 None:intergenic
GCTTCCCAAAATTAATTTCA+GGG 0.450968 5:+68865122 MsG0580027808.01.T01:CDS
TAGTGTTCCTCTTAAATTGA+AGG 0.472711 5:+68865062 MsG0580027808.01.T01:CDS
GGACAAACACAGAATGCAAC+AGG 0.474658 5:+68865000 MsG0580027808.01.T01:CDS
TTCCCAAGCTTAATCCTCAC+AGG 0.495620 5:-68865093 None:intergenic
CAGGGTTAGGTGTACGATTG+TGG 0.496478 5:+68865140 MsG0580027808.01.T01:CDS
AAAATTGGAATTGACTATAG+AGG 0.508164 5:+68864868 MsG0580027808.01.T01:CDS
TTCTGTGTTTGTCCTGTCAA+AGG 0.510330 5:-68864991 None:intergenic
AACCTGTGAGGATTAAGCTT+GGG 0.519369 5:+68865091 MsG0580027808.01.T01:CDS
TGTTGTGTACTAGGAAAAGG+AGG 0.521253 5:-68864580 None:intergenic
CTTGGTACTAAAGGAGCTGA+AGG 0.525780 5:-68864514 None:intergenic
TCATTACCTAAATTCTATCA+AGG 0.551476 5:+68864940 MsG0580027808.01.T01:CDS
CAACCTGTGAGGATTAAGCT+TGG 0.558142 5:+68865090 MsG0580027808.01.T01:CDS
GTGGAAGTCACATAAGTGCT+TGG 0.572955 5:+68864890 MsG0580027808.01.T01:CDS
ATTGGAATTGACTATAGAGG+TGG 0.594568 5:+68864871 MsG0580027808.01.T01:CDS
GGAGCTGAAGGTTGTTGTTG+AGG 0.616082 5:-68864502 None:intergenic
CAGCAACAAGTTCAATCAGA+GGG 0.624043 5:+68865039 MsG0580027808.01.T01:CDS
ACAGACACAAAATTATGTGA+AGG 0.625562 5:+68864916 MsG0580027808.01.T01:CDS
GCTTCAACATCATGATGAAG+TGG 0.634114 5:-68864478 None:intergenic
GCAGCAACAAGTTCAATCAG+AGG 0.642123 5:+68865038 MsG0580027808.01.T01:CDS
GGTTAGGTGTACGATTGTGG+TGG 0.648867 5:+68865143 MsG0580027808.01.T01:CDS
TGTGTACTAGGAAAAGGAGG+AGG 0.681120 5:-68864577 None:intergenic
TGAAGGTGAAACAACCTGTG+AGG 0.706368 5:+68865079 MsG0580027808.01.T01:CDS
GATGATCCTGAACAACAACA+TGG 0.735600 5:+68864553 MsG0580027808.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CTAATAATTCTATTAGAATT+AGG + Chr5:68865178-68865197 MsG0580027808.01.T01:CDS 15.0%
!! TTTGATTGATTAATAGGAAT+AGG - Chr5:68864613-68864632 None:intergenic 20.0%
! AAAATTGGAATTGACTATAG+AGG + Chr5:68864868-68864887 MsG0580027808.01.T01:CDS 25.0%
! AGAAATCCAAACAAGAAAAT+TGG + Chr5:68864853-68864872 MsG0580027808.01.T01:CDS 25.0%
! TCATTACCTAAATTCTATCA+AGG + Chr5:68864940-68864959 MsG0580027808.01.T01:CDS 25.0%
! TCTTTCAAACAACAATAGTT+TGG + Chr5:68864801-68864820 MsG0580027808.01.T01:CDS 25.0%
!! CTAACCCTGAAATTAATTTT+GGG - Chr5:68865129-68865148 None:intergenic 25.0%
!! GTAGTTGTAAATTTAGGTTT+AGG + Chr5:68865205-68865224 MsG0580027808.01.T01:CDS 25.0%
!! TCAATTCCAATTTTCTTGTT+TGG - Chr5:68864862-68864881 None:intergenic 25.0%
!!! ATATTTTTGATCATAGCACT+TGG + Chr5:68864694-68864713 MsG0580027808.01.T01:CDS 25.0%
!!! GGTAGTTTTGATTGATTAAT+AGG - Chr5:68864619-68864638 None:intergenic 25.0%
ACAGACACAAAATTATGTGA+AGG + Chr5:68864916-68864935 MsG0580027808.01.T01:CDS 30.0%
AGCTTCCCAAAATTAATTTC+AGG + Chr5:68865121-68865140 MsG0580027808.01.T01:CDS 30.0%
CCAAAATTAATTTCAGGGTT+AGG + Chr5:68865127-68865146 MsG0580027808.01.T01:CDS 30.0%
GAATCTTTGGTCTAAAAACA+AGG - Chr5:68864741-68864760 None:intergenic 30.0%
GCTTCCCAAAATTAATTTCA+GGG + Chr5:68865122-68865141 MsG0580027808.01.T01:CDS 30.0%
TAGTGTTCCTCTTAAATTGA+AGG + Chr5:68865062-68865081 MsG0580027808.01.T01:CDS 30.0%
TGTTTCACCTTCAATTTAAG+AGG - Chr5:68865072-68865091 None:intergenic 30.0%
TTGTGACCTTGATAGAATTT+AGG - Chr5:68864949-68864968 None:intergenic 30.0%
! CCTAACCCTGAAATTAATTT+TGG - Chr5:68865130-68865149 None:intergenic 30.0%
!! TCAGATTTTGACATGTTTCT+TGG - Chr5:68864535-68864554 None:intergenic 30.0%
!!! ACTGAGTATTTTGGAATCTT+TGG - Chr5:68864754-68864773 None:intergenic 30.0%
ATAGCACTTGGCATAACAAT+TGG + Chr5:68864706-68864725 MsG0580027808.01.T01:CDS 35.0%
ATTGGAATTGACTATAGAGG+TGG + Chr5:68864871-68864890 MsG0580027808.01.T01:CDS 35.0%
GACATGTTTCTTGGTACTAA+AGG - Chr5:68864526-68864545 None:intergenic 35.0%
GGAGCAGTAGTTGTAAATTT+AGG + Chr5:68865199-68865218 MsG0580027808.01.T01:CDS 35.0%
GTTCTTAGTATACCTTTGAC+AGG + Chr5:68864979-68864998 MsG0580027808.01.T01:CDS 35.0%
! CAACAGCTTCTTCTTTTCTT+TGG - Chr5:68864640-68864659 None:intergenic 35.0%
!! AGTTCATCGACTGAGTATTT+TGG - Chr5:68864763-68864782 None:intergenic 35.0%
!! GTTTGTTGTGTACTAGGAAA+AGG - Chr5:68864586-68864605 None:intergenic 35.0%
AACCTGTGAGGATTAAGCTT+GGG + Chr5:68865091-68865110 MsG0580027808.01.T01:CDS 40.0%
CAGCAACAAGTTCAATCAGA+GGG + Chr5:68865039-68865058 MsG0580027808.01.T01:CDS 40.0%
GATGATCCTGAACAACAACA+TGG + Chr5:68864553-68864572 MsG0580027808.01.T01:CDS 40.0%
GCTTCAACATCATGATGAAG+TGG - Chr5:68864481-68864500 None:intergenic 40.0%
GTTGCTGCAAATTCTTCTGT+TGG + Chr5:68864656-68864675 MsG0580027808.01.T01:CDS 40.0%
TGTTGTGTACTAGGAAAAGG+AGG - Chr5:68864583-68864602 None:intergenic 40.0%
TTCTGTGTTTGTCCTGTCAA+AGG - Chr5:68864994-68865013 None:intergenic 40.0%
!! GGCAAAGTTTGTTGTGTACT+AGG - Chr5:68864592-68864611 None:intergenic 40.0%
CAACCTGTGAGGATTAAGCT+TGG + Chr5:68865090-68865109 MsG0580027808.01.T01:CDS 45.0%
CTTGGTACTAAAGGAGCTGA+AGG - Chr5:68864517-68864536 None:intergenic 45.0%
GCAGCAACAAGTTCAATCAG+AGG + Chr5:68865038-68865057 MsG0580027808.01.T01:CDS 45.0%
GGACAAACACAGAATGCAAC+AGG + Chr5:68865000-68865019 MsG0580027808.01.T01:CDS 45.0%
GTGGAAGTCACATAAGTGCT+TGG + Chr5:68864890-68864909 MsG0580027808.01.T01:CDS 45.0%
TGAAGGTGAAACAACCTGTG+AGG + Chr5:68865079-68865098 MsG0580027808.01.T01:CDS 45.0%
TGTGTACTAGGAAAAGGAGG+AGG - Chr5:68864580-68864599 None:intergenic 45.0%
TTCCCAAGCTTAATCCTCAC+AGG - Chr5:68865096-68865115 None:intergenic 45.0%
CAGGGTTAGGTGTACGATTG+TGG + Chr5:68865140-68865159 MsG0580027808.01.T01:CDS 50.0%
GGTTAGGTGTACGATTGTGG+TGG + Chr5:68865143-68865162 MsG0580027808.01.T01:CDS 50.0%
! GGAGCTGAAGGTTGTTGTTG+AGG - Chr5:68864505-68864524 None:intergenic 50.0%
! GGAGGACCATGTTGTTGTTC+AGG - Chr5:68864562-68864581 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr5 gene 68864454 68865233 68864454 ID=MsG0580027808.01;Name=MsG0580027808.01
Chr5 mRNA 68864454 68865233 68864454 ID=MsG0580027808.01.T01;Parent=MsG0580027808.01;Name=MsG0580027808.01.T01;_AED=0.18;_eAED=0.18;_QI=0|-1|0|1|-1|1|1|0|259
Chr5 exon 68864454 68865233 68864454 ID=MsG0580027808.01.T01:exon:14447;Parent=MsG0580027808.01.T01
Chr5 CDS 68864454 68865233 68864454 ID=MsG0580027808.01.T01:cds;Parent=MsG0580027808.01.T01
Gene Sequence

>MsG0580027808.01.T01

ATGGCAGATAATCAAAGAATTCATCCACTTCATCATGATGTTGAAGCACCTCAACAACAACCTTCAGCTCCTTTAGTACCAAGAAACATGTCAAAATCTGATGATCCTGAACAACAACATGGTCCTCCTCCTTTTCCTAGTACACAACAAACTTTGCCTATTCCTATTAATCAATCAAAACTACCAAAGAAAAGAAGAAGCTGTTGCTGCAAATTCTTCTGTTGGATTTTCAGCATACTAATATTTTTGATCATAGCACTTGGCATAACAATTGGAATACTCTTCCTTGTTTTTAGACCAAAGATTCCAAAATACTCAGTCGATGAACTACGTGTCACGCAATTCGATCTTTCAAACAACAATAGTTTGGCAGTCACATTCAACTTAACATTCACTGCAAGAAATCCAAACAAGAAAATTGGAATTGACTATAGAGGTGGAAGTCACATAAGTGCTTGGTATACAGACACAAAATTATGTGAAGGATCATTACCTAAATTCTATCAAGGTCACAAAAATGTTACTGTTCTTAGTATACCTTTGACAGGACAAACACAGAATGCAACAGGTTTGAGAGATTCATTGCAGCAACAAGTTCAATCAGAGGGTAGTGTTCCTCTTAAATTGAAGGTGAAACAACCTGTGAGGATTAAGCTTGGGAAATTGAAGCTTCCCAAAATTAATTTCAGGGTTAGGTGTACGATTGTGGTGGATAGTCTTAGTGCTAATAATTCTATTAGAATTAGGAGCAGTAGTTGTAAATTTAGGTTTAGGCTTTGA

Protein sequence

>MsG0580027808.01.T01

MADNQRIHPLHHDVEAPQQQPSAPLVPRNMSKSDDPEQQHGPPPFPSTQQTLPIPINQSKLPKKRRSCCCKFFCWIFSILIFLIIALGITIGILFLVFRPKIPKYSVDELRVTQFDLSNNNSLAVTFNLTFTARNPNKKIGIDYRGGSHISAWYTDTKLCEGSLPKFYQGHKNVTVLSIPLTGQTQNATGLRDSLQQQVQSEGSVPLKLKVKQPVRIKLGKLKLPKINFRVRCTIVVDSLSANNSIRIRSSSCKFRFRL*