AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038119

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038119 MtrunA17_Chr7g0243081 93.220 354 18 2 1 350 1 352 0.0 646
MsaG038119 MtrunA17_Chr8g0379121 57.983 119 43 2 21 132 58 176 2.52e-37 139
MsaG038119 MtrunA17_Chr2g0320231 73.494 83 22 0 50 132 80 162 2.78e-37 137
MsaG038119 MtrunA17_Chr2g0288601 75.362 69 17 0 50 118 54 122 6.21e-32 116
MsaG038119 MtrunA17_Chr2g0283951 68.605 86 23 1 50 131 72 157 9.79e-32 122
MsaG038119 MtrunA17_Chr1g0210911 72.727 66 18 0 58 123 13 78 1.88e-28 113
MsaG038119 MtrunA17_Chr1g0162931 65.278 72 25 0 52 123 3 74 4.41e-28 110
MsaG038119 MtrunA17_Chr6g0479431 55.294 85 31 1 66 150 201 278 3.18e-23 99.0
MsaG038119 MtrunA17_Chr8g0366281 44.144 111 58 1 35 141 137 247 1.27e-22 97.4
MsaG038119 MtrunA17_Chr1g0154261 59.211 76 29 1 66 141 125 198 1.91e-22 95.9
MsaG038119 MtrunA17_Chr5g0410741 56.098 82 35 1 61 141 212 293 4.58e-22 96.3
MsaG038119 MtrunA17_Chr3g0095611 42.105 114 56 3 49 162 1 104 7.41e-22 92.0
MsaG038119 MtrunA17_Chr3g0109981 64.179 67 23 1 61 126 267 333 2.32e-21 94.7
MsaG038119 MtrunA17_Chr7g0261911 64.286 56 20 0 68 123 263 318 5.04e-19 88.2
MsaG038119 MtrunA17_Chr6g0461641 66.038 53 18 0 68 120 43 95 1.45e-18 86.3
MsaG038119 MtrunA17_Chr1g0190301 62.500 56 21 0 68 123 176 231 1.74e-18 85.9
MsaG038119 MtrunA17_Chr2g0321461 62.500 56 21 0 68 123 46 101 2.27e-18 85.5
MsaG038119 MtrunA17_Chr7g0274471 62.500 56 21 0 68 123 219 274 2.34e-18 85.9
MsaG038119 MtrunA17_Chr5g0409731 62.069 58 22 0 63 120 21 78 2.82e-18 84.0
MsaG038119 MtrunA17_Chr7g0258551 49.367 79 39 1 63 140 208 286 3.66e-18 84.7
MsaG038119 MtrunA17_Chr7g0254981 55.224 67 30 0 59 125 42 108 9.14e-18 82.4
MsaG038119 MtrunA17_Chr1g0197171 60.714 56 22 0 68 123 45 100 5.65e-17 80.1
MsaG038119 MtrunA17_Chr2g0290991 60.714 56 22 0 68 123 40 95 6.56e-17 80.5
MsaG038119 MtrunA17_Chr5g0417521 56.604 53 23 0 68 120 16 68 1.38e-16 79.7
MsaG038119 MtrunA17_Chr2g0291021 61.404 57 22 0 69 125 51 107 1.67e-16 79.3
MsaG038119 MtrunA17_Chr1g0175091 52.055 73 34 1 69 140 260 332 2.28e-16 79.7
MsaG038119 MtrunA17_Chr1g0175081 56.364 55 24 0 69 123 24 78 3.10e-16 73.6
MsaG038119 MtrunA17_Chr8g0356501 55.357 56 25 0 68 123 38 93 1.17e-15 77.0
MsaG038119 MtrunA17_Chr2g0310011 55.357 56 25 0 68 123 36 91 2.71e-15 75.9
MsaG038119 MtrunA17_Chr4g0042451 55.357 56 25 0 68 123 18 73 3.83e-15 75.5
MsaG038119 MtrunA17_Chr7g0242521 56.667 60 23 1 69 125 15 74 2.96e-13 68.6
MsaG038119 MtrunA17_Chr4g0009901 51.786 56 26 1 65 120 166 220 9.91e-13 67.8
MsaG038119 MtrunA17_Chr1g0175071 54.717 53 24 0 69 121 179 231 1.38e-12 67.8
MsaG038119 MtrunA17_Chr4g0045361 45.205 73 31 1 57 120 255 327 2.54e-12 67.4
MsaG038119 MtrunA17_Chr4g0031961 48.684 76 37 2 46 120 109 183 6.80e-12 65.5
MsaG038119 MtrunA17_Chr2g0304841 39.316 117 57 6 66 178 212 318 8.53e-12 66.2
MsaG038119 MtrunA17_Chr4g0062921 55.769 52 23 0 69 120 237 288 9.72e-12 65.9
MsaG038119 MtrunA17_Chr7g0258531 49.231 65 33 0 69 133 215 279 1.76e-11 64.7
MsaG038119 MtrunA17_Chr7g0275401 36.842 114 48 4 31 122 135 246 2.94e-11 63.5
MsaG038119 MtrunA17_Chr5g0422621 55.102 49 22 0 72 120 203 251 8.00e-11 62.8
MsaG038119 MtrunA17_Chr1g0198601 55.102 49 22 0 72 120 216 264 8.06e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038119 AT2G38300.1 42.025 326 153 14 44 350 32 340 2.75e-57 189
MsaG038119 AT2G40260.1 63.889 108 37 1 50 157 65 170 3.64e-39 144
MsaG038119 AT2G42660.1 78.788 66 14 0 59 124 42 107 1.98e-31 119
MsaG038119 AT2G02060.2 65.432 81 28 0 40 120 2 82 1.45e-29 114
MsaG038119 AT2G02060.1 65.432 81 28 0 40 120 2 82 1.45e-29 114
MsaG038119 AT4G04605.1 59.302 86 33 1 55 138 2 87 1.59e-28 110
MsaG038119 AT1G14600.1 68.657 67 21 0 59 125 15 81 1.87e-28 111
MsaG038119 AT4G04580.1 58.209 67 28 0 57 123 4 70 3.37e-23 95.1
MsaG038119 AT5G42630.2 67.213 61 20 0 66 126 104 164 2.30e-22 94.4
MsaG038119 AT5G42630.1 67.213 61 20 0 66 126 104 164 2.42e-22 95.5
MsaG038119 AT1G32240.1 54.878 82 36 1 61 141 206 287 9.12e-22 95.5
MsaG038119 AT1G32240.2 54.878 82 36 1 61 141 206 287 1.10e-21 95.1
MsaG038119 AT4G04555.1 60.000 65 26 0 59 123 6 70 1.61e-21 88.6
MsaG038119 AT5G16560.1 58.108 74 30 1 61 133 212 285 5.75e-21 93.6
MsaG038119 AT4G17695.1 62.295 61 23 0 66 126 163 223 4.19e-20 90.1
MsaG038119 AT5G45580.1 62.069 58 22 0 63 120 3 60 1.87e-18 84.3
MsaG038119 AT5G45580.2 62.069 58 22 0 63 120 19 76 2.27e-18 84.3
MsaG038119 AT3G04030.1 58.929 56 23 0 68 123 46 101 1.64e-17 83.2
MsaG038119 AT3G04030.3 58.929 56 23 0 68 123 46 101 1.97e-17 83.2
MsaG038119 AT3G04450.3 49.333 75 30 1 57 123 220 294 2.33e-17 82.0
MsaG038119 AT3G04450.4 49.333 75 30 1 57 123 180 254 2.54e-17 82.8
MsaG038119 AT3G04450.2 49.333 75 30 1 57 123 180 254 2.54e-17 82.8
MsaG038119 AT3G04450.1 49.333 75 30 1 57 123 220 294 2.68e-17 83.2
MsaG038119 AT5G18240.2 58.929 56 23 0 68 123 46 101 3.19e-17 82.4
MsaG038119 AT5G18240.3 58.929 56 23 0 68 123 46 101 3.19e-17 82.4
MsaG038119 AT5G29000.1 63.636 55 20 0 69 123 190 244 3.36e-17 82.4
MsaG038119 AT5G29000.3 63.636 55 20 0 69 123 190 244 3.36e-17 82.4
MsaG038119 AT5G29000.4 63.636 55 20 0 69 123 233 287 3.69e-17 81.6
MsaG038119 AT5G18240.5 58.929 56 23 0 68 123 46 101 3.72e-17 82.4
MsaG038119 AT4G28610.1 61.818 55 21 0 69 123 227 281 3.73e-17 82.4
MsaG038119 AT5G18240.1 58.929 56 23 0 68 123 46 101 3.80e-17 82.4
MsaG038119 AT5G18240.4 58.929 56 23 0 68 123 46 101 3.80e-17 82.4
MsaG038119 AT5G29000.2 63.636 55 20 0 69 123 233 287 4.86e-17 82.0
MsaG038119 AT2G01060.1 61.404 57 22 0 69 125 17 73 9.58e-17 79.7
MsaG038119 AT3G12730.1 57.143 56 24 0 68 123 24 79 1.38e-16 78.6
MsaG038119 AT4G13640.1 56.604 53 23 0 68 120 38 90 5.31e-16 77.8
MsaG038119 AT4G13640.2 56.604 53 23 0 68 120 38 90 5.55e-16 77.8
MsaG038119 AT3G24120.1 56.604 53 23 0 68 120 42 94 6.73e-16 77.4
MsaG038119 AT3G24120.2 56.604 53 23 0 68 120 42 94 7.30e-16 77.4
MsaG038119 AT3G13040.3 59.649 57 23 0 69 125 243 299 7.42e-16 79.0
MsaG038119 AT3G13040.1 59.649 57 23 0 69 125 243 299 7.42e-16 79.0
MsaG038119 AT3G13040.2 59.649 57 23 0 69 125 243 299 7.42e-16 79.0
MsaG038119 AT1G79430.2 55.357 56 25 0 68 123 35 90 1.86e-15 77.0
MsaG038119 AT2G20400.1 57.895 57 24 0 69 125 233 289 1.92e-15 77.4
MsaG038119 AT2G20400.2 57.895 57 24 0 69 125 233 289 1.93e-15 77.4
MsaG038119 AT5G06800.3 54.098 61 28 0 69 129 194 254 3.26e-15 75.5
MsaG038119 AT3G04030.2 57.143 56 23 1 68 123 46 100 4.94e-15 75.9
MsaG038119 AT1G69580.1 55.357 56 25 0 68 123 35 90 6.48e-15 75.1
MsaG038119 AT1G69580.2 55.357 56 25 0 68 123 35 90 6.78e-15 75.1
MsaG038119 AT5G06800.2 54.098 61 28 0 69 129 194 254 7.93e-15 75.5
MsaG038119 AT5G06800.1 54.098 61 28 0 69 129 194 254 8.16e-15 75.1
MsaG038119 AT2G06020.1 36.522 115 62 3 15 120 27 139 4.18e-14 72.4
MsaG038119 AT5G59570.2 45.455 88 44 3 35 120 108 193 3.17e-13 69.7
MsaG038119 AT5G59570.1 45.455 88 44 3 35 120 108 193 3.17e-13 69.7
MsaG038119 AT2G40260.2 58.929 56 21 1 102 157 1 54 1.92e-12 67.4
MsaG038119 AT1G25550.1 59.184 49 20 0 72 120 214 262 2.22e-12 67.8
MsaG038119 AT2G03500.1 57.143 49 21 0 72 120 238 286 1.12e-11 65.9
MsaG038119 AT1G25550.2 46.269 67 32 1 72 138 214 276 1.46e-11 64.7
MsaG038119 AT3G46640.2 54.545 55 24 1 66 120 143 196 1.98e-11 64.7
MsaG038119 AT3G46640.1 54.545 55 24 1 66 120 143 196 1.98e-11 64.7
MsaG038119 AT3G46640.3 54.545 55 24 1 66 120 143 196 3.02e-11 64.3
MsaG038119 AT3G62670.1 43.056 72 34 2 53 120 200 268 3.53e-11 64.3

Find 56 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATCAATTGAAGAACCAATTT+TGG 0.129269 7:+71652966 None:intergenic
TGTTGATAGTTCTCTAAAAT+TGG 0.214021 7:+71651885 None:intergenic
CTTCAATTGATGAATATAAA+AGG 0.228877 7:-71652954 MsaT038119.1:CDS
GATATTGATGTTGCTATTAT+TGG 0.260085 7:+71651939 None:intergenic
GAAAGGAGTCAATATTTCTT+TGG 0.270906 7:-71651527 MsaT038119.1:CDS
CTATATGATGATGTTTGATT+TGG 0.300830 7:+71652542 None:intergenic
GAAAAGAAAAGCTTCAAATA+TGG 0.323316 7:-71651716 MsaT038119.1:CDS
TCATGTGAAGAGTCATTTAC+AGG 0.340032 7:-71652919 MsaT038119.1:intron
TGTAGGAGCAACTCCAAAAT+TGG 0.369328 7:-71652979 MsaT038119.1:intron
TAGAATATGTCTCATTCATA+TGG 0.376004 7:+71651498 None:intergenic
AGAAGAACAAGATAGTTCTA+AGG 0.388489 7:-71651557 MsaT038119.1:CDS
GCCTTGAAGCATGGGAAGTT+GGG 0.390047 7:+71652571 None:intergenic
ATTAATTGAAACACTTGCCT+TGG 0.400061 7:+71653484 None:intergenic
TATCACTAAAATTAAATTCA+AGG 0.404007 7:-71651678 MsaT038119.1:CDS
GATCATCTCTTAAAGATTCA+TGG 0.404027 7:+71651818 None:intergenic
TAAAATTGGATGAATCCATT+TGG 0.405764 7:+71651899 None:intergenic
CTTCATGCTGTGCAAAGACT+TGG 0.407098 7:-71653284 MsaT038119.1:CDS
ACCCAACTTCCCATGCTTCA+AGG 0.422458 7:-71652572 MsaT038119.1:CDS
GAATCTAGAGCTGAGTTCTA+TGG 0.429313 7:-71651979 MsaT038119.1:CDS
CAAATCAAACATCATCATAT+AGG 0.434083 7:-71652541 MsaT038119.1:intron
TTTACAGATGTGGATCATAT+GGG 0.447788 7:-71652053 MsaT038119.1:intron
AATCATCTTATGTTTGCAAA+AGG 0.448039 7:-71651585 MsaT038119.1:CDS
TAACAGTGTTGGCTGATCAT+AGG 0.450325 7:-71652634 MsaT038119.1:intron
TAATAGCAACATCAATATCC+AGG 0.451694 7:-71651935 MsaT038119.1:CDS
GAAATGAGATCTTGTGCTCT+TGG 0.453092 7:+71651784 None:intergenic
AGAAAACGAAAATGAAGATC+AGG 0.462194 7:+71653305 None:intergenic
CCAACGTAGCCTAGGCAACT+TGG 0.470061 7:+71653331 None:intergenic
AGCCTTGAAGCATGGGAAGT+TGG 0.470813 7:+71652570 None:intergenic
GGAGTATAGCCTTGAAGCAT+GGG 0.488714 7:+71652563 None:intergenic
ATGAGAGAGGAAGAAACATA+TGG 0.490280 7:-71653518 MsaT038119.1:CDS
TTCAAATATGGATCTTGAGT+TGG 0.495575 7:-71651704 MsaT038119.1:CDS
CATGCTGTGCAAAGACTTGG+TGG 0.512111 7:-71653281 MsaT038119.1:CDS
TGGAGTATAGCCTTGAAGCA+TGG 0.512500 7:+71652562 None:intergenic
GGCAACTTGGATCTAACATA+AGG 0.518664 7:+71653344 None:intergenic
ATGTTAGATCCAAGTTGCCT+AGG 0.523365 7:-71653340 MsaT038119.1:CDS
AGTTCTAAGGAGCAAGAGAA+AGG 0.525178 7:-71651544 MsaT038119.1:CDS
AAAGTAGTTGACACAAATCA+AGG 0.545661 7:-71652763 MsaT038119.1:intron
TGGTGATCATAAATGTATAG+AGG 0.550152 7:-71651650 MsaT038119.1:CDS
TTTGGAAAATACTATGACCC+TGG 0.552012 7:+71651917 None:intergenic
TCAGGAGTCCAACGTAGCCT+AGG 0.559435 7:+71653323 None:intergenic
CCAAGTTGCCTAGGCTACGT+TGG 0.561524 7:-71653331 MsaT038119.1:CDS
TCTTGCCATGTATGAAAACA+TGG 0.579727 7:-71652022 MsaT038119.1:CDS
CATAGGCTTCTTGTAGACAA+TGG 0.581433 7:-71652617 MsaT038119.1:CDS
CTAACATAAGGCCTCACTGA+TGG 0.585574 7:+71653356 None:intergenic
TTACAGATGTGGATCATATG+GGG 0.594097 7:-71652052 MsaT038119.1:intron
AAATTAAATTCAAGGAGCAA+TGG 0.605129 7:-71651670 MsaT038119.1:CDS
TAACTTGCCTGAAAATCAAG+AGG 0.607982 7:-71651755 MsaT038119.1:CDS
ATTCATGGCCACAAAATGAG+AGG 0.620365 7:+71651833 None:intergenic
GATGTGCAAAAGAACAACAA+TGG 0.621747 7:-71653428 MsaT038119.1:CDS
AATAGCAACATCAATATCCA+GGG 0.624382 7:-71651934 MsaT038119.1:CDS
GATGATTGTGAAATTAGTGA+AGG 0.638841 7:-71653458 MsaT038119.1:CDS
ATATGGATCAGAATGTTCCA+AGG 0.643313 7:-71653501 MsaT038119.1:CDS
GTGCAAAAGAACAACAATGG+AGG 0.658548 7:-71653425 MsaT038119.1:CDS
TAGCTAGATGAATATGAGAG+AGG 0.659511 7:-71653531 None:intergenic
ATGCTGTGCAAAGACTTGGT+GGG 0.679037 7:-71653280 MsaT038119.1:CDS
GTGAGAAGAAACCATCAGTG+AGG 0.735513 7:-71653367 MsaT038119.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 71651513 71653546 71651513 ID=MsaG038119
Chr7 mRNA 71651513 71653546 71651513 ID=MsaT038119.1;Parent=MsaG038119
Chr7 exon 71651513 71652068 71651513 ID=MsaT038119.1.exon5;Parent=MsaT038119.1
Chr7 CDS 71651513 71652068 71651513 ID=cds.MsaT038119.1;Parent=MsaT038119.1
Chr7 exon 71652542 71652650 71652542 ID=MsaT038119.1.exon4;Parent=MsaT038119.1
Chr7 CDS 71652542 71652650 71652542 ID=cds.MsaT038119.1;Parent=MsaT038119.1
Chr7 exon 71652764 71652800 71652764 ID=MsaT038119.1.exon3;Parent=MsaT038119.1
Chr7 CDS 71652764 71652800 71652764 ID=cds.MsaT038119.1;Parent=MsaT038119.1
Chr7 exon 71652920 71652996 71652920 ID=MsaT038119.1.exon2;Parent=MsaT038119.1
Chr7 CDS 71652920 71652996 71652920 ID=cds.MsaT038119.1;Parent=MsaT038119.1
Chr7 exon 71653273 71653546 71653273 ID=MsaT038119.1.exon1;Parent=MsaT038119.1
Chr7 CDS 71653273 71653546 71653273 ID=cds.MsaT038119.1;Parent=MsaT038119.1
Gene Sequence

>MsaT038119.1

ATGAATATGAGAGAGGAAGAAACATATGGATCAGAATGTTCCAAGGCAAGTGTTTCAATTAATGAAGATGATTGTGAAATTAGTGAAGGAAATGAAGATGTGCAAAAGAACAACAATGGAGGAATAAGCTCAAGCAATAGTACTATAGAAGAGAATTGTGAGAAGAAACCATCAGTGAGGCCTTATGTTAGATCCAAGTTGCCTAGGCTACGTTGGACTCCTGATCTTCATTTTCGTTTTCTTCATGCTGTGCAAAGACTTGGTGGGCAAGAGAGAGCAACTCCAAAATTGGTTCTTCAATTGATGAATATAAAAGGTTTAAGTATTGCTCATGTGAAGAGTCATTTACAGATGTATAGAAGCAAGAAAGTAGTTGACACAAATCAAGTGTTGGCTGATCATAGGCTTCTTGTAGACAATGGAGACAGAAATGTTTATAATCTCACCCAACTTCCCATGCTTCAAGGCTATACTCCAAATCAAACATCATCATATAGATGTGGATCATATGGGGATGCTTCTCTTGCCATGTATGAAAACATGGTACAAATGAGTTCAATAAGTGAATCTAGAGCTGAGTTCTATGGCAAAATGATTGAGAGAACCAATAATAGCAACATCAATATCCAGGGTCATAGTATTTTCCAAATGGATTCATCCAATTTTAGAGAACTATCAACAACTAAAGTCCATGAACCAAATGAAAATTTCCTCTCATTTTGTGGCCATGAATCTTTAAGAGATGATCTACAAGTTCAGCCAAGAGCACAAGATCTCATTTCGAACGATAACTTGCCTGAAAATCAAGAGGAAGAACTGAAGACAATGAAAAGAAAAGCTTCAAATATGGATCTTGAGTTGGATCTATCACTAAAATTAAATTCAAGGAGCAATGGTGATCATAAATGTATAGAGGAGCATGAAATTGATAGCAATTTATCACTCTCTTTGTATTCTCAATCATCTTATGTTTGCAAAAGGATGAAAGAAGAACAAGATAGTTCTAAGGAGCAAGAGAAAGGAGTCAATATTTCTTTGGATCTAACCATATGA
Protein sequence

>MsaT038119.1

MNMREEETYGSECSKASVSINEDDCEISEGNEDVQKNNNGGISSSNSTIEENCEKKPSVRPYVRSKLPRLRWTPDLHFRFLHAVQRLGGQERATPKLVLQLMNIKGLSIAHVKSHLQMYRSKKVVDTNQVLADHRLLVDNGDRNVYNLTQLPMLQGYTPNQTSSYRCGSYGDASLAMYENMVQMSSISESRAEFYGKMIERTNNSNINIQGHSIFQMDSSNFRELSTTKVHEPNENFLSFCGHESLRDDLQVQPRAQDLISNDNLPENQEEELKTMKRKASNMDLELDLSLKLNSRSNGDHKCIEEHEIDSNLSLSLYSQSSYVCKRMKEEQDSSKEQEKGVNISLDLTI*