AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene43840

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43840.t1 MTR_1g041150 94.706 170 9 0 1 170 1 170 1.33e-101 303
MS.gene43840.t1 MTR_1g054865 44.601 213 75 5 1 170 1 213 3.41e-43 151
MS.gene43840.t1 MTR_1g055255 48.649 185 71 8 1 170 1 176 1.70e-38 138
MS.gene43840.t1 MTR_7g106710 35.450 189 101 5 1 170 1 187 1.24e-25 101
MS.gene43840.t1 MTR_7g106710 35.450 189 101 5 1 170 1 187 1.43e-25 102
MS.gene43840.t1 MTR_7g106710 35.450 189 101 5 1 170 1 187 1.64e-25 102
MS.gene43840.t1 MTR_7g106710 35.450 189 101 5 1 170 1 187 1.83e-25 102
MS.gene43840.t1 MTR_7g106730 38.235 170 75 5 1 170 1 140 1.87e-25 100
MS.gene43840.t1 MTR_5g099240 67.692 65 21 0 106 170 12 76 2.54e-24 98.6
MS.gene43840.t1 MTR_5g099240 67.692 65 21 0 106 170 84 148 3.79e-24 98.2
MS.gene43840.t1 MTR_3g051770 44.545 110 47 2 61 170 41 136 2.39e-22 93.2
MS.gene43840.t1 MTR_0028s0170 58.750 80 31 1 91 170 53 130 4.21e-22 92.4
MS.gene43840.t1 MTR_5g089320 61.765 68 26 0 103 170 53 120 8.83e-22 91.3
MS.gene43840.t1 MTR_1g096490 56.471 85 33 1 86 170 2 82 1.04e-21 91.3
MS.gene43840.t1 MTR_5g092810 50.617 81 35 1 90 170 69 144 2.30e-21 90.1
MS.gene43840.t1 MTR_5g092815 49.383 81 36 1 90 170 68 143 6.98e-21 88.2
MS.gene43840.t1 MTR_3g098070 61.538 65 25 0 106 170 17 81 7.10e-21 87.8
MS.gene43840.t1 MTR_3g098070 61.538 65 25 0 106 170 17 81 2.30e-20 87.4
MS.gene43840.t1 MTR_4g132070 56.061 66 29 0 105 170 78 143 3.90e-20 86.7
MS.gene43840.t1 MTR_8g095440 60.294 68 27 0 103 170 15 82 7.51e-20 85.5
MS.gene43840.t1 MTR_3g098090 60.000 65 26 0 106 170 20 84 1.20e-19 85.1
MS.gene43840.t1 MTR_8g095440 60.294 68 27 0 103 170 15 82 2.33e-19 84.3
MS.gene43840.t1 MTR_1g026190 55.385 65 29 0 106 170 66 130 7.77e-19 83.2
MS.gene43840.t1 MTR_4g066660 50.000 84 40 1 89 170 41 124 2.17e-17 79.0
MS.gene43840.t1 MTR_4g132040 48.485 66 34 0 105 170 82 147 3.37e-17 78.2
MS.gene43840.t1 MTR_8g099095 50.769 65 32 0 106 170 54 118 3.86e-17 78.2
MS.gene43840.t1 MTR_7g091890 53.731 67 30 1 105 170 44 110 5.42e-16 74.7
MS.gene43840.t1 MTR_1g052530 46.667 90 46 2 82 170 16 104 6.01e-16 74.7
MS.gene43840.t1 MTR_1g052530 46.667 90 46 2 82 170 16 104 6.48e-16 74.7
MS.gene43840.t1 MTR_7g091890 53.731 67 30 1 105 170 44 110 1.08e-15 73.9
MS.gene43840.t1 MTR_4g107490 62.264 53 20 0 118 170 73 125 1.69e-15 73.6
MS.gene43840.t1 MTR_7g068710 36.538 104 63 1 67 170 8 108 6.91e-15 71.6
MS.gene43840.t1 MTR_1g026075 42.647 68 39 0 103 170 59 126 1.34e-14 69.3
MS.gene43840.t1 MTR_1g101630 50.000 62 31 0 109 170 32 93 1.24e-13 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43840.t1 AT5G04870 54.634 205 55 5 1 170 1 202 1.01e-59 195
MS.gene43840.t1 AT3G10660 44.215 242 59 6 1 170 1 238 1.00e-48 167
MS.gene43840.t1 AT3G10660 44.215 242 59 6 1 170 1 238 1.00e-48 167
MS.gene43840.t1 AT2G38910 45.685 197 69 4 1 170 1 186 5.95e-45 155
MS.gene43840.t1 AT2G35890 64.286 84 30 0 87 170 101 184 1.32e-30 116
MS.gene43840.t1 AT2G35890 64.286 84 30 0 87 170 101 184 1.32e-30 116
MS.gene43840.t1 AT5G12180 54.945 91 40 1 80 170 36 125 1.93e-24 99.0
MS.gene43840.t1 AT2G17290 67.692 65 21 0 106 170 73 137 2.02e-24 99.0
MS.gene43840.t1 AT2G17290 67.692 65 21 0 106 170 73 137 2.02e-24 99.0
MS.gene43840.t1 AT4G35310 67.692 65 21 0 106 170 85 149 2.70e-24 98.6
MS.gene43840.t1 AT4G35310 67.692 65 21 0 106 170 85 149 2.70e-24 98.6
MS.gene43840.t1 AT4G38230 67.692 65 21 0 106 170 12 76 1.28e-23 96.7
MS.gene43840.t1 AT4G38230 67.692 65 21 0 106 170 12 76 1.28e-23 96.7
MS.gene43840.t1 AT4G38230 67.692 65 21 0 106 170 42 106 1.38e-23 96.7
MS.gene43840.t1 AT4G09570 58.621 87 25 1 84 170 2 77 5.64e-23 94.7
MS.gene43840.t1 AT5G19360 63.235 68 25 0 103 170 53 120 8.82e-23 94.4
MS.gene43840.t1 AT1G35670 58.537 82 23 1 89 170 8 78 3.98e-22 92.4
MS.gene43840.t1 AT4G21940 35.443 158 84 4 24 170 4 154 5.34e-22 92.0
MS.gene43840.t1 AT4G21940 35.443 158 84 4 24 170 4 154 6.24e-22 92.0
MS.gene43840.t1 AT4G21940 35.443 158 84 4 24 170 4 154 6.75e-22 92.0
MS.gene43840.t1 AT3G20410 59.701 67 27 0 104 170 77 143 3.46e-21 89.7
MS.gene43840.t1 AT3G20410 59.701 67 27 0 104 170 77 143 3.46e-21 89.7
MS.gene43840.t1 AT4G04720 58.209 67 28 0 104 170 66 132 9.19e-21 88.6
MS.gene43840.t1 AT4G04720 58.209 67 28 0 104 170 66 132 9.19e-21 88.6
MS.gene43840.t1 AT1G50700 59.091 66 27 0 105 170 60 125 2.56e-20 87.4
MS.gene43840.t1 AT1G50700 59.091 66 27 0 105 170 60 125 2.57e-20 87.0
MS.gene43840.t1 AT1G50700 59.091 66 27 0 105 170 60 125 2.74e-20 87.4
MS.gene43840.t1 AT1G76040 41.905 105 61 0 66 170 60 164 1.33e-19 85.5
MS.gene43840.t1 AT1G76040 41.905 105 61 0 66 170 60 164 1.52e-19 85.1
MS.gene43840.t1 AT5G23580 63.077 65 24 0 106 170 10 74 3.30e-19 84.0
MS.gene43840.t1 AT1G61950 58.462 65 27 0 106 170 86 150 9.17e-19 82.8
MS.gene43840.t1 AT5G12480 41.905 105 59 2 67 170 8 111 8.03e-18 80.1
MS.gene43840.t1 AT5G19450 53.731 67 30 1 105 170 43 109 6.44e-17 77.4
MS.gene43840.t1 AT5G19450 53.731 67 30 1 105 170 43 109 6.44e-17 77.4
MS.gene43840.t1 AT2G41860 54.545 66 29 1 106 170 41 106 4.37e-16 75.1
MS.gene43840.t1 AT2G41860 54.545 66 29 1 106 170 41 106 4.41e-16 75.1
MS.gene43840.t1 AT3G57530 58.491 53 22 0 118 170 63 115 2.48e-15 73.2
MS.gene43840.t1 AT3G57530 58.491 53 22 0 118 170 63 115 2.58e-15 72.8
MS.gene43840.t1 AT4G04710 50.746 67 33 0 104 170 22 88 3.56e-15 72.4
MS.gene43840.t1 AT4G04710 50.746 67 33 0 104 170 22 88 3.66e-15 72.4
MS.gene43840.t1 AT4G04710 50.746 67 33 0 104 170 22 88 3.85e-15 72.4
MS.gene43840.t1 AT4G23650 50.769 65 32 0 106 170 66 130 7.38e-15 71.6
MS.gene43840.t1 AT1G74740 60.377 53 21 0 118 170 59 111 1.33e-14 70.9
MS.gene43840.t1 AT3G51850 53.448 58 27 0 113 170 49 106 1.34e-14 70.9
MS.gene43840.t1 AT1G18890 58.491 53 22 0 118 170 63 115 1.53e-14 70.9
MS.gene43840.t1 AT3G51850 53.448 58 27 0 113 170 49 106 2.02e-14 70.5
MS.gene43840.t1 AT3G51850 53.448 58 27 0 113 170 49 106 2.06e-14 70.5
MS.gene43840.t1 AT2G31500 60.377 53 21 0 118 170 66 118 2.79e-14 70.1
MS.gene43840.t1 AT4G04695 48.485 66 34 0 105 170 15 80 3.95e-13 66.6
MS.gene43840.t1 AT4G04700 46.970 66 35 0 105 170 15 80 7.96e-13 65.9
MS.gene43840.t1 AT1G12580 50.000 58 29 0 113 170 39 96 1.94e-12 64.7
MS.gene43840.t1 AT5G66210 44.828 58 32 0 113 170 57 114 6.86e-11 60.1
MS.gene43840.t1 AT5G66210 44.828 58 32 0 113 170 57 114 7.13e-11 60.1
MS.gene43840.t1 AT5G66210 44.828 58 32 0 113 170 57 114 7.57e-11 60.1
MS.gene43840.t1 AT5G66210 44.828 58 32 0 113 170 57 114 7.57e-11 60.1

Find 35 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAGAATTCCTTGAAATTAC+CGG 0.332136 2.2:-5962395 None:intergenic
AAACTCGGACAGGGTCAGTT+TGG 0.332602 2.2:+5962430 MS.gene43840:CDS
TGAACAGACAAAGCAGATTC+CGG 0.364101 2.2:-5962211 None:intergenic
GCAGATAACTATGCCGAAAC+TGG 0.366985 2.2:+5962249 MS.gene43840:CDS
ATCTATTGCGAAGAGGAAAT+TGG 0.384167 2.2:+5962504 MS.gene43840:CDS
TTGTGTATCGAGAAAGCAAC+TGG 0.388320 2.2:+5962463 MS.gene43840:CDS
AACTCGGACAGGGTCAGTTT+GGG 0.395166 2.2:+5962431 MS.gene43840:CDS
GACGAAATCAGAACCGGAAT+CGG 0.421137 2.2:+5962285 MS.gene43840:CDS
ATCAGAACCGGAATCGGAAA+AGG 0.438212 2.2:+5962291 MS.gene43840:CDS
GGTCCTAGCATTTCAAAGAA+TGG 0.448561 2.2:+5962082 MS.gene43840:CDS
TCTGTGTTGCAGAGAGAAAC+CGG 0.482910 2.2:+5962376 MS.gene43840:CDS
TTCGGCATAGTTATCTGCTC+AGG 0.484258 2.2:-5962244 None:intergenic
TCAAGGAATTCTATAGTCTA+GGG 0.487593 2.2:+5962404 MS.gene43840:CDS
TTCAAGGAATTCTATAGTCT+AGG 0.497278 2.2:+5962403 MS.gene43840:CDS
ACAAGAGACGAAATCAGAAC+CGG 0.504457 2.2:+5962279 MS.gene43840:CDS
GAGAGAAACCGGTAATTTCA+AGG 0.506353 2.2:+5962387 MS.gene43840:CDS
GAAGGATCAGTGTCTAATAG+AGG 0.533125 2.2:+5962157 MS.gene43840:CDS
ATACCATTCTTTGAAATGCT+AGG 0.533473 2.2:-5962085 None:intergenic
GAGAAATTCAGATAATGTGA+TGG 0.537659 2.2:+5962557 MS.gene43840:CDS
TAATAGAGGATCAGTAAATG+AGG 0.554878 2.2:+5962171 MS.gene43840:CDS
AAAAGGAGAAGAAGAAACAC+AGG 0.559009 2.2:+5962308 MS.gene43840:CDS
GTGAAGAGAAGTTCTAGTGC+AGG 0.564862 2.2:+5962340 MS.gene43840:CDS
GGCATAGTTATCTGCTCAGG+AGG 0.567661 2.2:-5962241 None:intergenic
TCACAACCGCTTGATGCTGA+AGG 0.579712 2.2:+5962139 MS.gene43840:CDS
CACATCCTCGACATCCTCAT+CGG 0.581233 2.2:-5962530 None:intergenic
AATAGAGGATCAGTAAATGA+GGG 0.594999 2.2:+5962172 MS.gene43840:CDS
CTTGTAAATCTATTGCGAAG+AGG 0.597406 2.2:+5962497 MS.gene43840:CDS
CTAGAACTTCTCTTCACAGA+AGG 0.611537 2.2:-5962334 None:intergenic
GGGGACGACTGATAATGAGC+CGG 0.632139 2.2:+5962192 MS.gene43840:CDS
GGTAACCGATGAGGATGTCG+AGG 0.651404 2.2:+5962525 MS.gene43840:CDS
GAGGAAATTGGTAACCGATG+AGG 0.661550 2.2:+5962516 MS.gene43840:CDS
ACTGATCCTTCAGCATCAAG+CGG 0.665563 2.2:-5962145 None:intergenic
AAAATGGGGAATGCATGTGT+TGG 0.669388 2.2:+5962061 None:intergenic
ATAGAGGATCAGTAAATGAG+GGG 0.684109 2.2:+5962173 MS.gene43840:CDS
TGTGTATCGAGAAAGCAACT+GGG 0.703453 2.2:+5962464 MS.gene43840:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATAGAATTCCTTGAAATTAC+CGG - chr2.2:5962398-5962417 None:intergenic 25.0%
AATAGAGGATCAGTAAATGA+GGG + chr2.2:5962172-5962191 MS.gene43840:CDS 30.0%
TAATAGAGGATCAGTAAATG+AGG + chr2.2:5962171-5962190 MS.gene43840:CDS 30.0%
TATAGTCTAGGGAAAAAACT+CGG + chr2.2:5962415-5962434 MS.gene43840:CDS 30.0%
TCAAGGAATTCTATAGTCTA+GGG + chr2.2:5962404-5962423 MS.gene43840:CDS 30.0%
TTCAAGGAATTCTATAGTCT+AGG + chr2.2:5962403-5962422 MS.gene43840:CDS 30.0%
!! ATACCATTCTTTGAAATGCT+AGG - chr2.2:5962088-5962107 None:intergenic 30.0%
!!! TCTTGTTTTGTTTCCAGTTT+CGG - chr2.2:5962265-5962284 None:intergenic 30.0%
AAAAGGAGAAGAAGAAACAC+AGG + chr2.2:5962308-5962327 MS.gene43840:CDS 35.0%
ATAGAGGATCAGTAAATGAG+GGG + chr2.2:5962173-5962192 MS.gene43840:CDS 35.0%
ATCTATTGCGAAGAGGAAAT+TGG + chr2.2:5962504-5962523 MS.gene43840:CDS 35.0%
CTTGTAAATCTATTGCGAAG+AGG + chr2.2:5962497-5962516 MS.gene43840:CDS 35.0%
! AATCATTTTCTGCTGCGATT+TGG + chr2.2:5962113-5962132 MS.gene43840:CDS 35.0%
ACAAGAGACGAAATCAGAAC+CGG + chr2.2:5962279-5962298 MS.gene43840:CDS 40.0%
CTAGAACTTCTCTTCACAGA+AGG - chr2.2:5962337-5962356 None:intergenic 40.0%
GAAGGATCAGTGTCTAATAG+AGG + chr2.2:5962157-5962176 MS.gene43840:CDS 40.0%
GAGAGAAACCGGTAATTTCA+AGG + chr2.2:5962387-5962406 MS.gene43840:CDS 40.0%
GGTCCTAGCATTTCAAAGAA+TGG + chr2.2:5962082-5962101 MS.gene43840:CDS 40.0%
TGAACAGACAAAGCAGATTC+CGG - chr2.2:5962214-5962233 None:intergenic 40.0%
TGTGTATCGAGAAAGCAACT+GGG + chr2.2:5962464-5962483 MS.gene43840:CDS 40.0%
TTGTGTATCGAGAAAGCAAC+TGG + chr2.2:5962463-5962482 MS.gene43840:CDS 40.0%
! TTCTTCTCCTTTTCCGATTC+CGG - chr2.2:5962301-5962320 None:intergenic 40.0%
ACTGATCCTTCAGCATCAAG+CGG - chr2.2:5962148-5962167 None:intergenic 45.0%
ATCAGAACCGGAATCGGAAA+AGG + chr2.2:5962291-5962310 MS.gene43840:CDS 45.0%
CTAGGGAAAAAACTCGGACA+GGG + chr2.2:5962421-5962440 MS.gene43840:CDS 45.0%
GACGAAATCAGAACCGGAAT+CGG + chr2.2:5962285-5962304 MS.gene43840:CDS 45.0%
GCAGATAACTATGCCGAAAC+TGG + chr2.2:5962249-5962268 MS.gene43840:CDS 45.0%
TCTAGGGAAAAAACTCGGAC+AGG + chr2.2:5962420-5962439 MS.gene43840:CDS 45.0%
TCTGTGTTGCAGAGAGAAAC+CGG + chr2.2:5962376-5962395 MS.gene43840:CDS 45.0%
TTCGGCATAGTTATCTGCTC+AGG - chr2.2:5962247-5962266 None:intergenic 45.0%
! GAGGAAATTGGTAACCGATG+AGG + chr2.2:5962516-5962535 MS.gene43840:CDS 45.0%
! GTGAAGAGAAGTTCTAGTGC+AGG + chr2.2:5962340-5962359 MS.gene43840:CDS 45.0%
AAACTCGGACAGGGTCAGTT+TGG + chr2.2:5962430-5962449 MS.gene43840:CDS 50.0%
AACTCGGACAGGGTCAGTTT+GGG + chr2.2:5962431-5962450 MS.gene43840:CDS 50.0%
CACATCCTCGACATCCTCAT+CGG - chr2.2:5962533-5962552 None:intergenic 50.0%
GGCATAGTTATCTGCTCAGG+AGG - chr2.2:5962244-5962263 None:intergenic 50.0%
TCACAACCGCTTGATGCTGA+AGG + chr2.2:5962139-5962158 MS.gene43840:CDS 50.0%
GGTAACCGATGAGGATGTCG+AGG + chr2.2:5962525-5962544 MS.gene43840:CDS 55.0%
! GGGGACGACTGATAATGAGC+CGG + chr2.2:5962192-5962211 MS.gene43840:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 5962064 5962576 5962064 ID=MS.gene43840
chr2.2 mRNA 5962064 5962576 5962064 ID=MS.gene43840.t1;Parent=MS.gene43840
chr2.2 exon 5962064 5962576 5962064 ID=MS.gene43840.t1.exon1;Parent=MS.gene43840.t1
chr2.2 CDS 5962064 5962576 5962064 ID=cds.MS.gene43840.t1;Parent=MS.gene43840.t1
Gene Sequence

>MS.gene43840

ATGGGGAATGCATGTGTTGGTCCTAGCATTTCAAAGAATGGTATTATTCAATCATTTTCTGCTGCGATTTGGCGATCACAACCGCTTGATGCTGAAGGATCAGTGTCTAATAGAGGATCAGTAAATGAGGGGACGACTGATAATGAGCCGGAATCTGCTTTGTCTGTTCAAAACAAACCTCCTGAGCAGATAACTATGCCGAAACTGGAAACAAAACAAGAGACGAAATCAGAACCGGAATCGGAAAAGGAGAAGAAGAAACACAGGAGACCTTCTGTGAAGAGAAGTTCTAGTGCAGGACTTCTTGTTGATTCTGTGTTGCAGAGAGAAACCGGTAATTTCAAGGAATTCTATAGTCTAGGGAAAAAACTCGGACAGGGTCAGTTTGGGACAACATTCTTGTGTATCGAGAAAGCAACTGGGTATCAGTATGCTTGTAAATCTATTGCGAAGAGGAAATTGGTAACCGATGAGGATGTCGAGGATGTGAGAAGAGAAATTCAGATAATGTGA
Protein sequence

>MS.gene43840.t1

MGNACVGPSISKNGIIQSFSAAIWRSQPLDAEGSVSNRGSVNEGTTDNEPESALSVQNKPPEQITMPKLETKQETKSEPESEKEKKKHRRPSVKRSSSAGLLVDSVLQRETGNFKEFYSLGKKLGQGQFGTTFLCIEKATGYQYACKSIAKRKLVTDEDVEDVRREIQIM