AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene068178


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068178.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene068178.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene068178.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene068178.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene068178.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene068178.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene068178.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene068178.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene068178.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene068178.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene068178.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene068178.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene068178.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene068178.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene068178.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene068178.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene068178.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene068178.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene068178.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene068178.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene068178.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene068178.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene068178.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene068178.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene068178.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene068178.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene068178.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene068178.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene068178.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene068178.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene068178.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene068178.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene068178.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene068178.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene068178.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene068178.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene068178.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene068178.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene068178.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene068178.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 36 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGAAGCTCAGTGCTCTTC+TGG 0.304985 2.3:+55657924 None:intergenic
TCACGAAGTGCGACGGTTCC+TGG 0.318785 2.3:+55657959 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 2.3:-55657803 MS.gene068178:CDS
GAAGCTTCCATTTCAAAGAT+TGG 0.365481 2.3:-55657897 MS.gene068178:CDS
TCTCGAACCAATCTTTGAAA+TGG 0.396886 2.3:+55657890 None:intergenic
CGGAAATCCGCTCCGGCGAC+CGG 0.429737 2.3:-55658010 MS.gene068178:CDS
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 2.3:+55657998 None:intergenic
CTCGCAAGTTGAATATCCTT+AGG 0.495447 2.3:+55657725 None:intergenic
GAGCAGAAACAGCACTACTC+TGG 0.498444 2.3:+55657834 None:intergenic
AAGCCCCACCGTTTCCGTCC+AGG 0.502650 2.3:-55657977 MS.gene068178:CDS
CGACGGTTCCTGGACGGAAA+CGG 0.511490 2.3:+55657969 None:intergenic
TTGTGCTATTCATGCTAAGA+GGG 0.513784 2.3:-55657759 MS.gene068178:CDS
GGTTCCTGGACGGAAACGGT+GGG 0.514668 2.3:+55657973 None:intergenic
CACTCCTCCGGTCGCCGGAG+CGG 0.515017 2.3:+55658003 None:intergenic
GTGGGGCTTCTTCACTCCTC+CGG 0.515291 2.3:+55657991 None:intergenic
AGCCGCTCGGAAATCCGCTC+CGG 0.515753 2.3:-55658017 MS.gene068178:CDS
AGAGCACTGAGCTTCTCATA+AGG 0.531497 2.3:-55657919 MS.gene068178:CDS
CGGTTCCTGGACGGAAACGG+TGG 0.532129 2.3:+55657972 None:intergenic
AAACAGCACTACTCTGGAAA+CGG 0.532210 2.3:+55657840 None:intergenic
GAGGGTTACTATTATGCCTA+AGG 0.533362 2.3:-55657741 MS.gene068178:CDS
TTTGTGCTATTCATGCTAAG+AGG 0.537531 2.3:-55657760 MS.gene068178:CDS
CAGTGCTCTTCTGGTACTTG+CGG 0.559165 2.3:+55657933 None:intergenic
GAGAAGAATCAGAGGCGAAA+GGG 0.568256 2.3:-55657705 MS.gene068178:CDS
CGAGAAGAATCAGAGGCGAA+AGG 0.575054 2.3:-55657706 MS.gene068178:CDS
AATCGCTCAGGATTTCAAAA+CGG 0.576806 2.3:-55657867 MS.gene068178:CDS
CAAACCGCCCGAAAATCCAC+CGG 0.581692 2.3:-55658073 MS.gene068178:CDS
GCGGATTTCACGAAGTGCGA+CGG 0.598942 2.3:+55657952 None:intergenic
GTTCCTGGACGGAAACGGTG+GGG 0.599384 2.3:+55657974 None:intergenic
AACTCGCCACAAAAGCCGCT+CGG 0.605384 2.3:-55658030 MS.gene068178:CDS
AAATCCGCTCCGGCGACCGG+AGG 0.609902 2.3:-55658007 MS.gene068178:CDS
ATTGGTTCGAGAAATCGCTC+AGG 0.615789 2.3:-55657879 MS.gene068178:CDS
ACCGCCCGAAAATCCACCGG+CGG 0.621620 2.3:-55658070 MS.gene068178:CDS
GAAGTGCGACGGTTCCTGGA+CGG 0.655834 2.3:+55657963 None:intergenic
CAACTTGCGAGAAGAATCAG+AGG 0.665987 2.3:-55657713 MS.gene068178:CDS
CGCCGGAGCGGATTTCCGAG+CGG 0.670325 2.3:+55658015 None:intergenic
TTTGTGGCGAGTTGTTTGCG+TGG 0.711662 2.3:+55658040 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AATCGCTCAGGATTTCAAAA+CGG - chr2.3:55657921-55657940 MS.gene068178:CDS 35.0%
GAAGCTTCCATTTCAAAGAT+TGG - chr2.3:55657891-55657910 MS.gene068178:CDS 35.0%
! TCTCGAACCAATCTTTGAAA+TGG + chr2.3:55657901-55657920 None:intergenic 35.0%
! TTGTGCTATTCATGCTAAGA+GGG - chr2.3:55658029-55658048 MS.gene068178:CDS 35.0%
! TTTGTGCTATTCATGCTAAG+AGG - chr2.3:55658028-55658047 MS.gene068178:CDS 35.0%
GAGGGTTACTATTATGCCTA+AGG - chr2.3:55658047-55658066 MS.gene068178:CDS 40.0%
! AAACAGCACTACTCTGGAAA+CGG + chr2.3:55657951-55657970 None:intergenic 40.0%
! CTCGCAAGTTGAATATCCTT+AGG + chr2.3:55658066-55658085 None:intergenic 40.0%
CAACTTGCGAGAAGAATCAG+AGG - chr2.3:55658075-55658094 MS.gene068178:CDS 45.0%
GAGAAGAATCAGAGGCGAAA+GGG - chr2.3:55658083-55658102 MS.gene068178:CDS 45.0%
GCTGCTGAAGCTTATCTTGT+TGG - chr2.3:55657985-55658004 MS.gene068178:CDS 45.0%
!! AGAGCACTGAGCTTCTCATA+AGG - chr2.3:55657869-55657888 MS.gene068178:CDS 45.0%
!! ATTGGTTCGAGAAATCGCTC+AGG - chr2.3:55657909-55657928 MS.gene068178:CDS 45.0%
CAGTGCTCTTCTGGTACTTG+CGG + chr2.3:55657858-55657877 None:intergenic 50.0%
CGAGAAGAATCAGAGGCGAA+AGG - chr2.3:55658082-55658101 MS.gene068178:CDS 50.0%
GAGCAGAAACAGCACTACTC+TGG + chr2.3:55657957-55657976 None:intergenic 50.0%
TGAGAAGCTCAGTGCTCTTC+TGG + chr2.3:55657867-55657886 None:intergenic 50.0%
TTTGTGGCGAGTTGTTTGCG+TGG + chr2.3:55657751-55657770 None:intergenic 50.0%
!! CTTTTCCGCCGGTGGATTTT+CGG + chr2.3:55657726-55657745 None:intergenic 50.0%
!! GGATTTTCGGGCGGTTTGTT+TGG + chr2.3:55657713-55657732 None:intergenic 50.0%
!! TTTTCCGCCGGTGGATTTTC+GGG + chr2.3:55657725-55657744 None:intergenic 50.0%
AACTCGCCACAAAAGCCGCT+CGG - chr2.3:55657758-55657777 MS.gene068178:CDS 55.0%
CAAACCGCCCGAAAATCCAC+CGG - chr2.3:55657715-55657734 MS.gene068178:CDS 55.0%
GCGGATTTCACGAAGTGCGA+CGG + chr2.3:55657839-55657858 None:intergenic 55.0%
! GGATTTCCGAGCGGCTTTTG+TGG + chr2.3:55657767-55657786 None:intergenic 55.0%
! TTTGCGTGGTGCTTTTCCGC+CGG + chr2.3:55657737-55657756 None:intergenic 55.0%
CGACGGTTCCTGGACGGAAA+CGG + chr2.3:55657822-55657841 None:intergenic 60.0%
GAAGTGCGACGGTTCCTGGA+CGG + chr2.3:55657828-55657847 None:intergenic 60.0%
GGTTCCTGGACGGAAACGGT+GGG + chr2.3:55657818-55657837 None:intergenic 60.0%
GTGGGGCTTCTTCACTCCTC+CGG + chr2.3:55657800-55657819 None:intergenic 60.0%
GTTCCTGGACGGAAACGGTG+GGG + chr2.3:55657817-55657836 None:intergenic 60.0%
TCACGAAGTGCGACGGTTCC+TGG + chr2.3:55657832-55657851 None:intergenic 60.0%
TTCTTCACTCCTCCGGTCGC+CGG + chr2.3:55657793-55657812 None:intergenic 60.0%
AAGCCCCACCGTTTCCGTCC+AGG - chr2.3:55657811-55657830 MS.gene068178:CDS 65.0%
ACCGCCCGAAAATCCACCGG+CGG - chr2.3:55657718-55657737 MS.gene068178:CDS 65.0%
AGCCGCTCGGAAATCCGCTC+CGG - chr2.3:55657771-55657790 MS.gene068178:CDS 65.0%
CGGTTCCTGGACGGAAACGG+TGG + chr2.3:55657819-55657838 None:intergenic 65.0%
!! TCCGCCGGTGGATTTTCGGG+CGG + chr2.3:55657722-55657741 None:intergenic 65.0%
AAATCCGCTCCGGCGACCGG+AGG - chr2.3:55657781-55657800 MS.gene068178:CDS 70.0%
CGGAAATCCGCTCCGGCGAC+CGG - chr2.3:55657778-55657797 MS.gene068178:CDS 70.0%
! CGCCGGAGCGGATTTCCGAG+CGG + chr2.3:55657776-55657795 None:intergenic 70.0%
! GCGTGGTGCTTTTCCGCCGG+TGG + chr2.3:55657734-55657753 None:intergenic 70.0%
CACTCCTCCGGTCGCCGGAG+CGG + chr2.3:55657788-55657807 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 55657700 55658110 55657700 ID=MS.gene068178
chr2.3 mRNA 55657700 55658110 55657700 ID=MS.gene068178.t1;Parent=MS.gene068178
chr2.3 exon 55657700 55658110 55657700 ID=MS.gene068178.t1.exon1;Parent=MS.gene068178.t1
chr2.3 CDS 55657700 55658110 55657700 ID=cds.MS.gene068178.t1;Parent=MS.gene068178.t1
Gene Sequence

>MS.gene068178

ATGGCACGTACCAAACAAACCGCCCGAAAATCCACCGGCGGAAAAGCACCACGCAAACAACTCGCCACAAAAGCCGCTCGGAAATCCGCTCCGGCGACCGGAGGAGTGAAGAAGCCCCACCGTTTCCGTCCAGGAACCGTCGCACTTCGTGAAATCCGCAAGTACCAGAAGAGCACTGAGCTTCTCATAAGGAAGCTTCCATTTCAAAGATTGGTTCGAGAAATCGCTCAGGATTTCAAAACGGATCTCCGTTTCCAGAGTAGTGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACGAATCTTTGTGCTATTCATGCTAAGAGGGTTACTATTATGCCTAAGGATATTCAACTTGCGAGAAGAATCAGAGGCGAAAGGGCTTAG

Protein sequence

>MS.gene068178.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA