AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059054


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059054.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene059054.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene059054.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene059054.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene059054.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene059054.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene059054.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene059054.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene059054.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene059054.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene059054.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene059054.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene059054.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene059054.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene059054.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene059054.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene059054.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene059054.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene059054.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene059054.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene059054.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene059054.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene059054.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene059054.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.gene059054.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene059054.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene059054.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene059054.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene059054.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene059054.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene059054.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene059054.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene059054.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene059054.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene059054.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene059054.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene059054.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene059054.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene059054.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene059054.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 35 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCACGAAGAGCAACGGTTCC+TGG 0.297872 2.4:+55893198 None:intergenic
TGAGAAGCTCAGTGCTCTTC+TGG 0.304985 2.4:+55893163 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 2.4:-55893042 MS.gene059054:CDS
GAAGCTTCCGTTTCAAAGAT+TGG 0.362056 2.4:-55893136 MS.gene059054:CDS
GGATTTGCGGGCTGTTTGTT+TGG 0.425629 2.4:+55893317 None:intergenic
CGGAAATCCGCTCCGGCGAC+CGG 0.429737 2.4:-55893249 MS.gene059054:CDS
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 2.4:+55893237 None:intergenic
CTCGCAAGTTGAATATCCTT+AGG 0.495447 2.4:+55892964 None:intergenic
GAGCAGAAACAGCACTACTC+TGG 0.498444 2.4:+55893073 None:intergenic
TCTCGAACCAATCTTTGAAA+CGG 0.505611 2.4:+55893129 None:intergenic
TTGTGCTATTCATGCTAAGA+GGG 0.513784 2.4:-55892998 MS.gene059054:CDS
CACTCCTCCGGTCGCCGGAG+CGG 0.515017 2.4:+55893242 None:intergenic
AGCCGCTCGGAAATCCGCTC+CGG 0.515753 2.4:-55893256 MS.gene059054:CDS
CAAACAGCCCGCAAATCCAC+CGG 0.524480 2.4:-55893312 MS.gene059054:CDS
CAACGGTTCCTGGACGGAAA+CGG 0.524770 2.4:+55893208 None:intergenic
AAGCCACACCGTTTCCGTCC+AGG 0.524906 2.4:-55893216 MS.gene059054:CDS
GTGTGGCTTCTTCACTCCTC+CGG 0.526132 2.4:+55893230 None:intergenic
AGAGCACTGAGCTTCTCATA+AGG 0.531497 2.4:-55893158 MS.gene059054:CDS
AAACAGCACTACTCTGGAAA+CGG 0.532210 2.4:+55893079 None:intergenic
GAGGGTTACTATTATGCCTA+AGG 0.533362 2.4:-55892980 MS.gene059054:CDS
TTTGTGCTATTCATGCTAAG+AGG 0.537531 2.4:-55892999 MS.gene059054:CDS
GCGGATTTCACGAAGAGCAA+CGG 0.553291 2.4:+55893191 None:intergenic
CAGTGCTCTTCTGGTACTTG+CGG 0.559165 2.4:+55893172 None:intergenic
GAGAAGAATCAGAGGCGAAA+GGG 0.568256 2.4:-55892944 MS.gene059054:CDS
CGAGAAGAATCAGAGGCGAA+AGG 0.575054 2.4:-55892945 MS.gene059054:CDS
AATCGCTCAGGATTTCAAAA+CGG 0.576806 2.4:-55893106 MS.gene059054:CDS
AACTCGCCACAAAAGCCGCT+CGG 0.605384 2.4:-55893269 MS.gene059054:CDS
AAATCCGCTCCGGCGACCGG+AGG 0.609902 2.4:-55893246 MS.gene059054:CDS
ATTGGTTCGAGAAATCGCTC+AGG 0.615789 2.4:-55893118 MS.gene059054:CDS
GAAGAGCAACGGTTCCTGGA+CGG 0.646875 2.4:+55893202 None:intergenic
ACAGCCCGCAAATCCACCGG+CGG 0.662314 2.4:-55893309 MS.gene059054:CDS
CAACTTGCGAGAAGAATCAG+AGG 0.665987 2.4:-55892952 MS.gene059054:CDS
GTTCCTGGACGGAAACGGTG+TGG 0.668414 2.4:+55893213 None:intergenic
CGCCGGAGCGGATTTCCGAG+CGG 0.670325 2.4:+55893254 None:intergenic
TTTGTGGCGAGTTGTTTGCG+TGG 0.711662 2.4:+55893279 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AATCGCTCAGGATTTCAAAA+CGG - chr2.4:55893160-55893179 MS.gene059054:CDS 35.0%
! TCTCGAACCAATCTTTGAAA+CGG + chr2.4:55893140-55893159 None:intergenic 35.0%
! TTGTGCTATTCATGCTAAGA+GGG - chr2.4:55893268-55893287 MS.gene059054:CDS 35.0%
! TTTGTGCTATTCATGCTAAG+AGG - chr2.4:55893267-55893286 MS.gene059054:CDS 35.0%
GAAGCTTCCGTTTCAAAGAT+TGG - chr2.4:55893130-55893149 MS.gene059054:CDS 40.0%
GAGGGTTACTATTATGCCTA+AGG - chr2.4:55893286-55893305 MS.gene059054:CDS 40.0%
! AAACAGCACTACTCTGGAAA+CGG + chr2.4:55893190-55893209 None:intergenic 40.0%
! CTCGCAAGTTGAATATCCTT+AGG + chr2.4:55893305-55893324 None:intergenic 40.0%
CAACTTGCGAGAAGAATCAG+AGG - chr2.4:55893314-55893333 MS.gene059054:CDS 45.0%
GAGAAGAATCAGAGGCGAAA+GGG - chr2.4:55893322-55893341 MS.gene059054:CDS 45.0%
GCTGCTGAAGCTTATCTTGT+TGG - chr2.4:55893224-55893243 MS.gene059054:CDS 45.0%
!! AGAGCACTGAGCTTCTCATA+AGG - chr2.4:55893108-55893127 MS.gene059054:CDS 45.0%
!! ATTGGTTCGAGAAATCGCTC+AGG - chr2.4:55893148-55893167 MS.gene059054:CDS 45.0%
CAGTGCTCTTCTGGTACTTG+CGG + chr2.4:55893097-55893116 None:intergenic 50.0%
CGAGAAGAATCAGAGGCGAA+AGG - chr2.4:55893321-55893340 MS.gene059054:CDS 50.0%
GAGCAGAAACAGCACTACTC+TGG + chr2.4:55893196-55893215 None:intergenic 50.0%
GCGGATTTCACGAAGAGCAA+CGG + chr2.4:55893078-55893097 None:intergenic 50.0%
TGAGAAGCTCAGTGCTCTTC+TGG + chr2.4:55893106-55893125 None:intergenic 50.0%
TTTGTGGCGAGTTGTTTGCG+TGG + chr2.4:55892990-55893009 None:intergenic 50.0%
! GGATTTGCGGGCTGTTTGTT+TGG + chr2.4:55892952-55892971 None:intergenic 50.0%
AACTCGCCACAAAAGCCGCT+CGG - chr2.4:55892997-55893016 MS.gene059054:CDS 55.0%
CAAACAGCCCGCAAATCCAC+CGG - chr2.4:55892954-55892973 MS.gene059054:CDS 55.0%
CAACGGTTCCTGGACGGAAA+CGG + chr2.4:55893061-55893080 None:intergenic 55.0%
GAAGAGCAACGGTTCCTGGA+CGG + chr2.4:55893067-55893086 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG + chr2.4:55893039-55893058 None:intergenic 55.0%
TCACGAAGAGCAACGGTTCC+TGG + chr2.4:55893071-55893090 None:intergenic 55.0%
! GGATTTCCGAGCGGCTTTTG+TGG + chr2.4:55893006-55893025 None:intergenic 55.0%
! TTTGCGTGGTGCTTTTCCGC+CGG + chr2.4:55892976-55892995 None:intergenic 55.0%
!! CTTTTCCGCCGGTGGATTTG+CGG + chr2.4:55892965-55892984 None:intergenic 55.0%
!! TTTTCCGCCGGTGGATTTGC+GGG + chr2.4:55892964-55892983 None:intergenic 55.0%
AAGCCACACCGTTTCCGTCC+AGG - chr2.4:55893050-55893069 MS.gene059054:CDS 60.0%
GTTCCTGGACGGAAACGGTG+TGG + chr2.4:55893056-55893075 None:intergenic 60.0%
TTCTTCACTCCTCCGGTCGC+CGG + chr2.4:55893032-55893051 None:intergenic 60.0%
ACAGCCCGCAAATCCACCGG+CGG - chr2.4:55892957-55892976 MS.gene059054:CDS 65.0%
AGCCGCTCGGAAATCCGCTC+CGG - chr2.4:55893010-55893029 MS.gene059054:CDS 65.0%
AAATCCGCTCCGGCGACCGG+AGG - chr2.4:55893020-55893039 MS.gene059054:CDS 70.0%
CGGAAATCCGCTCCGGCGAC+CGG - chr2.4:55893017-55893036 MS.gene059054:CDS 70.0%
! CGCCGGAGCGGATTTCCGAG+CGG + chr2.4:55893015-55893034 None:intergenic 70.0%
! GCGTGGTGCTTTTCCGCCGG+TGG + chr2.4:55892973-55892992 None:intergenic 70.0%
CACTCCTCCGGTCGCCGGAG+CGG + chr2.4:55893027-55893046 None:intergenic 75.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 55892939 55893349 55892939 ID=MS.gene059054
chr2.4 mRNA 55892939 55893349 55892939 ID=MS.gene059054.t1;Parent=MS.gene059054
chr2.4 exon 55892939 55893349 55892939 ID=MS.gene059054.t1.exon1;Parent=MS.gene059054.t1
chr2.4 CDS 55892939 55893349 55892939 ID=cds.MS.gene059054.t1;Parent=MS.gene059054.t1
Gene Sequence

>MS.gene059054

ATGGCACGTACCAAACAAACAGCCCGCAAATCCACCGGCGGAAAAGCACCACGCAAACAACTCGCCACAAAAGCCGCTCGGAAATCCGCTCCGGCGACCGGAGGAGTGAAGAAGCCACACCGTTTCCGTCCAGGAACCGTTGCTCTTCGTGAAATCCGCAAGTACCAGAAGAGCACTGAGCTTCTCATAAGGAAGCTTCCGTTTCAAAGATTGGTTCGAGAAATCGCTCAGGATTTCAAAACGGATCTCCGTTTCCAGAGTAGTGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACGAATCTTTGTGCTATTCATGCTAAGAGGGTTACTATTATGCCTAAGGATATTCAACTTGCGAGAAGAATCAGAGGCGAAAGGGCTTAG

Protein sequence

>MS.gene059054.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA