AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene015760


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene015760.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene015760.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene015760.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene015760.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene015760.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene015760.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene015760.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene015760.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene015760.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene015760.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene015760.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene015760.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene015760.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene015760.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene015760.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene015760.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene015760.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene015760.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene015760.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene015760.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene015760.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene015760.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene015760.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene015760.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.gene015760.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene015760.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene015760.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene015760.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene015760.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene015760.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene015760.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene015760.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene015760.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene015760.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene015760.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene015760.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene015760.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene015760.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene015760.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene015760.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 39 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGATTTCTCTAACCAATCTT+TGG 0.224743 4.3:-2238168 None:intergenic
GCCGCTGAAGCTTATCTTGT+TGG 0.348800 4.3:+2238250 MS.gene015760:CDS
TTGAATATCCTTAGGCATAA+TGG 0.349539 4.3:-2238320 None:intergenic
AGCTGATTTCCGAGCGGCTT+TGG 0.355177 4.3:-2238032 None:intergenic
TTCTTCACTCCTCCGGTGGC+TGG 0.371943 4.3:-2238055 None:intergenic
TCACGAAGAGCAACAGTTCC+AGG 0.402245 4.3:-2238094 None:intergenic
GAAGCTTCCATTCCAAAGAT+TGG 0.412914 4.3:+2238156 MS.gene015760:CDS
CTTGCAAGTTGAATATCCTT+AGG 0.413826 4.3:-2238328 None:intergenic
AGGATTTCAAAACTGATCTC+AGG 0.429009 4.3:+2238194 MS.gene015760:CDS
GGATTTGCGAGCGGTTTGTT+TGG 0.441284 4.3:-2237975 None:intergenic
AGAGCACTGAGCTTCTCATC+AGG 0.458709 4.3:+2238134 MS.gene015760:CDS
TTGGTGGCGAGTTGTTTCCT+TGG 0.473034 4.3:-2238013 None:intergenic
GGCTTCTTGAAGAGCAGAAA+CGG 0.474881 4.3:-2238230 None:intergenic
TTTCCTTGGAGCTTTGCCTC+CGG 0.476973 4.3:-2237999 None:intergenic
CCTTGGAGCTTTGCCTCCGG+TGG 0.489182 4.3:-2237996 None:intergenic
TGATTTCCGAGCGGCTTTGG+TGG 0.495094 4.3:-2238029 None:intergenic
GTGTGGCTTCTTCACTCCTC+CGG 0.509508 4.3:-2238062 None:intergenic
TCTCTAACCAATCTTTGGAA+TGG 0.520211 4.3:-2238163 None:intergenic
CGGAAATCAGCTCCAGCCAC+CGG 0.530295 4.3:+2238043 MS.gene015760:CDS
GAGAGTTACCATTATGCCTA+AGG 0.535535 4.3:+2238312 MS.gene015760:CDS
AGCATGAATAGCACAAAGGT+TGG 0.570443 4.3:-2238287 None:intergenic
AACTCGCCACCAAAGCCGCT+CGG 0.570459 4.3:+2238023 MS.gene015760:CDS
CCACCGGAGGCAAAGCTCCA+AGG 0.572363 4.3:+2237996 MS.gene015760:CDS
CAGTGCTCTTCTGATACTTG+CGG 0.590815 4.3:-2238120 None:intergenic
AAGAAGAATCAGAGGCGAGA+GGG 0.597241 4.3:+2238348 MS.gene015760:CDS
ATTGGTTAGAGAAATCGCTC+AGG 0.600201 4.3:+2238174 MS.gene015760:CDS
AAGCCACACAGATTCCGTCC+TGG 0.622196 4.3:+2238076 MS.gene015760:CDS
CAAACCGCTCGCAAATCCAC+CGG 0.629023 4.3:+2237980 MS.gene015760:CDS
TGGCTTCTTCACTCCTCCGG+TGG 0.631443 4.3:-2238059 None:intergenic
AAATCAGCTCCAGCCACCGG+AGG 0.637716 4.3:+2238046 MS.gene015760:CDS
GCCTCCGGTGGATTTGCGAG+CGG 0.639769 4.3:-2237984 None:intergenic
ACCGCTCGCAAATCCACCGG+AGG 0.648108 4.3:+2237983 MS.gene015760:CDS
CAAGAAGAATCAGAGGCGAG+AGG 0.648850 4.3:+2238347 MS.gene015760:CDS
CAACTTGCAAGAAGAATCAG+AGG 0.660238 4.3:+2238340 MS.gene015760:CDS
ACCAACAAGATAAGCTTCAG+CGG 0.667251 4.3:-2238251 None:intergenic
GAAGAGCAACAGTTCCAGGA+CGG 0.681197 4.3:-2238090 None:intergenic
TCTTAGCATGAATAGCACAA+AGG 0.697580 4.3:-2238291 None:intergenic
GTTCCAGGACGGAATCTGTG+TGG 0.699556 4.3:-2238079 None:intergenic
GGCTGGAGCTGATTTCCGAG+CGG 0.733993 4.3:-2238038 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGAATATCCTTAGGCATAA+TGG - chr4.3:2238323-2238342 None:intergenic 30.0%
AGGATTTCAAAACTGATCTC+AGG + chr4.3:2238194-2238213 MS.gene015760:CDS 35.0%
CGATTTCTCTAACCAATCTT+TGG - chr4.3:2238171-2238190 None:intergenic 35.0%
TCTTAGCATGAATAGCACAA+AGG - chr4.3:2238294-2238313 None:intergenic 35.0%
! CTTGCAAGTTGAATATCCTT+AGG - chr4.3:2238331-2238350 None:intergenic 35.0%
! TCTCTAACCAATCTTTGGAA+TGG - chr4.3:2238166-2238185 None:intergenic 35.0%
ACCAACAAGATAAGCTTCAG+CGG - chr4.3:2238254-2238273 None:intergenic 40.0%
AGCATGAATAGCACAAAGGT+TGG - chr4.3:2238290-2238309 None:intergenic 40.0%
ATTGGTTAGAGAAATCGCTC+AGG + chr4.3:2238174-2238193 MS.gene015760:CDS 40.0%
CAACTTGCAAGAAGAATCAG+AGG + chr4.3:2238340-2238359 MS.gene015760:CDS 40.0%
GAAGCTTCCATTCCAAAGAT+TGG + chr4.3:2238156-2238175 MS.gene015760:CDS 40.0%
GAGAGTTACCATTATGCCTA+AGG + chr4.3:2238312-2238331 MS.gene015760:CDS 40.0%
AAGAAGAATCAGAGGCGAGA+GGG + chr4.3:2238348-2238367 MS.gene015760:CDS 45.0%
CAGTGCTCTTCTGATACTTG+CGG - chr4.3:2238123-2238142 None:intergenic 45.0%
GGCTTCTTGAAGAGCAGAAA+CGG - chr4.3:2238233-2238252 None:intergenic 45.0%
CAAGAAGAATCAGAGGCGAG+AGG + chr4.3:2238347-2238366 MS.gene015760:CDS 50.0%
GAAGAGCAACAGTTCCAGGA+CGG - chr4.3:2238093-2238112 None:intergenic 50.0%
GCCGCTGAAGCTTATCTTGT+TGG + chr4.3:2238250-2238269 MS.gene015760:CDS 50.0%
TCACGAAGAGCAACAGTTCC+AGG - chr4.3:2238097-2238116 None:intergenic 50.0%
TTTCCTTGGAGCTTTGCCTC+CGG - chr4.3:2238002-2238021 None:intergenic 50.0%
! GGATTTGCGAGCGGTTTGTT+TGG - chr4.3:2237978-2237997 None:intergenic 50.0%
!! AGAGCACTGAGCTTCTCATC+AGG + chr4.3:2238134-2238153 MS.gene015760:CDS 50.0%
!! TTGGTGGCGAGTTGTTTCCT+TGG - chr4.3:2238016-2238035 None:intergenic 50.0%
AAGCCACACAGATTCCGTCC+TGG + chr4.3:2238076-2238095 MS.gene015760:CDS 55.0%
CAAACCGCTCGCAAATCCAC+CGG + chr4.3:2237980-2237999 MS.gene015760:CDS 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.3:2238065-2238084 None:intergenic 55.0%
GTTCCAGGACGGAATCTGTG+TGG - chr4.3:2238082-2238101 None:intergenic 55.0%
! AGCTGATTTCCGAGCGGCTT+TGG - chr4.3:2238035-2238054 None:intergenic 55.0%
! TGATTTCCGAGCGGCTTTGG+TGG - chr4.3:2238032-2238051 None:intergenic 55.0%
AAATCAGCTCCAGCCACCGG+AGG + chr4.3:2238046-2238065 MS.gene015760:CDS 60.0%
AACTCGCCACCAAAGCCGCT+CGG + chr4.3:2238023-2238042 MS.gene015760:CDS 60.0%
CGGAAATCAGCTCCAGCCAC+CGG + chr4.3:2238043-2238062 MS.gene015760:CDS 60.0%
TGGCTTCTTCACTCCTCCGG+TGG - chr4.3:2238062-2238081 None:intergenic 60.0%
TTCTTCACTCCTCCGGTGGC+TGG - chr4.3:2238058-2238077 None:intergenic 60.0%
! GGCTGGAGCTGATTTCCGAG+CGG - chr4.3:2238041-2238060 None:intergenic 60.0%
ACCGCTCGCAAATCCACCGG+AGG + chr4.3:2237983-2238002 MS.gene015760:CDS 65.0%
CCACCGGAGGCAAAGCTCCA+AGG + chr4.3:2237996-2238015 MS.gene015760:CDS 65.0%
CCTTGGAGCTTTGCCTCCGG+TGG - chr4.3:2237999-2238018 None:intergenic 65.0%
! GCCTCCGGTGGATTTGCGAG+CGG - chr4.3:2237987-2238006 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 2237965 2238375 2237965 ID=MS.gene015760
chr4.3 mRNA 2237965 2238375 2237965 ID=MS.gene015760.t1;Parent=MS.gene015760
chr4.3 exon 2237965 2238375 2237965 ID=MS.gene015760.t1.exon1;Parent=MS.gene015760.t1
chr4.3 CDS 2237965 2238375 2237965 ID=cds.MS.gene015760.t1;Parent=MS.gene015760.t1
Gene Sequence

>MS.gene015760

ATGGCTCGTACCAAACAAACCGCTCGCAAATCCACCGGAGGCAAAGCTCCAAGGAAACAACTCGCCACCAAAGCCGCTCGGAAATCAGCTCCAGCCACCGGAGGAGTGAAGAAGCCACACAGATTCCGTCCTGGAACTGTTGCTCTTCGTGAGATCCGCAAGTATCAGAAGAGCACTGAGCTTCTCATCAGGAAGCTTCCATTCCAAAGATTGGTTAGAGAAATCGCTCAGGATTTCAAAACTGATCTCAGGTTTCAGAGTAGCGCCGTTTCTGCTCTTCAAGAAGCCGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACCAACCTTTGTGCTATTCATGCTAAGAGAGTTACCATTATGCCTAAGGATATTCAACTTGCAAGAAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene015760.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA