AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280008061.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008061.01.T01 MTR_2g437200 68.868 212 52 4 1 209 1 201 4.38e-91 276
MsG0280008061.01.T01 MTR_2g437240 70.899 189 49 2 1 189 1 183 2.10e-83 257
MsG0280008061.01.T01 MTR_2g438020 79.394 165 34 0 24 188 57 221 1.34e-81 254
MsG0280008061.01.T01 MTR_2g437260 70.345 145 39 2 1 144 1 142 5.82e-60 196
MsG0280008061.01.T01 MTR_7g068350 69.000 100 31 0 190 289 146 245 3.98e-45 153
MsG0280008061.01.T01 MTR_2g437120 43.564 202 66 4 14 206 20 182 5.02e-42 149
MsG0280008061.01.T01 MTR_2g437150 44.292 219 68 7 14 217 20 199 1.64e-40 145
MsG0280008061.01.T01 MTR_2g437170 44.286 210 68 6 18 217 29 199 5.19e-40 144
MsG0280008061.01.T01 MTR_2g076320 44.776 201 64 5 14 206 20 181 2.98e-37 136
MsG0280008061.01.T01 MTR_2g437990 47.283 184 54 4 14 189 20 168 3.24e-37 137
MsG0280008061.01.T01 MTR_2g437160 41.818 220 74 6 3 207 15 195 3.34e-37 136
MsG0280008061.01.T01 MTR_2g437180 45.714 175 58 2 17 189 28 167 3.83e-37 136
MsG0280008061.01.T01 MTR_2g437040 47.273 165 74 5 22 178 25 184 1.15e-36 134
MsG0280008061.01.T01 MTR_2g437130 47.904 167 49 2 22 188 30 158 1.91e-36 134
MsG0280008061.01.T01 MTR_2g437100 38.793 232 88 5 3 217 10 204 1.32e-35 132
MsG0280008061.01.T01 MTR_2g437080 44.586 157 83 3 21 174 24 179 1.42e-35 132
MsG0280008061.01.T01 MTR_2g438010 41.176 204 73 4 14 209 40 204 1.45e-35 132
MsG0280008061.01.T01 MTR_2g437060 45.882 170 79 5 22 183 40 204 3.64e-34 128
MsG0280008061.01.T01 MTR_2g437020 40.462 173 65 3 19 189 21 157 4.61e-34 127
MsG0280008061.01.T01 MTR_2g437030 45.399 163 73 5 25 180 114 267 7.16e-34 129
MsG0280008061.01.T01 MTR_2g437960 45.752 153 46 2 38 188 53 170 1.81e-33 126
MsG0280008061.01.T01 MTR_2g437960 45.752 153 46 2 38 188 53 170 2.24e-33 126
MsG0280008061.01.T01 MTR_4g119550 41.477 176 68 2 33 173 46 221 9.58e-33 124
MsG0280008061.01.T01 MTR_3g085240 37.815 238 103 7 1 202 21 249 1.36e-31 118
MsG0280008061.01.T01 MTR_2g436460 39.048 210 82 4 31 239 40 204 1.81e-31 120
MsG0280008061.01.T01 MTR_2g436440 42.949 156 77 4 25 173 34 184 2.16e-31 120
MsG0280008061.01.T01 MTR_2g436370 43.662 142 77 2 32 170 40 181 4.65e-31 115
MsG0280008061.01.T01 MTR_2g437940 41.143 175 87 3 14 172 20 194 3.91e-29 114
MsG0280008061.01.T01 MTR_4g049400 44.966 149 69 3 1 136 2 150 3.95e-29 111
MsG0280008061.01.T01 MTR_4g120380 43.038 158 55 1 31 188 37 159 2.23e-28 112
MsG0280008061.01.T01 MTR_4g120380 43.038 158 55 1 31 188 37 159 6.20e-28 111
MsG0280008061.01.T01 MTR_2g436400 38.750 160 61 2 32 189 41 165 1.13e-27 110
MsG0280008061.01.T01 MTR_4g119580 37.017 181 79 2 29 174 34 214 1.32e-26 107
MsG0280008061.01.T01 MTR_2g019840 46.923 130 68 1 11 140 17 145 5.36e-26 105
MsG0280008061.01.T01 MTR_5g098775 75.410 61 15 0 190 250 136 196 1.71e-25 100
MsG0280008061.01.T01 MTR_2g019810 43.609 133 70 1 8 140 6 133 5.38e-23 97.4
MsG0280008061.01.T01 MTR_2g437160 31.250 240 100 6 3 180 15 251 1.59e-22 95.5
MsG0280008061.01.T01 MTR_3g450500 32.624 141 94 1 24 163 24 164 9.67e-15 73.9
MsG0280008061.01.T01 MTR_4g007490 35.246 122 77 2 19 140 19 138 3.15e-13 69.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280008061.01.T01 AT3G46950 35.878 131 78 3 11 136 20 149 9.05e-20 89.4
MsG0280008061.01.T01 AT1G61980 38.542 96 59 0 40 135 53 148 1.01e-18 85.9
MsG0280008061.01.T01 AT1G61980 38.542 96 59 0 40 135 53 148 1.01e-18 85.9
MsG0280008061.01.T01 AT1G61980 38.542 96 59 0 40 135 53 148 1.01e-18 85.9
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G61970 39.796 98 59 0 38 135 51 148 1.24e-18 85.5
MsG0280008061.01.T01 AT1G21150 40.952 105 62 0 40 144 57 161 4.02e-18 84.0
MsG0280008061.01.T01 AT1G62085 40.625 96 57 0 40 135 56 151 4.29e-18 84.3
MsG0280008061.01.T01 AT1G62085 40.625 96 57 0 40 135 56 151 4.29e-18 84.3
MsG0280008061.01.T01 AT1G21150 40.952 105 62 0 40 144 121 225 6.55e-18 84.0
MsG0280008061.01.T01 AT1G21150 37.607 117 73 0 28 144 9 125 6.99e-18 83.2
MsG0280008061.01.T01 AT5G07900 30.964 197 116 5 4 180 15 211 9.54e-18 83.2
MsG0280008061.01.T01 AT1G62120 39.583 96 58 0 40 135 57 152 2.71e-17 82.0
MsG0280008061.01.T01 AT1G61990 38.542 96 59 0 40 135 53 148 4.10e-16 78.2
MsG0280008061.01.T01 AT1G61990 38.542 96 59 0 40 135 53 148 4.10e-16 78.2
MsG0280008061.01.T01 AT1G61960 37.755 98 61 0 38 135 51 148 6.44e-16 77.8
MsG0280008061.01.T01 AT1G62150 33.333 99 66 0 37 135 56 154 2.70e-14 73.2
MsG0280008061.01.T01 AT1G62110 35.417 96 62 0 40 135 53 148 3.76e-13 69.7
MsG0280008061.01.T01 AT5G23930 33.884 121 70 1 25 135 31 151 1.47e-12 67.8

Find 40 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTGTTAGGTTATGAAATT+TGG 0.186788 2:-24947423 MsG0280008061.01.T01:CDS
GACATTGTCCGCATGGTTAA+AGG 0.256602 2:-24947748 MsG0280008061.01.T01:CDS
TACTGGATCTTCAAAATTGT+TGG 0.346582 2:-24947329 MsG0280008061.01.T01:CDS
TTTGCAAATCATGCTCTTGT+AGG 0.350409 2:-24947364 MsG0280008061.01.T01:CDS
GTCAGATTCAGAAGCACCTT+TGG 0.364937 2:+24947768 None:intergenic
GAAGAAGTTGATAATTGAAT+CGG 0.382509 2:+24947903 None:intergenic
ACTGGATCTTCAAAATTGTT+GGG 0.387966 2:-24947328 MsG0280008061.01.T01:CDS
TCCTACCTCATTGACAAATT+CGG 0.388145 2:-24947988 MsG0280008061.01.T01:CDS
GATTCTCACATCTCCTTTGT+CGG 0.393462 2:-24947475 MsG0280008061.01.T01:CDS
ATCAGAAGAAGAAGCACCTT+TGG 0.395286 2:+24947663 None:intergenic
AAGCTACTTTGTAAAATTTG+AGG 0.399160 2:+24947616 None:intergenic
GTTTGAAGTGGTGGTGGTAG+TGG 0.410432 2:+24948023 None:intergenic
AGCTACTTTGTAAAATTTGA+GGG 0.419639 2:+24947617 None:intergenic
TGAGGAATTTGAGAGAAAAT+AGG 0.422691 2:+24948046 None:intergenic
TTGCAAATCATGCTCTTGTA+GGG 0.443473 2:-24947363 MsG0280008061.01.T01:CDS
AAGAAGTTGATAATTGAATC+GGG 0.444433 2:+24947904 None:intergenic
ACATACGCAATATCATCAAA+AGG 0.472800 2:-24947855 MsG0280008061.01.T01:CDS
GCAGATAGCGTTAACATTGA+AGG 0.493892 2:+24947298 None:intergenic
ATGAGGTAGGATACGATGAA+TGG 0.499551 2:+24948000 None:intergenic
CCTTTGTCGGCATTAGAAGA+TGG 0.503567 2:-24947462 MsG0280008061.01.T01:CDS
ACGCGCGTTTCGACTAAACT+TGG 0.521863 2:+24947546 None:intergenic
TGAGGTAGGATACGATGAAT+GGG 0.529282 2:+24948001 None:intergenic
AAAATGATCCGTAACTGGAT+AGG 0.532962 2:-24947511 MsG0280008061.01.T01:CDS
AGCTGAATTGCAAGAACTGA+GGG 0.543263 2:+24947722 None:intergenic
CATACGCAATATCATCAAAA+GGG 0.549145 2:-24947854 MsG0280008061.01.T01:CDS
CTGGATCTTCAAAATTGTTG+GGG 0.568273 2:-24947327 MsG0280008061.01.T01:CDS
CAGATAGCGTTAACATTGAA+GGG 0.573037 2:+24947299 None:intergenic
TGAATCTGACATTGTCCGCA+TGG 0.573592 2:-24947755 MsG0280008061.01.T01:CDS
GAATGGGTTTGAAGTGGTGG+TGG 0.575317 2:+24948017 None:intergenic
CCATCTTCTAATGCCGACAA+AGG 0.612622 2:+24947462 None:intergenic
AAGCTGAATTGCAAGAACTG+AGG 0.612798 2:+24947721 None:intergenic
TCCGAATTTGTCAATGAGGT+AGG 0.619489 2:+24947987 None:intergenic
ATATCATCAAAAGGGTACCA+TGG 0.628317 2:-24947846 MsG0280008061.01.T01:CDS
GATGAATGGGTTTGAAGTGG+TGG 0.633822 2:+24948014 None:intergenic
AATTTGAGAGAAAATAGGAA+AGG 0.640380 2:+24948051 None:intergenic
GTATTGCAGGAAAGAATCCA+TGG 0.640699 2:+24947829 None:intergenic
AGAATCCGAATTTGTCAATG+AGG 0.640871 2:+24947983 None:intergenic
TACGATGAATGGGTTTGAAG+TGG 0.656177 2:+24948011 None:intergenic
AAGTGGTGGTGGTAGTGGTG+AGG 0.657250 2:+24948028 None:intergenic
GAGGGTTACCTTTAACCATG+CGG 0.736609 2:+24947740 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TACTTAATAATTCAAAAAGA+GGG + Chr2:24947806-24947825 None:intergenic 15.0%
!! AGAGTAAAAATTGAAACTTT+GGG + Chr2:24947593-24947612 None:intergenic 20.0%
!! CTACTTAATAATTCAAAAAG+AGG + Chr2:24947807-24947826 None:intergenic 20.0%
!!! CTCTTTTTGAATTATTAAGT+AGG - Chr2:24947805-24947824 MsG0280008061.01.T01:CDS 20.0%
!!! TTTCAATATTTTCTATCCAA+AGG - Chr2:24947702-24947721 MsG0280008061.01.T01:CDS 20.0%
! AATTTGAGAGAAAATAGGAA+AGG + Chr2:24947333-24947352 None:intergenic 25.0%
! ATCAACTTCTTCAAAAATCA+TGG - Chr2:24947489-24947508 MsG0280008061.01.T01:CDS 25.0%
! GAGAGTAAAAATTGAAACTT+TGG + Chr2:24947594-24947613 None:intergenic 25.0%
!! AAGCTACTTTGTAAAATTTG+AGG + Chr2:24947768-24947787 None:intergenic 25.0%
!! AGCTACTTTGTAAAATTTGA+GGG + Chr2:24947767-24947786 None:intergenic 25.0%
!! TTTCAATTTTTACTCTCCAA+AGG - Chr2:24947597-24947616 MsG0280008061.01.T01:CDS 25.0%
!!! AAGAAGTTGATAATTGAATC+GGG + Chr2:24947480-24947499 None:intergenic 25.0%
!!! GAAGAAGTTGATAATTGAAT+CGG + Chr2:24947481-24947500 None:intergenic 25.0%
ACATACGCAATATCATCAAA+AGG - Chr2:24947526-24947545 MsG0280008061.01.T01:CDS 30.0%
ACTGGATCTTCAAAATTGTT+GGG - Chr2:24948053-24948072 MsG0280008061.01.T01:CDS 30.0%
CATACGCAATATCATCAAAA+GGG - Chr2:24947527-24947546 MsG0280008061.01.T01:CDS 30.0%
GGTTGTTAGGTTATGAAATT+TGG - Chr2:24947958-24947977 MsG0280008061.01.T01:CDS 30.0%
TACTGGATCTTCAAAATTGT+TGG - Chr2:24948052-24948071 MsG0280008061.01.T01:CDS 30.0%
TGAGGAATTTGAGAGAAAAT+AGG + Chr2:24947338-24947357 None:intergenic 30.0%
!!! GGTTTTGAAATAAAGCTGTT+TGG + Chr2:24947448-24947467 None:intergenic 30.0%
!!! TCTTTTTTCCTATCCAGTTA+CGG + Chr2:24947881-24947900 None:intergenic 30.0%
AAAATGATCCGTAACTGGAT+AGG - Chr2:24947870-24947889 MsG0280008061.01.T01:CDS 35.0%
AGAATCCGAATTTGTCAATG+AGG + Chr2:24947401-24947420 None:intergenic 35.0%
CAGATAGCGTTAACATTGAA+GGG + Chr2:24948085-24948104 None:intergenic 35.0%
CCAAAAAAATGATCCGTAAC+TGG - Chr2:24947865-24947884 MsG0280008061.01.T01:CDS 35.0%
CTGGATAGGAAAAAAGACTT+TGG - Chr2:24947884-24947903 MsG0280008061.01.T01:CDS 35.0%
CTGGATCTTCAAAATTGTTG+GGG - Chr2:24948054-24948073 MsG0280008061.01.T01:CDS 35.0%
TCCTACCTCATTGACAAATT+CGG - Chr2:24947393-24947412 MsG0280008061.01.T01:CDS 35.0%
TTGCAAATCATGCTCTTGTA+GGG - Chr2:24948018-24948037 MsG0280008061.01.T01:CDS 35.0%
TTTGCAAATCATGCTCTTGT+AGG - Chr2:24948017-24948036 MsG0280008061.01.T01:CDS 35.0%
! AATTGAATCGGGTTTTTGTG+AGG + Chr2:24947469-24947488 None:intergenic 35.0%
! AGATGGAAGCTTTTGATGAA+TGG - Chr2:24947936-24947955 MsG0280008061.01.T01:CDS 35.0%
! GATGGAAGCTTTTGATGAAT+GGG - Chr2:24947937-24947956 MsG0280008061.01.T01:CDS 35.0%
! GTAGGGTTTTTCTTTTGTAC+TGG - Chr2:24948035-24948054 MsG0280008061.01.T01:CDS 35.0%
!! ATATCATCAAAAGGGTACCA+TGG - Chr2:24947535-24947554 MsG0280008061.01.T01:CDS 35.0%
!!! CCAGTTACGGATCATTTTTT+TGG + Chr2:24947868-24947887 None:intergenic 35.0%
!!! CTTTTGATGAATGGGTTGTT+AGG - Chr2:24947945-24947964 MsG0280008061.01.T01:CDS 35.0%
AAGCTGAATTGCAAGAACTG+AGG + Chr2:24947663-24947682 None:intergenic 40.0%
AGCTGAATTGCAAGAACTGA+GGG + Chr2:24947662-24947681 None:intergenic 40.0%
ATGAGGTAGGATACGATGAA+TGG + Chr2:24947384-24947403 None:intergenic 40.0%
GATTCTCACATCTCCTTTGT+CGG - Chr2:24947906-24947925 MsG0280008061.01.T01:CDS 40.0%
GCAGATAGCGTTAACATTGA+AGG + Chr2:24948086-24948105 None:intergenic 40.0%
GTATTGCAGGAAAGAATCCA+TGG + Chr2:24947555-24947574 None:intergenic 40.0%
TCCGAATTTGTCAATGAGGT+AGG + Chr2:24947397-24947416 None:intergenic 40.0%
TGAGGTAGGATACGATGAAT+GGG + Chr2:24947383-24947402 None:intergenic 40.0%
! TACGATGAATGGGTTTGAAG+TGG + Chr2:24947373-24947392 None:intergenic 40.0%
!! AATCGTTTTCTGGGTATTGC+AGG + Chr2:24947568-24947587 None:intergenic 40.0%
!! ACTTTGGGAGAATCGTTTTC+TGG + Chr2:24947578-24947597 None:intergenic 40.0%
!! ATCAGAAGAAGAAGCACCTT+TGG + Chr2:24947721-24947740 None:intergenic 40.0%
!! CTTTGGGAGAATCGTTTTCT+GGG + Chr2:24947577-24947596 None:intergenic 40.0%
CCATCTTCTAATGCCGACAA+AGG + Chr2:24947922-24947941 None:intergenic 45.0%
CCTTTGTCGGCATTAGAAGA+TGG - Chr2:24947919-24947938 MsG0280008061.01.T01:CDS 45.0%
GACATTGTCCGCATGGTTAA+AGG - Chr2:24947633-24947652 MsG0280008061.01.T01:CDS 45.0%
GAGGGTTACCTTTAACCATG+CGG + Chr2:24947644-24947663 None:intergenic 45.0%
TGAATCTGACATTGTCCGCA+TGG - Chr2:24947626-24947645 MsG0280008061.01.T01:CDS 45.0%
! GATGAATGGGTTTGAAGTGG+TGG + Chr2:24947370-24947389 None:intergenic 45.0%
!! GTCAGATTCAGAAGCACCTT+TGG + Chr2:24947616-24947635 None:intergenic 45.0%
ACGCGCGTTTCGACTAAACT+TGG + Chr2:24947838-24947857 None:intergenic 50.0%
! GAATGGGTTTGAAGTGGTGG+TGG + Chr2:24947367-24947386 None:intergenic 50.0%
!! GTTTGAAGTGGTGGTGGTAG+TGG + Chr2:24947361-24947380 None:intergenic 50.0%
!! AAGTGGTGGTGGTAGTGGTG+AGG + Chr2:24947356-24947375 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 24947267 24948136 24947267 ID=MsG0280008061.01;Name=MsG0280008061.01
Chr2 mRNA 24947267 24948136 24947267 ID=MsG0280008061.01.T01;Parent=MsG0280008061.01;Name=MsG0280008061.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|289
Chr2 exon 24947267 24948136 24947267 ID=MsG0280008061.01.T01:exon:34882;Parent=MsG0280008061.01.T01
Chr2 CDS 24947267 24948136 24947267 ID=MsG0280008061.01.T01:cds;Parent=MsG0280008061.01.T01
Gene Sequence

>MsG0280008061.01.T01

ATGTTGAAAGCTTTTCTCTGCAAAAATGCATTTCGCATATCAACAACAACACTCTACAACGCACCTTTCCTATTTTCTCTCAAATTCCTCACCACTACCACCACCACTTCAAACCCATTCATCGTATCCTACCTCATTGACAAATTCGGATTCTCACATGAATTCGCACTCAAAGCTTCCAAACAGCTTTATTTCAAAACCTCACAAAAACCCGATTCAATTATCAACTTCTTCAAAAATCATGGTTTCAATGACTCAGACATACGCAATATCATCAAAAGGGTACCATGGATTCTTTCCTGCAATACCCAGAAAACGATTCTCCCAAAGTTTCAATTTTTACTCTCCAAAGGTGCTTCTGAATCTGACATTGTCCGCATGGTTAAAGGTAACCCTCAGTTCTTGCAATTCAGCTTGAAGACTCGTGAAATTAAGTTTCAATATTTTCTATCCAAAGGTGCTTCTTCTTCTGATATTGTTTCATTGTTAACTGCAAACCCTCAAATTTTACAAAGTAGCTTAGACAAACGAATAATCCCTCTTTTTGAATTATTAAGTAGGTTCTTGACCAAGTTTAGTCGAAACGCGCGTGATGAAGCCAAAAAAATGATCCGTAACTGGATAGGAAAAAAGACTTTGGATTCTCACATCTCCTTTGTCGGCATTAGAAGATGGAAGCTTTTGATGAATGGGTTGTTAGGTTATGAAATTTGGTTTAATTTCTCATATTTGTCTGCAAAGTTTATGTGTTTTGCAAATCATGCTCTTGTAGGGTTTTTCTTTTGTACTGGATCTTCAAAATTGTTGGGGAATGTCCCTTCAATGTTAACGCTATCTGCTTGTAATGTTCTCTATGTTATGAAATGTTAA
Protein sequence

>MsG0280008061.01.T01

MLKAFLCKNAFRISTTTLYNAPFLFSLKFLTTTTTTSNPFIVSYLIDKFGFSHEFALKASKQLYFKTSQKPDSIINFFKNHGFNDSDIRNIIKRVPWILSCNTQKTILPKFQFLLSKGASESDIVRMVKGNPQFLQFSLKTREIKFQYFLSKGASSSDIVSLLTANPQILQSSLDKRIIPLFELLSRFLTKFSRNARDEAKKMIRNWIGKKTLDSHISFVGIRRWKLLMNGLLGYEIWFNFSYLSAKFMCFANHALVGFFFCTGSSKLLGNVPSMLTLSACNVLYVMKC*