AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0795860


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0795860 MtrunA17_Chr5g0398871 96.429 196 7 0 1 196 22 217 5.09e-141 392
Msa0795860 MtrunA17_Chr4g0056601 62.887 194 61 2 9 191 10 203 5.88e-84 247
Msa0795860 MtrunA17_Chr3g0079401 52.976 168 78 1 23 190 21 187 8.61e-64 195
Msa0795860 MtrunA17_Chr3g0079381 50.595 168 82 1 23 190 20 186 4.20e-61 188
Msa0795860 MtrunA17_Chr4g0018281 43.030 165 91 1 27 191 36 197 6.36e-45 147
Msa0795860 MtrunA17_Chr4g0018241 37.688 199 112 2 1 190 1 196 3.40e-41 138
Msa0795860 MtrunA17_Chr4g0018251 41.463 164 93 1 27 190 36 196 9.21e-41 137
Msa0795860 MtrunA17_Chr4g0011681 37.811 201 107 6 9 195 10 206 8.16e-38 130
Msa0795860 MtrunA17_Chr4g0011711 36.735 196 116 4 7 195 12 206 6.97e-37 127
Msa0795860 MtrunA17_Chr4g0011701 36.683 199 108 6 9 193 10 204 3.14e-36 125
Msa0795860 MtrunA17_Chr4g0011721 35.052 194 114 4 7 191 12 202 7.44e-35 122
Msa0795860 MtrunA17_Chr8g0391341 38.596 171 96 3 25 187 42 211 2.33e-33 118
Msa0795860 MtrunA17_Chr4g0067891 38.596 171 96 3 25 187 33 202 4.28e-33 117
Msa0795860 MtrunA17_Chr7g0269361 35.802 162 99 2 28 189 34 190 2.84e-30 110
Msa0795860 MtrunA17_Chr7g0230391 38.235 170 92 6 26 184 42 209 4.78e-30 110
Msa0795860 MtrunA17_Chr3g0079371 34.161 161 102 2 27 185 66 224 1.02e-28 107
Msa0795860 MtrunA17_Chr1g0195561 31.481 162 106 2 28 189 33 189 1.93e-25 97.4
Msa0795860 MtrunA17_Chr2g0301381 35.359 181 96 6 16 189 23 189 4.68e-25 96.7
Msa0795860 MtrunA17_Chr4g0070161 31.088 193 116 5 8 189 13 199 2.04e-23 92.8
Msa0795860 MtrunA17_Chr4g0018231 31.056 161 110 1 27 187 43 202 8.12e-23 90.9
Msa0795860 MtrunA17_Chr3g0126771 30.864 162 107 2 24 182 74 233 1.13e-17 80.5
Msa0795860 MtrunA17_Chr1g0147051 29.762 168 106 3 24 182 78 242 7.90e-17 77.8
Msa0795860 MtrunA17_Chr8g0345281 25.478 157 113 2 28 182 68 222 1.39e-14 71.2
Msa0795860 MtrunA17_Chr8g0345211 29.341 167 108 5 20 183 69 228 2.63e-11 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0795860 AT1G62770.1 49.756 205 93 6 1 196 1 204 4.50e-60 186
Msa0795860 AT4G12390.1 56.213 169 70 2 27 192 39 206 2.33e-59 185
Msa0795860 AT4G25260.1 45.856 181 97 1 11 190 21 201 1.36e-54 172
Msa0795860 AT5G62350.1 46.667 165 87 1 27 190 38 202 1.16e-53 170
Msa0795860 AT3G47380.1 42.268 194 102 2 7 190 9 202 6.88e-51 163
Msa0795860 AT5G62360.1 41.818 165 92 2 26 190 42 202 9.37e-45 147
Msa0795860 AT1G62760.1 42.614 176 91 2 20 191 140 309 7.14e-41 140
Msa0795860 AT1G14890.1 41.566 166 90 2 26 189 57 217 1.14e-38 132
Msa0795860 AT2G01610.1 40.113 177 93 3 26 189 43 219 3.50e-37 129
Msa0795860 AT5G20740.1 40.361 166 90 3 26 186 32 193 1.52e-35 124
Msa0795860 AT5G20740.2 40.361 166 90 3 26 186 66 227 5.57e-35 124
Msa0795860 AT4G25250.1 34.356 163 105 2 27 188 37 198 2.60e-33 118
Msa0795860 AT4G00080.1 36.181 199 112 6 1 185 1 198 2.69e-33 118
Msa0795860 AT1G70720.1 34.254 181 110 3 12 187 18 194 4.98e-29 107
Msa0795860 AT1G70720.2 34.254 181 110 3 12 187 30 206 5.95e-29 107
Msa0795860 AT5G51520.1 33.333 168 102 2 27 186 37 202 4.41e-27 102
Msa0795860 AT1G23205.1 35.326 184 106 4 11 184 17 197 1.43e-24 95.9
Msa0795860 AT3G62820.1 32.796 186 115 5 8 188 11 191 2.67e-22 89.7
Msa0795860 AT3G14310.1 28.488 172 118 3 21 189 50 219 1.96e-20 88.6
Msa0795860 AT2G47670.1 30.675 163 109 2 25 187 46 204 1.15e-19 83.2
Msa0795860 AT1G53830.1 28.235 170 119 2 21 189 55 222 2.06e-17 80.1
Msa0795860 AT3G49220.2 32.184 174 92 7 24 190 128 282 2.92e-15 73.6
Msa0795860 AT3G49220.1 32.184 174 92 7 24 190 83 237 4.77e-15 73.2
Msa0795860 AT3G49220.3 32.184 174 92 7 24 190 128 282 4.96e-15 73.2
Msa0795860 AT5G53370.2 27.500 160 108 4 24 182 107 259 3.90e-13 67.4
Msa0795860 AT5G53370.1 27.500 160 108 4 24 182 71 223 4.43e-13 67.4
Msa0795860 AT3G14300.1 26.136 176 123 2 22 191 265 439 3.22e-12 65.1
Msa0795860 AT5G62340.1 24.623 199 127 5 9 190 14 206 4.28e-11 60.1

Find 51 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTTATGCGTTCAATGTCTTA+TGG 0.188587 5_3:+7882225 Msa0795860:CDS
GATGATAACACTTGTCTTGA+TGG 0.271370 5_3:+7882538 Msa0795860:CDS
ACTTGTCTTGATGGCTTTGC+TGG 0.284433 5_3:+7882547 Msa0795860:CDS
TAGAGCAGGGGTTTATTTGC+TGG 0.342763 5_3:+7882117 Msa0795860:CDS
AGAAAACATGGGTGACAGTT+TGG 0.352972 5_3:+7882405 Msa0795860:CDS
TTATGCGTTCAATGTCTTAT+GGG 0.361779 5_3:+7882226 Msa0795860:CDS
ATTGACAACCCTGTCCTTGA+TGG 0.385514 5_3:-7882599 None:intergenic
TACCAGCAACACACTCGCTT+TGG 0.400248 5_3:+7882633 Msa0795860:CDS
ATGGGGTATGCGAGCGTGAT+TGG 0.403801 5_3:+7882244 Msa0795860:CDS
AACCAAAGCGAGTGTGTTGC+TGG 0.408904 5_3:-7882635 None:intergenic
TTCCATGAATGGAATTGTTA+AGG 0.412818 5_3:+7882573 Msa0795860:CDS
TCGTTAGTTGTCGCTCGCTT+TGG 0.415738 5_3:-7882267 None:intergenic
AGCCTTAACAATTCCATTCA+TGG 0.416556 5_3:-7882575 None:intergenic
ACATGAACAACGTGCAGACT+TGG 0.438369 5_3:+7882497 Msa0795860:CDS
GTAAACATGGCGGCTAGAGC+AGG 0.443562 5_3:+7882103 None:intergenic
TTTGCTGGTCCTTCCATGAA+TGG 0.446590 5_3:+7882562 Msa0795860:CDS
CGATGCACTCGATCGTGTCC+TGG 0.450154 5_3:-7882314 None:intergenic
GGCAGTATTGGTCATGCTGT+TGG 0.460878 5_3:+7882457 Msa0795860:CDS
AGCCAATCGGTTAGGAAGTT+AGG 0.468503 5_3:+7882436 Msa0795860:CDS
GTTAGGAAGTTAGGCAGTAT+TGG 0.470731 5_3:+7882445 Msa0795860:CDS
GAACTCTGATGGGGTTATAG+AGG 0.476311 5_3:-7882167 None:intergenic
TTAAGGCTGCCATCAAGGAC+AGG 0.476862 5_3:+7882590 Msa0795860:CDS
TGTACGGCTCTGTACTCCCT+TGG 0.486585 5_3:-7882373 None:intergenic
ACAGTCTTAGCCAATCGGTT+AGG 0.487696 5_3:+7882428 Msa0795860:CDS
CTCTATCAGTGAGCATATCC+AGG 0.495431 5_3:+7882296 Msa0795860:CDS
TTTGGACAGTCTTAGCCAAT+CGG 0.504656 5_3:+7882423 Msa0795860:CDS
GGCAAGAGGCATCAAGCCAA+GGG 0.526611 5_3:+7882357 Msa0795860:CDS
TATGCGTTCAATGTCTTATG+GGG 0.527485 5_3:+7882227 Msa0795860:CDS
TTCTGCAGTTCGATGGCTTG+AGG 0.534233 5_3:-7882668 None:intergenic
TAAACATGGCGGCTAGAGCA+GGG 0.538519 5_3:+7882104 None:intergenic
AATTGTTAAGGCTGCCATCA+AGG 0.538854 5_3:+7882585 Msa0795860:CDS
TGCCTAACTTCCTAACCGAT+TGG 0.544285 5_3:-7882438 None:intergenic
AGGCAAGAGGCATCAAGCCA+AGG 0.545433 5_3:+7882356 Msa0795860:CDS
GAGGACTTGATGAACTCTGA+TGG 0.549989 5_3:-7882178 None:intergenic
AGGACTTGATGAACTCTGAT+GGG 0.550827 5_3:-7882177 None:intergenic
AAGGAGTTTCTGCAGTTCGA+TGG 0.560457 5_3:-7882675 None:intergenic
CTGCAGTGACAAGGCTCATG+AGG 0.569036 5_3:-7882141 None:intergenic
ACAAGACTGCATAGAAAACA+TGG 0.577763 5_3:+7882393 Msa0795860:CDS
CATGAACAACGTGCAGACTT+GGG 0.585314 5_3:+7882498 Msa0795860:CDS
TTAACAATTCCATTCATGGA+AGG 0.596367 5_3:-7882571 None:intergenic
TAAGGCTGCCATCAAGGACA+GGG 0.619720 5_3:+7882591 Msa0795860:CDS
TATTGGTCATGCTGTTGGAG+AGG 0.620267 5_3:+7882462 Msa0795860:CDS
TAGAGGATTCTGCAGTGACA+AGG 0.636790 5_3:-7882150 None:intergenic
CAGAAGATATCAAAGGCAAG+AGG 0.641738 5_3:+7882343 Msa0795860:CDS
GTTTGTACAGAAGATATCAA+AGG 0.649432 5_3:+7882336 Msa0795860:CDS
AAACATGGCGGCTAGAGCAG+GGG 0.661918 5_3:+7882105 None:intergenic
ATAGCGAGTAGCTCTACATG+AGG 0.683240 5_3:-7882197 None:intergenic
GGATATGCTCACTGATAGAG+CGG 0.692375 5_3:-7882293 None:intergenic
GGACTTGATGAACTCTGATG+GGG 0.708124 5_3:-7882176 None:intergenic
CAAGACTGCATAGAAAACAT+GGG 0.713583 5_3:+7882394 Msa0795860:CDS
CTGTTGGAGAGGACTTCGTG+TGG 0.729717 5_3:+7882473 Msa0795860:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGACATTGAACGCATAAAAA+AGG - chr5_3:7882223-7882242 None:intergenic 30.0%
TTTATGCGTTCAATGTCTTA+TGG + chr5_3:7882225-7882244 Msa0795860:CDS 30.0%
TTATGCGTTCAATGTCTTAT+GGG + chr5_3:7882226-7882245 Msa0795860:CDS 30.0%
GTTTGTACAGAAGATATCAA+AGG + chr5_3:7882336-7882355 Msa0795860:CDS 30.0%
TTAACAATTCCATTCATGGA+AGG - chr5_3:7882574-7882593 None:intergenic 30.0%
TTCCATGAATGGAATTGTTA+AGG + chr5_3:7882573-7882592 Msa0795860:CDS 30.0%
TATGCGTTCAATGTCTTATG+GGG + chr5_3:7882227-7882246 Msa0795860:CDS 35.0%
!! GTTTTCTATGCAGTCTTGTA+CGG - chr5_3:7882392-7882411 None:intergenic 35.0%
ACAAGACTGCATAGAAAACA+TGG + chr5_3:7882393-7882412 Msa0795860:CDS 35.0%
CAAGACTGCATAGAAAACAT+GGG + chr5_3:7882394-7882413 Msa0795860:CDS 35.0%
GATGATAACACTTGTCTTGA+TGG + chr5_3:7882538-7882557 Msa0795860:CDS 35.0%
AGCCTTAACAATTCCATTCA+TGG - chr5_3:7882578-7882597 None:intergenic 35.0%
AGGACTTGATGAACTCTGAT+GGG - chr5_3:7882180-7882199 None:intergenic 40.0%
CAGAAGATATCAAAGGCAAG+AGG + chr5_3:7882343-7882362 Msa0795860:CDS 40.0%
AGAAAACATGGGTGACAGTT+TGG + chr5_3:7882405-7882424 Msa0795860:CDS 40.0%
TTTGGACAGTCTTAGCCAAT+CGG + chr5_3:7882423-7882442 Msa0795860:CDS 40.0%
GTTAGGAAGTTAGGCAGTAT+TGG + chr5_3:7882445-7882464 Msa0795860:CDS 40.0%
AATTGTTAAGGCTGCCATCA+AGG + chr5_3:7882585-7882604 Msa0795860:CDS 40.0%
TAGAGCAGGGGTTTATTTGC+TGG + chr5_3:7882117-7882136 Msa0795860:CDS 45.0%
TAGAGGATTCTGCAGTGACA+AGG - chr5_3:7882153-7882172 None:intergenic 45.0%
GAACTCTGATGGGGTTATAG+AGG - chr5_3:7882170-7882189 None:intergenic 45.0%
GGACTTGATGAACTCTGATG+GGG - chr5_3:7882179-7882198 None:intergenic 45.0%
GAGGACTTGATGAACTCTGA+TGG - chr5_3:7882181-7882200 None:intergenic 45.0%
! ATAGCGAGTAGCTCTACATG+AGG - chr5_3:7882200-7882219 None:intergenic 45.0%
GGATATGCTCACTGATAGAG+CGG - chr5_3:7882296-7882315 None:intergenic 45.0%
CTCTATCAGTGAGCATATCC+AGG + chr5_3:7882296-7882315 Msa0795860:CDS 45.0%
ACAGTCTTAGCCAATCGGTT+AGG + chr5_3:7882428-7882447 Msa0795860:CDS 45.0%
AGCCAATCGGTTAGGAAGTT+AGG + chr5_3:7882436-7882455 Msa0795860:CDS 45.0%
TGCCTAACTTCCTAACCGAT+TGG - chr5_3:7882441-7882460 None:intergenic 45.0%
TATTGGTCATGCTGTTGGAG+AGG + chr5_3:7882462-7882481 Msa0795860:CDS 45.0%
ACATGAACAACGTGCAGACT+TGG + chr5_3:7882497-7882516 Msa0795860:CDS 45.0%
CATGAACAACGTGCAGACTT+GGG + chr5_3:7882498-7882517 Msa0795860:CDS 45.0%
! ACTTGTCTTGATGGCTTTGC+TGG + chr5_3:7882547-7882566 Msa0795860:CDS 45.0%
TTTGCTGGTCCTTCCATGAA+TGG + chr5_3:7882562-7882581 Msa0795860:CDS 45.0%
ATTGACAACCCTGTCCTTGA+TGG - chr5_3:7882602-7882621 None:intergenic 45.0%
AAGGAGTTTCTGCAGTTCGA+TGG - chr5_3:7882678-7882697 None:intergenic 45.0%
TCGTTAGTTGTCGCTCGCTT+TGG - chr5_3:7882270-7882289 None:intergenic 50.0%
!! GGCAGTATTGGTCATGCTGT+TGG + chr5_3:7882457-7882476 Msa0795860:CDS 50.0%
TTAAGGCTGCCATCAAGGAC+AGG + chr5_3:7882590-7882609 Msa0795860:CDS 50.0%
TAAGGCTGCCATCAAGGACA+GGG + chr5_3:7882591-7882610 Msa0795860:CDS 50.0%
TACCAGCAACACACTCGCTT+TGG + chr5_3:7882633-7882652 Msa0795860:CDS 50.0%
AACCAAAGCGAGTGTGTTGC+TGG - chr5_3:7882638-7882657 None:intergenic 50.0%
TTCTGCAGTTCGATGGCTTG+AGG - chr5_3:7882671-7882690 None:intergenic 50.0%
CTGCAGTGACAAGGCTCATG+AGG - chr5_3:7882144-7882163 None:intergenic 55.0%
ATGGGGTATGCGAGCGTGAT+TGG + chr5_3:7882244-7882263 Msa0795860:CDS 55.0%
!! AGGCAAGAGGCATCAAGCCA+AGG + chr5_3:7882356-7882375 Msa0795860:CDS 55.0%
!! GGCAAGAGGCATCAAGCCAA+GGG + chr5_3:7882357-7882376 Msa0795860:CDS 55.0%
TGTACGGCTCTGTACTCCCT+TGG - chr5_3:7882376-7882395 None:intergenic 55.0%
CTGTTGGAGAGGACTTCGTG+TGG + chr5_3:7882473-7882492 Msa0795860:CDS 55.0%
CGATGCACTCGATCGTGTCC+TGG - chr5_3:7882317-7882336 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
chr5_3 gene 7882109 7882699 7882109 ID=Msa0795860;Name=Msa0795860
chr5_3 mRNA 7882109 7882699 7882109 ID=Msa0795860-mRNA-1;Parent=Msa0795860;Name=Msa0795860-mRNA-1;_AED=0.33;_eAED=0.33;_QI=0|-1|0|1|-1|1|1|0|196
chr5_3 exon 7882109 7882699 7882109 ID=Msa0795860-mRNA-1:exon:3239;Parent=Msa0795860-mRNA-1
chr5_3 CDS 7882109 7882699 7882109 ID=Msa0795860-mRNA-1:cds;Parent=Msa0795860-mRNA-1
Gene Sequence

>Msa0795860

ATGGCGGCTAGAGCAGGGGTTTATTTGCTGGTCCTCATGAGCCTTGTCACTGCAGAATCCTCTATAACCCCATCAGAGTTCATCAAGTCCTCATGTAGAGCTACTCGCTATCCTTTTTTATGCGTTCAATGTCTTATGGGGTATGCGAGCGTGATTGGCCAAAGCGAGCGACAACTAACGATAACCGCTCTATCAGTGAGCATATCCAGGACACGATCGAGTGCATCGTTTGTACAGAAGATATCAAAGGCAAGAGGCATCAAGCCAAGGGAGTACAGAGCCGTACAAGACTGCATAGAAAACATGGGTGACAGTTTGGACAGTCTTAGCCAATCGGTTAGGAAGTTAGGCAGTATTGGTCATGCTGTTGGAGAGGACTTCGTGTGGCACATGAACAACGTGCAGACTTGGGTCAGTGCTGCACTTACTGATGATAACACTTGTCTTGATGGCTTTGCTGGTCCTTCCATGAATGGAATTGTTAAGGCTGCCATCAAGGACAGGGTTGTCAATGTTGCTCAAGTTACCAGCAACACACTCGCTTTGGTTAATCACTTCGCCTCAAGCCATCGAACTGCAGAAACTCCTTAA

Protein sequence

>Msa0795860

MAARAGVYLLVLMSLVTAESSITPSEFIKSSCRATRYPFLCVQCLMGYASVIGQSERQLTITALSVSISRTRSSASFVQKISKARGIKPREYRAVQDCIENMGDSLDSLSQSVRKLGSIGHAVGEDFVWHMNNVQTWVSAALTDDNTCLDGFAGPSMNGIVKAAIKDRVVNVAQVTSNTLALVNHFASSHRTAETP*