AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040999

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040999 MtrunA17_Chr8g0334541 64.310 297 80 11 18 308 1 277 5.43e-110 320
MsaG040999 MtrunA17_Chr8g0350621 52.174 253 101 8 16 258 1 243 2.27e-68 214
MsaG040999 MtrunA17_Chr7g0244971 43.493 292 123 11 25 294 17 288 1.25e-60 195
MsaG040999 MtrunA17_Chr7g0244981 42.403 283 129 9 25 294 16 277 1.87e-60 194
MsaG040999 MtrunA17_Chr2g0315371 39.908 218 100 4 21 209 14 229 1.70e-43 150
MsaG040999 MtrunA17_Chr8g0350631 47.093 172 61 7 142 309 5 150 1.95e-34 122
MsaG040999 MtrunA17_Chr2g0315381 33.613 238 122 4 21 222 13 250 5.67e-33 123
MsaG040999 MtrunA17_Chr2g0315361 35.714 238 115 7 21 222 14 249 4.46e-32 121
MsaG040999 MtrunA17_Chr7g0275531 38.764 178 91 3 19 183 8 180 2.20e-31 119
MsaG040999 MtrunA17_Chr5g0428351 40.223 179 91 7 18 188 86 256 1.88e-30 117
MsaG040999 MtrunA17_Chr3g0128671 36.652 221 116 7 29 229 23 239 1.75e-26 106
MsaG040999 MtrunA17_Chr3g0126391 31.443 194 99 5 25 187 9 199 2.93e-21 92.4
MsaG040999 MtrunA17_Chr8g0387981 32.979 188 96 6 26 187 15 198 3.24e-20 89.7
MsaG040999 MtrunA17_Chr8g0347251 31.746 189 101 5 26 187 15 202 2.31e-19 87.0
MsaG040999 MtrunA17_Chr8g0350641 45.113 133 54 6 25 141 10 139 2.00e-18 80.1
MsaG040999 MtrunA17_Chr7g0224801 54.237 59 24 1 121 179 93 148 8.08e-14 68.6
MsaG040999 MtrunA17_Chr3g0129361 46.970 66 32 1 121 186 144 206 1.95e-13 68.6
MsaG040999 MtrunA17_Chr8g0383351 45.455 66 33 1 121 186 160 222 1.99e-13 68.6
MsaG040999 MtrunA17_Chr7g0238921 55.172 58 23 1 121 178 124 178 1.45e-12 67.0
MsaG040999 MtrunA17_Chr4g0051881 51.724 58 25 1 121 178 178 232 3.10e-12 66.2
MsaG040999 MtrunA17_Chr8g0335811 47.761 67 29 2 121 184 154 217 9.39e-12 63.5
MsaG040999 MtrunA17_Chr5g0431811 37.500 96 53 3 119 211 670 761 2.11e-11 64.7
MsaG040999 MtrunA17_Chr5g0443131 50.000 58 26 1 121 178 157 211 5.02e-11 62.4
MsaG040999 MtrunA17_Chr7g0248721 47.945 73 32 3 121 193 141 207 5.60e-11 61.2
MsaG040999 MtrunA17_Chr5g0418781 48.276 58 27 1 121 178 124 178 6.60e-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
MsaG040999 AT1G66550.2 32.231 242 133 9 15 247 2 221 1.81e-26 105
MsaG040999 AT1G66550.1 32.258 248 130 10 15 247 2 226 4.65e-26 104
MsaG040999 AT3G56400.1 33.498 203 98 5 12 194 8 193 7.81e-25 101
MsaG040999 AT1G66560.1 36.757 185 95 6 27 206 13 180 1.86e-24 99.8
MsaG040999 AT1G66600.1 31.658 199 116 4 57 250 40 223 3.30e-23 96.3
MsaG040999 AT5G22570.1 35.849 159 90 4 57 206 43 198 3.84e-22 94.4
MsaG040999 AT1G80590.1 37.662 154 74 3 27 180 13 144 4.64e-22 92.8
MsaG040999 AT5G01900.1 35.542 166 91 5 25 180 10 169 1.23e-21 92.4
MsaG040999 AT4G11070.2 33.520 179 103 4 13 183 1 171 1.89e-20 89.7
MsaG040999 AT4G11070.1 31.841 201 105 5 13 181 1 201 2.83e-20 89.7
MsaG040999 AT2G46400.1 33.333 201 102 8 23 209 3 185 6.54e-20 88.2
MsaG040999 AT5G24110.1 31.844 179 99 6 18 186 13 178 3.47e-19 86.3
MsaG040999 AT2G40750.1 31.064 235 111 8 25 216 17 243 3.55e-19 87.0
MsaG040999 AT2G40740.1 44.186 86 48 0 116 201 168 253 1.39e-18 84.7
MsaG040999 AT2G40740.3 44.186 86 48 0 116 201 177 262 1.94e-18 84.3
MsaG040999 AT4G23810.1 47.727 88 38 2 104 183 133 220 3.55e-18 84.0
MsaG040999 AT1G64000.1 46.575 73 34 2 121 193 114 181 6.69e-13 66.6
MsaG040999 AT2G46130.1 44.737 76 37 2 121 196 30 100 1.21e-12 63.9
MsaG040999 AT5G45260.1 43.590 78 41 2 104 178 1188 1265 1.50e-12 68.9
MsaG040999 AT5G46350.1 43.373 83 41 2 121 200 183 262 1.74e-12 67.4
MsaG040999 AT4G39410.1 48.276 58 27 1 121 178 223 277 3.83e-12 66.2
MsaG040999 AT2G44745.1 51.724 58 25 1 121 178 145 199 5.04e-12 64.7
MsaG040999 AT4G26440.1 45.312 64 31 2 103 165 159 219 1.13e-11 65.9
MsaG040999 AT1G29860.1 50.000 58 26 1 121 178 136 190 1.59e-11 64.3
MsaG040999 AT5G49520.1 50.847 59 26 1 121 179 221 276 2.06e-11 64.7
MsaG040999 AT5G41570.1 43.836 73 36 2 121 193 98 165 3.12e-11 61.6
MsaG040999 AT1G69310.4 48.276 58 27 1 121 178 147 201 4.57e-11 62.8
MsaG040999 AT1G69310.2 48.276 58 27 1 121 178 147 201 4.57e-11 62.8
MsaG040999 AT1G69310.1 48.276 58 27 1 121 178 147 201 4.57e-11 62.8
MsaG040999 AT5G13080.1 49.153 59 27 1 121 179 67 122 5.75e-11 60.1
MsaG040999 AT4G18170.1 50.000 58 26 1 121 178 172 226 5.86e-11 62.8

Find 66 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACACACACCTTGAGTATT+TGG 0.184403 8:-417732 None:intergenic
TGAATCATGTGATGATAAAA+AGG 0.256485 8:-418081 None:intergenic
TTTGCACTTGTTTGGTTGCT+TGG 0.274159 8:-417890 None:intergenic
TTGAATTCTTTGCACTTGTT+TGG 0.303242 8:-417898 None:intergenic
ATATAGTGAATTGAAAATTA+TGG 0.315126 8:+416812 MsaT040999.1:CDS
GTTCAAAAGGGTGAGGGTAT+TGG 0.366925 8:-416982 None:intergenic
GGGTATGAATGGAGAAAATA+TGG 0.368996 8:+417689 MsaT040999.1:CDS
CAATCTTGTTTGGTTGGAGT+TGG 0.387905 8:-418056 None:intergenic
ACCTTGAGTATTTGGAATTG+AGG 0.393271 8:-417724 None:intergenic
AATCTTGTTTGGTTGGAGTT+GGG 0.426902 8:-418055 None:intergenic
GAGATCTCCTGAGATTTAGT+TGG 0.441487 8:-417038 None:intergenic
ATCTACAAAAGCCCTAGAAA+AGG 0.443182 8:-418338 None:intergenic
AAGGGACAATCTTGTTTGGT+TGG 0.445134 8:-418062 None:intergenic
TCAGAATGTCCAACAGATGA+TGG 0.456231 8:+417668 MsaT040999.1:CDS
GTTGTTAAAGCTAAGCAATA+TGG 0.457680 8:-418027 None:intergenic
AGATTTAGTTGGACTAATGA+AGG 0.473744 8:-417027 None:intergenic
CGTGAGTTTGCAAACCAGCT+TGG 0.479698 8:+416876 MsaT040999.1:CDS
TTCAGTACTCGAACATTGTA+AGG 0.480995 8:+418100 MsaT040999.1:CDS
TTTGAACAAACATCACAAAA+CGG 0.482778 8:+416998 MsaT040999.1:CDS
CATTAGTCCAACTAAATCTC+AGG 0.483913 8:+417031 MsaT040999.1:CDS
TTCCTTGAATATTGATTACC+TGG 0.493626 8:+418145 MsaT040999.1:CDS
AACCAGGTAATCAATATTCA+AGG 0.496471 8:-418147 None:intergenic
GAAATATCTAAAGTGTGCTC+AGG 0.504315 8:-418173 None:intergenic
TCTACAAAAGCCCTAGAAAA+GGG 0.519570 8:-418337 None:intergenic
TTTGTGATGTTTGTTCAAAA+GGG 0.523519 8:-416994 None:intergenic
ATCAATATTCAAGGAAGGTG+AGG 0.528994 8:-418138 None:intergenic
CATACTTCCACCACTGGTAG+AGG 0.539107 8:+417065 MsaT040999.1:CDS
CATTCATACCCATCATCTGT+TGG 0.541481 8:-417677 None:intergenic
TTATTACAAGTTGTCCAAGC+TGG 0.545077 8:-416890 None:intergenic
CAACAGATGATGGGTATGAA+TGG 0.546718 8:+417678 MsaT040999.1:CDS
GTAGAGGATCTTACAAAAGA+AGG 0.546964 8:+417081 MsaT040999.1:CDS
TAATATGTGGTCTTATATGA+AGG 0.547746 8:-417930 None:intergenic
TAGAAATGAGGCAATGGAGG+AGG 0.549808 8:+416839 MsaT040999.1:CDS
AATTATGGATCTTAGAAATG+AGG 0.549930 8:+416827 MsaT040999.1:CDS
ATATATGCAGGGACTACTAC+AGG 0.552760 8:+417841 MsaT040999.1:intron
TTTGTAAGATCCTCTACCAG+TGG 0.556118 8:-417075 None:intergenic
AAGGATATGATGATGATGTA+TGG 0.557692 8:+418266 MsaT040999.1:CDS
GTTGACAAGAACAAGATGTT+GGG 0.558462 8:-416940 None:intergenic
GATGAATCATCATCATGAGT+TGG 0.560242 8:+416917 MsaT040999.1:CDS
CATCTGAGTTATTGCAAGTG+TGG 0.563470 8:-417959 None:intergenic
TCCTCAATTCCAAATACTCA+AGG 0.566315 8:+417723 MsaT040999.1:CDS
AACTACATCAACATGGGAGA+AGG 0.572317 8:+417643 MsaT040999.1:CDS
TCACAACATACTTCCACCAC+TGG 0.575996 8:+417059 MsaT040999.1:CDS
GTAAGATCCTCTACCAGTGG+TGG 0.578848 8:-417072 None:intergenic
ATTGTGATCATGAGGAGAAG+TGG 0.579266 8:-417997 None:intergenic
CAGAATGTCCAACAGATGAT+GGG 0.586212 8:+417669 MsaT040999.1:CDS
TTGTGATCATGAGGAGAAGT+GGG 0.590420 8:-417996 None:intergenic
GGATCTTAGAAATGAGGCAA+TGG 0.593677 8:+416833 MsaT040999.1:CDS
TGGAGGAGGAGCTAGTGAGA+GGG 0.597611 8:+416853 MsaT040999.1:CDS
GATGTTTGTTCAAAAGGGTG+AGG 0.598856 8:-416989 None:intergenic
TGTTGACAAGAACAAGATGT+TGG 0.603924 8:-416941 None:intergenic
ATGGAGGAGGAGCTAGTGAG+AGG 0.606187 8:+416852 MsaT040999.1:CDS
TCTTAGAAATGAGGCAATGG+AGG 0.606927 8:+416836 MsaT040999.1:CDS
GAGGAAGTATTGTGATCATG+AGG 0.607427 8:-418005 None:intergenic
TCAATATTCAAGGAAGGTGA+GGG 0.611078 8:-418137 None:intergenic
GTTAAAGCTAAGCAATATGG+AGG 0.618068 8:-418024 None:intergenic
AGGTAATCAATATTCAAGGA+AGG 0.620262 8:-418143 None:intergenic
CTGAGTTATTGCAAGTGTGG+CGG 0.632598 8:-417956 None:intergenic
AAGTGTGCTCAGGAGAAACC+AGG 0.635271 8:-418163 None:intergenic
ATTGAGTGCTACTACTGACT+TGG 0.641003 8:-418208 None:intergenic
ATGTTTGTTCAAAAGGGTGA+GGG 0.642130 8:-416988 None:intergenic
TGAATCTGATGATGATCACA+AGG 0.649265 8:+418247 MsaT040999.1:CDS
TATGTGGTCTTATATGAAGG+AGG 0.655421 8:-417927 None:intergenic
AGTGTGGCGGTCGTAATATG+TGG 0.655558 8:-417943 None:intergenic
AGTACTCGAACATTGTAAGG+AGG 0.678069 8:+418103 MsaT040999.1:CDS
AAGGGTAAAAGAAATCACGA+TGG 0.749869 8:-418319 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 416786 418358 416786 ID=MsaG040999
Chr8 mRNA 416786 418358 416786 ID=MsaT040999.1;Parent=MsaG040999
Chr8 exon 416786 417102 416786 ID=MsaT040999.1.exon1;Parent=MsaT040999.1
Chr8 CDS 416786 417102 416786 ID=cds.MsaT040999.1;Parent=MsaT040999.1
Chr8 exon 417640 417744 417640 ID=MsaT040999.1.exon2;Parent=MsaT040999.1
Chr8 CDS 417640 417744 417640 ID=cds.MsaT040999.1;Parent=MsaT040999.1
Chr8 exon 417851 418358 417851 ID=MsaT040999.1.exon3;Parent=MsaT040999.1
Chr8 CDS 417851 418358 417851 ID=cds.MsaT040999.1;Parent=MsaT040999.1
Gene Sequence

>MsaT040999.1

ATGGAAAAAAGGCTAGAAAAGGAAGGATATAGTGAATTGAAAATTATGGATCTTAGAAATGAGGCAATGGAGGAGGAGCTAGTGAGAGGGCGTGAGTTTGCAAACCAGCTTGGACAACTTGTAATAACATTGATGAATCATCATCATGAGTTGGCCCAACATCTTGTTCTTGTCAACAACATTATCAACTCATTTACCAATACCCTCACCCTTTTGAACAAACATCACAAAACGGATTCTTCCTTCATTAGTCCAACTAAATCTCAGGAGATCTCACAACATACTTCCACCACTGGTAGAGGATCTTACAAAAGAAGAAAAACTACATCAACATGGGAGAAGGTGTCAGAATGTCCAACAGATGATGGGTATGAATGGAGAAAATATGGTCAAAAAACAATCCTCAATTCCAAATACTCAAGGGACTACTACAGGTGTACTCACAAGCTTGATCAAAGATGCCAAGCAACCAAACAAGTGCAAAGAATTCAAGAGAAGCCTCCTTCATATAAGACCACATATTACGACCGCCACACTTGCAATAACTCAGATGAAATCATATTTGAACCCACTTCTCCTCATGATCACAATACTTCCTCCATATTGCTTAGCTTTAACAACACATTCCCAACTCCAACCAAACAAGATTGTCCCTTTTTATCATCACATGATTCAGTACTCGAACATTGTAAGGAGGAATTAGTAATTCCCTCACCTTCCTTGAATATTGATTACCTGGTTTCTCCTGAGCACACTTTAGATATTTCTATTTCTACAAGCCAAGTCAGTAGTAGCACTCAATCATCATCAACTACACTTGAATCTGATGATGATCACAAGGATATGATGATGATGTATGGCGATCTCTTCTATGATTCTGTTGAGCTTGACCATCGTGATTTCTTTTACCCTTTTCTAGGGCTTTTGTAG
Protein sequence

>MsaT040999.1

MEKRLEKEGYSELKIMDLRNEAMEEELVRGREFANQLGQLVITLMNHHHELAQHLVLVNNIINSFTNTLTLLNKHHKTDSSFISPTKSQEISQHTSTTGRGSYKRRKTTSTWEKVSECPTDDGYEWRKYGQKTILNSKYSRDYYRCTHKLDQRCQATKQVQRIQEKPPSYKTTYYDRHTCNNSDEIIFEPTSPHDHNTSSILLSFNNTFPTPTKQDCPFLSSHDSVLEHCKEELVIPSPSLNIDYLVSPEHTLDISISTSQVSSSTQSSSTTLESDDDHKDMMMMYGDLFYDSVELDHRDFFYPFLGLL*