AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024742

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024742 MtrunA17_Chr5g0393721 91.592 333 19 3 1 326 1 331 0.0 617
MsaG024742 MtrunA17_Chr1g0207301 48.980 343 126 12 1 309 51 378 2.18e-82 254
MsaG024742 MtrunA17_Chr1g0207311 48.243 313 130 8 1 308 1 286 6.51e-78 239
MsaG024742 MtrunA17_Chr3g0134741 50.909 220 92 7 93 307 111 319 1.94e-56 186
MsaG024742 MtrunA17_Chr1g0152651 58.491 159 53 4 139 294 201 349 2.08e-44 155
MsaG024742 MtrunA17_Chr5g0435021 62.500 72 27 0 216 287 215 286 1.09e-25 104
MsaG024742 MtrunA17_Chr4g0074161 60.000 65 26 0 218 282 205 269 1.01e-18 86.3
MsaG024742 MtrunA17_Chr8g0384141 66.071 56 19 0 228 283 123 178 1.48e-18 84.0
MsaG024742 MtrunA17_Chr3g0134001 61.111 54 21 0 228 281 180 233 7.70e-17 79.3
MsaG024742 MtrunA17_Chr7g0243041 60.000 55 22 0 226 280 33 87 8.53e-17 76.3
MsaG024742 MtrunA17_Chr1g0190731 58.462 65 27 0 218 282 192 256 9.60e-17 80.1
MsaG024742 MtrunA17_Chr1g0153241 39.604 101 54 1 203 296 62 162 1.18e-15 75.9
MsaG024742 MtrunA17_Chr3g0095391 45.570 79 36 2 212 290 304 375 6.29e-14 72.4
MsaG024742 MtrunA17_Chr1g0193321 46.970 66 35 0 217 282 460 525 1.00e-13 72.0
MsaG024742 MtrunA17_Chr6g0484271 43.529 85 47 1 199 282 135 219 4.35e-13 68.6
MsaG024742 MtrunA17_Chr5g0402031 43.939 66 37 0 230 295 116 181 5.85e-13 68.9
MsaG024742 MtrunA17_Chr4g0014771 54.545 66 29 1 218 282 117 182 1.39e-12 65.5
MsaG024742 MtrunA17_Chr1g0182791 45.455 66 36 0 217 282 315 380 1.70e-12 68.2
MsaG024742 MtrunA17_Chr5g0421111 33.951 162 87 4 129 282 280 429 2.80e-12 67.4
MsaG024742 MtrunA17_Chr7g0234761 51.562 64 30 1 220 282 318 381 9.10e-12 65.9
MsaG024742 MtrunA17_Chr8g0363921 50.000 64 31 1 220 282 152 215 1.11e-11 64.3
MsaG024742 MtrunA17_Chr8g0339091 51.562 64 30 1 220 282 292 355 1.13e-11 65.5
MsaG024742 MtrunA17_Chr4g0035101 32.520 123 65 2 178 282 85 207 1.97e-11 64.3
MsaG024742 MtrunA17_Chr7g0231461 36.207 116 69 3 167 281 248 359 1.99e-11 64.7
MsaG024742 MtrunA17_Chr3g0144641 42.708 96 46 3 188 282 168 255 2.06e-11 64.3
MsaG024742 MtrunA17_Chr8g0365941 42.553 94 35 2 208 282 276 369 2.24e-11 64.3
MsaG024742 MtrunA17_Chr8g0351881 48.485 66 33 1 218 282 315 380 2.44e-11 64.3
MsaG024742 MtrunA17_Chr1g0213791 50.000 68 33 1 218 284 264 331 7.66e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024742 AT2G14760.1 41.390 331 146 13 10 305 6 323 2.08e-61 199
MsaG024742 AT4G33880.1 39.601 351 145 12 10 301 6 348 3.76e-58 191
MsaG024742 AT2G14760.3 40.580 345 142 15 10 305 6 336 9.42e-58 190
MsaG024742 AT1G27740.1 67.544 114 36 1 190 302 137 250 1.75e-47 160
MsaG024742 AT5G43175.1 54.140 157 53 5 155 302 69 215 8.88e-45 152
MsaG024742 AT1G66470.1 71.667 60 17 0 228 287 204 263 2.65e-24 100
MsaG024742 AT5G37800.1 70.000 60 18 0 228 287 210 269 2.67e-24 100
MsaG024742 AT2G24260.2 63.077 65 24 0 218 282 34 98 3.93e-21 90.9
MsaG024742 AT2G24260.1 63.077 65 24 0 218 282 137 201 2.57e-20 90.5
MsaG024742 AT4G30980.1 63.077 65 24 0 218 282 129 193 2.75e-20 90.1
MsaG024742 AT4G30980.2 63.077 65 24 0 218 282 177 241 5.12e-20 89.7
MsaG024742 AT5G58010.1 58.462 65 27 0 218 282 98 162 2.18e-18 84.3
MsaG024742 AT5G01305.1 57.377 61 26 0 218 278 36 96 2.12e-17 79.0
MsaG024742 AT3G21330.1 57.143 56 24 0 226 281 276 331 4.96e-16 78.6
MsaG024742 AT4G00120.1 51.852 54 26 0 228 281 121 174 3.67e-15 73.6
MsaG024742 AT2G46970.2 32.520 123 67 4 202 308 166 288 2.27e-13 70.9
MsaG024742 AT2G46970.3 32.520 123 67 4 202 308 175 297 2.75e-13 70.5
MsaG024742 AT2G46970.1 32.520 123 67 4 202 308 197 319 2.93e-13 70.5
MsaG024742 AT2G20180.7 45.679 81 43 1 202 282 191 270 5.08e-13 69.7
MsaG024742 AT2G20180.1 45.679 81 43 1 202 282 191 270 5.08e-13 69.7
MsaG024742 AT2G20180.5 45.679 81 43 1 202 282 191 270 5.08e-13 69.7
MsaG024742 AT2G20180.4 45.679 81 43 1 202 282 262 341 5.83e-13 69.7
MsaG024742 AT2G20180.6 45.679 81 43 1 202 282 262 341 5.83e-13 69.7
MsaG024742 AT2G20180.2 45.679 81 43 1 202 282 262 341 5.83e-13 69.7
MsaG024742 AT2G20180.3 45.679 81 43 1 202 282 262 341 5.83e-13 69.7
MsaG024742 AT1G09530.3 41.463 82 44 1 214 291 328 409 6.84e-13 69.7
MsaG024742 AT1G09530.2 41.463 82 44 1 214 291 328 409 6.84e-13 69.7
MsaG024742 AT1G09530.5 41.463 82 44 1 214 291 328 409 6.84e-13 69.7
MsaG024742 AT1G09530.1 41.463 82 44 1 214 291 328 409 6.84e-13 69.7
MsaG024742 AT1G09530.4 41.463 82 44 1 214 291 328 409 6.84e-13 69.7
MsaG024742 AT1G09530.6 41.463 82 44 1 214 291 328 409 6.84e-13 69.7
MsaG024742 AT5G50915.1 46.753 77 39 2 220 295 137 212 1.85e-12 67.0
MsaG024742 AT5G50915.2 46.753 77 39 2 220 295 137 212 1.85e-12 67.0
MsaG024742 AT2G20180.8 45.570 79 42 1 202 280 262 339 1.99e-12 67.8
MsaG024742 AT5G50915.3 46.753 77 39 2 220 295 137 212 2.00e-12 67.0
MsaG024742 AT5G50915.4 46.753 77 39 2 220 295 137 212 2.00e-12 67.0
MsaG024742 AT4G36930.1 38.889 90 53 2 226 313 198 287 2.02e-12 67.8
MsaG024742 AT4G00050.2 37.607 117 56 4 174 286 69 172 4.26e-12 66.2
MsaG024742 AT1G73830.2 36.806 144 74 6 148 282 76 211 4.94e-12 65.5
MsaG024742 AT1G59640.1 43.478 92 44 3 220 310 137 221 5.25e-12 65.5
MsaG024742 AT1G73830.1 36.806 144 74 6 148 282 76 211 5.54e-12 65.5
MsaG024742 AT1G25330.1 53.125 64 29 1 220 282 105 168 5.88e-12 64.7
MsaG024742 AT4G00050.1 29.586 169 73 5 162 286 108 274 6.78e-12 66.2
MsaG024742 AT4G00050.3 37.607 117 56 4 174 286 171 274 7.14e-12 66.2
MsaG024742 AT4G09180.1 50.000 68 33 1 218 284 183 250 9.89e-12 64.7
MsaG024742 AT1G59640.2 43.011 93 45 3 220 311 137 222 1.56e-11 65.1
MsaG024742 AT1G35460.1 51.515 66 31 1 218 282 180 245 1.63e-11 63.9
MsaG024742 AT3G07340.1 51.562 64 30 1 220 282 259 322 1.84e-11 65.1
MsaG024742 AT3G07340.2 51.562 64 30 1 220 282 259 322 2.07e-11 65.1
MsaG024742 AT1G51140.1 50.769 65 31 1 218 281 303 367 2.42e-11 64.7
MsaG024742 AT5G48560.1 51.562 64 30 1 220 282 302 365 2.42e-11 64.7
MsaG024742 AT5G48560.2 51.562 64 30 1 220 282 302 365 2.46e-11 64.7
MsaG024742 AT1G26260.3 51.562 64 30 1 220 282 173 236 2.56e-11 64.3
MsaG024742 AT1G26260.5 51.562 64 30 1 220 282 202 265 3.04e-11 64.3
MsaG024742 AT1G26260.4 51.562 64 30 1 220 282 224 287 3.09e-11 64.3
MsaG024742 AT1G26260.1 51.562 64 30 1 220 282 224 287 3.09e-11 64.3
MsaG024742 AT1G26260.6 51.562 64 30 1 220 282 224 287 3.09e-11 64.3
MsaG024742 AT1G26260.2 51.562 64 30 1 220 282 224 287 3.09e-11 64.3
MsaG024742 AT4G34530.1 50.000 64 31 1 220 282 173 236 4.49e-11 63.5
MsaG024742 AT4G28790.1 39.326 89 53 1 208 296 260 347 4.87e-11 63.9
MsaG024742 AT5G67110.1 50.980 51 25 0 232 282 100 150 4.91e-11 62.0
MsaG024742 AT2G14760.2 29.771 262 134 14 10 235 6 253 8.41e-11 62.0

Find 62 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGACATTCCTCTTGTTCTT+TGG 0.181067 5:-352321 None:intergenic
CAGCTTTGACTATATTTCTA+TGG 0.187224 5:+351954 MsaT024742.1:CDS
TGACATTCCTCTTGTTCTTT+GGG 0.254260 5:-352320 None:intergenic
TGTTGTACATGGAGTGAATT+TGG 0.258460 5:-351995 None:intergenic
GCTTACAATGGAATGAATAT+TGG 0.296793 5:+353265 MsaT024742.1:CDS
ATTTAGCCGTAGAATCATTC+TGG 0.309924 5:-352491 None:intergenic
ATGAGGAGTTACCAAGTAAT+TGG 0.310193 5:-351789 None:intergenic
ATATAGTCAAAGCTGGTTAC+TGG 0.320414 5:-351946 None:intergenic
AGTTTCAGTACCCAACAAAT+TGG 0.360695 5:-351839 None:intergenic
AGTGAATTTGGAATGATCTA+TGG 0.365652 5:-351983 None:intergenic
ACCACAAGCGCAGAAAATTC+AGG 0.383330 5:+352108 MsaT024742.1:CDS
TATCAAAATTCCAATTTGTT+GGG 0.383401 5:+351829 MsaT024742.1:CDS
GAAAGTTACCTTAGTTCCAT+TGG 0.390559 5:-352955 None:intergenic
AAAGTTACCTTAGTTCCATT+GGG 0.395654 5:-352954 None:intergenic
CTATCAAAATTCCAATTTGT+TGG 0.398328 5:+351828 MsaT024742.1:CDS
CTGAGCTTATTTCTCAAGAA+TGG 0.409782 5:+351719 MsaT024742.1:CDS
ACGTAGCTCATGAGAAGAAT+TGG 0.419048 5:-352445 None:intergenic
TTCATTCCATTGTAAGCAAT+GGG 0.429895 5:-353259 None:intergenic
GACTTTATGAACCAATTACT+TGG 0.430426 5:+351778 MsaT024742.1:CDS
TGGGTACTGAAACTGCATTT+TGG 0.433806 5:+351848 MsaT024742.1:CDS
GAATACAAGTCCTGGTTCTC+AGG 0.435078 5:+352386 MsaT024742.1:CDS
GATTCTACGGCTAAATTAAG+TGG 0.448568 5:+352498 MsaT024742.1:CDS
CCTTAGTTCCATTGGGGACA+AGG 0.451533 5:-352947 None:intergenic
CCTTGTCCCCAATGGAACTA+AGG 0.456805 5:+352947 MsaT024742.1:CDS
ATTCATTCCATTGTAAGCAA+TGG 0.479134 5:-353260 None:intergenic
AGCTTTGACTATATTTCTAT+GGG 0.482058 5:+351955 MsaT024742.1:CDS
ATGAATATTGGACTTGAACT+TGG 0.506635 5:+353277 MsaT024742.1:CDS
ACAAGAGGAATGTCAAATGT+AGG 0.531678 5:+352328 MsaT024742.1:CDS
CATAGAAATATAGTCAAAGC+TGG 0.533612 5:-351953 None:intergenic
AGGCTCTGTGGATCAGTAGC+AGG 0.543740 5:-352543 None:intergenic
TTCTCATGAGCTACGTGGAA+GGG 0.546048 5:+352452 MsaT024742.1:CDS
TCTTGAGAAATAAGCTCAGT+AGG 0.547757 5:-351715 None:intergenic
GAAGAGAAAGAATAAATGAA+AGG 0.551355 5:+352907 MsaT024742.1:CDS
TACTCTCCCATTGCTTACAA+TGG 0.559351 5:+353253 MsaT024742.1:CDS
TTTGAGCCAGAATGATTCTA+CGG 0.561478 5:+352485 MsaT024742.1:CDS
CTACAAAACCTTGTCCCCAA+TGG 0.563548 5:+352939 MsaT024742.1:CDS
ACTAGTTTCTGAACCAGAAG+AGG 0.570837 5:+352080 MsaT024742.1:CDS
TATAGGTCCCAAAGAACAAG+AGG 0.573850 5:+352313 MsaT024742.1:intron
TCATCAGATTGTGTTGTACA+TGG 0.574928 5:-352006 None:intergenic
ACTGAAGAGAATACAAGTCC+TGG 0.575082 5:+352378 MsaT024742.1:CDS
AACGTCTGATCCTGAGAACC+AGG 0.576280 5:-352396 None:intergenic
CTTCTCATGAGCTACGTGGA+AGG 0.576985 5:+352451 MsaT024742.1:CDS
AAGATCTAGGAGCTCAAATG+AGG 0.582801 5:+352134 MsaT024742.1:CDS
CTTGTATCAGAAGTTGAGGT+AGG 0.584296 5:-351907 None:intergenic
TCTCAGGATCAGACGTTAAG+CGG 0.590949 5:+352402 MsaT024742.1:CDS
GGATATCAGCACCATGCTTG+AGG 0.592275 5:+353067 MsaT024742.1:CDS
GAAATGTTGTGATGAGAATG+AGG 0.597945 5:-351806 None:intergenic
AACTTGTGCAGTAACAATTG+TGG 0.601327 5:-351884 None:intergenic
GTTAAGCGGTTATTGTTCAG+AGG 0.601995 5:+352416 MsaT024742.1:CDS
GCAACTTGTATCAGAAGTTG+AGG 0.603752 5:-351911 None:intergenic
TTGGACAGCTTCCTCAAGCA+TGG 0.610000 5:-353078 None:intergenic
TACCCCAACAAAAGAAACAA+AGG 0.623892 5:+353303 MsaT024742.1:CDS
AAAGACTTACTCTTGCATAG+AGG 0.624768 5:-352563 None:intergenic
AAGTTACCTTAGTTCCATTG+GGG 0.630156 5:-352953 None:intergenic
TTCTAAGCTCTGATGACATG+TGG 0.645185 5:+353227 MsaT024742.1:CDS
GGAAAATCAAGATCTAGTAG+AGG 0.649455 5:+352519 MsaT024742.1:CDS
CAGTGGACTCTACACTGCTG+AGG 0.657902 5:+351750 MsaT024742.1:CDS
ACTCTTGCATAGAGGCTCTG+TGG 0.664485 5:-352555 None:intergenic
CAAGAATGGACTTCTCTCAG+TGG 0.692150 5:+351733 MsaT024742.1:CDS
AATTCTTCTCATGAGCTACG+TGG 0.695539 5:+352447 MsaT024742.1:CDS
GTAACAATTGTGGAATCATG+TGG 0.707912 5:-351874 None:intergenic
ACAATTGTGGAATCATGTGG+TGG 0.728994 5:-351871 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 351709 353369 351709 ID=MsaG024742
Chr5 mRNA 351709 353369 351709 ID=MsaT024742.1;Parent=MsaG024742
Chr5 exon 351709 352155 351709 ID=MsaT024742.1.exon1;Parent=MsaT024742.1
Chr5 CDS 351709 352155 351709 ID=cds.MsaT024742.1;Parent=MsaT024742.1
Chr5 exon 352318 352575 352318 ID=MsaT024742.1.exon2;Parent=MsaT024742.1
Chr5 CDS 352318 352575 352318 ID=cds.MsaT024742.1;Parent=MsaT024742.1
Chr5 exon 352903 352968 352903 ID=MsaT024742.1.exon3;Parent=MsaT024742.1
Chr5 CDS 352903 352968 352903 ID=cds.MsaT024742.1;Parent=MsaT024742.1
Chr5 exon 353065 353130 353065 ID=MsaT024742.1.exon4;Parent=MsaT024742.1
Chr5 CDS 353065 353130 353065 ID=cds.MsaT024742.1;Parent=MsaT024742.1
Chr5 exon 353226 353369 353226 ID=MsaT024742.1.exon5;Parent=MsaT024742.1
Chr5 CDS 353226 353369 353226 ID=cds.MsaT024742.1;Parent=MsaT024742.1
Gene Sequence

>MsaT024742.1

ATGGAACCTACTGAGCTTATTTCTCAAGAATGGACTTCTCTCAGTGGACTCTACACTGCTGAGGAATCTGACTTTATGAACCAATTACTTGGTAACTCCTCATTCTCATCACAACATTTCTATCAAAATTCCAATTTGTTGGGTACTGAAACTGCATTTTGGCCACCACATGATTCCACAATTGTTACTGCACAAGTTCCTACCTCAACTTCTGATACAAGTTGCTTCGACAACAATCCAGTAACCAGCTTTGACTATATTTCTATGGGTCTTTCCATAGATCATTCCAAATTCACTCCATGTACAACACAATCTGATGAGCAAGTTCTAGCTAACAAAAACTTGCAGGCCCGAAAATCAGAACGTGAAGTACTAGTTTCTGAACCAGAAGAGGATAAAACCACAAGCGCAGAAAATTCAGGAAAAAGATCTAGGAGCTCAAATGAGGTCCCAAAGAACAAGAGGAATGTCAAATGTAGGAAGATTATAAGATGTGCTTCTATAAGCACTGAAGAGAATACAAGTCCTGGTTCTCAGGATCAGACGTTAAGCGGTTATTGTTCAGAGGATGAGTCCAATTCTTCTCATGAGCTACGTGGAAGGGAATCTTCAAGTTTGAGCCAGAATGATTCTACGGCTAAATTAAGTGGAAAATCAAGATCTAGTAGAGGTCCTGCTACTGATCCACAGAGCCTCTATGCAAGAAAAAGAAGAGAAAGAATAAATGAAAGGTTGAAAATCCTACAAAACCTTGTCCCCAATGGAACTAAGGTGGATATCAGCACCATGCTTGAGGAAGCTGTCCAATATGTGAAGTTTTTACAACTTCAAATTAAGCTTCTAAGCTCTGATGACATGTGGATGTACTCTCCCATTGCTTACAATGGAATGAATATTGGACTTGAACTTGGTATTACCCCAACAAAAGAAACAAAGGATATGCATAACAACATACCAATAAAAGAGAATGCAGCTGTTTAA
Protein sequence

>MsaT024742.1

MEPTELISQEWTSLSGLYTAEESDFMNQLLGNSSFSSQHFYQNSNLLGTETAFWPPHDSTIVTAQVPTSTSDTSCFDNNPVTSFDYISMGLSIDHSKFTPCTTQSDEQVLANKNLQARKSEREVLVSEPEEDKTTSAENSGKRSRSSNEVPKNKRNVKCRKIIRCASISTEENTSPGSQDQTLSGYCSEDESNSSHELRGRESSSLSQNDSTAKLSGKSRSSRGPATDPQSLYARKRRERINERLKILQNLVPNGTKVDISTMLEEAVQYVKFLQLQIKLLSSDDMWMYSPIAYNGMNIGLELGITPTKETKDMHNNIPIKENAAV*