AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG031729

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031729 MtrunA17_Chr6g0468491 83.232 328 29 3 23 338 1 314 0.0 531
MsaG031729 MtrunA17_Chr6g0468461 76.786 336 43 7 1 321 1 316 3.72e-167 469
MsaG031729 MtrunA17_Chr2g0307131 66.944 360 91 3 1 337 1 355 7.95e-159 448
MsaG031729 MtrunA17_Chr2g0307141 64.384 365 98 5 1 338 1 360 7.56e-148 421
MsaG031729 MtrunA17_Chr4g0033391 61.364 352 87 9 1 336 1 319 2.73e-132 380
MsaG031729 MtrunA17_Chr4g0033291 60.054 368 78 7 1 338 1 329 3.08e-131 377
MsaG031729 MtrunA17_Chr4g0033281 61.756 353 91 7 1 337 1 325 2.52e-130 375
MsaG031729 MtrunA17_Chr4g0054581 56.443 388 110 7 1 338 1 379 1.31e-122 357
MsaG031729 MtrunA17_Chr4g0054621 53.824 353 137 12 1 338 1 342 4.07e-111 327
MsaG031729 MtrunA17_Chr7g0225901 72.646 223 54 3 95 313 21 240 1.95e-106 311
MsaG031729 MtrunA17_Chr5g0400621 43.119 327 167 8 17 337 20 333 1.37e-63 205
MsaG031729 MtrunA17_Chr5g0400661 36.288 361 167 13 8 333 2 334 3.67e-51 172
MsaG031729 MtrunA17_Chr4g0002801 39.662 237 129 4 111 333 94 330 2.20e-47 162
MsaG031729 MtrunA17_Chr5g0400641 53.125 160 67 3 164 319 1 156 4.94e-46 154
MsaG031729 MtrunA17_Chr4g0049331 43.396 212 117 3 126 336 101 310 1.01e-44 155
MsaG031729 MtrunA17_Chr4g0054571 35.821 335 173 10 7 331 25 327 2.70e-44 154
MsaG031729 MtrunA17_Chr2g0280161 43.367 196 104 4 145 336 161 353 5.42e-44 154
MsaG031729 MtrunA17_Chr2g0333641 41.584 202 109 4 133 328 104 302 1.10e-41 147
MsaG031729 MtrunA17_Chr2g0333621 39.810 211 117 4 135 337 107 315 8.83e-41 145
MsaG031729 MtrunA17_Chr4g0054551 43.275 171 93 2 159 328 153 320 1.89e-40 144
MsaG031729 MtrunA17_Chr4g0054561 43.605 172 93 3 158 328 152 320 9.13e-40 142
MsaG031729 MtrunA17_Chr4g0002781 36.100 241 136 4 111 333 109 349 1.88e-39 142
MsaG031729 MtrunA17_Chr5g0400671 40.449 178 103 2 156 333 149 323 1.21e-36 134
MsaG031729 MtrunA17_Chr8g0336681 36.179 246 129 7 116 338 97 337 2.73e-36 134
MsaG031729 MtrunA17_Chr7g0249811 41.146 192 103 4 138 329 143 324 4.92e-35 130
MsaG031729 MtrunA17_Chr2g0333541 38.039 255 132 7 90 332 27 267 2.49e-34 127
MsaG031729 MtrunA17_Chr2g0333611 37.696 191 110 4 149 335 32 217 4.36e-33 122
MsaG031729 MtrunA17_Chr4g0002831 35.714 168 82 6 172 331 53 202 1.48e-23 96.7
MsaG031729 MtrunA17_Chr7g0233441 34.194 155 78 4 184 331 57 194 5.45e-22 92.0
MsaG031729 MtrunA17_Chr4g0002851 34.194 155 70 3 184 331 65 194 7.79e-22 91.7
MsaG031729 MtrunA17_Chr8g0366751 34.831 178 92 6 140 297 436 609 1.89e-17 83.6
MsaG031729 MtrunA17_Chr1g0185621 31.351 185 104 4 161 328 475 653 2.43e-17 83.2
MsaG031729 MtrunA17_Chr5g0411341 29.143 175 108 3 139 297 466 640 2.10e-15 77.4
MsaG031729 MtrunA17_Chr8g0346161 30.263 152 93 5 147 290 277 423 2.96e-15 76.3
MsaG031729 MtrunA17_Chr8g0365711 25.121 207 132 5 117 310 202 398 8.07e-15 75.1
MsaG031729 MtrunA17_Chr7g0275821 31.169 154 98 4 161 314 252 397 4.04e-14 72.8
MsaG031729 MtrunA17_Chr8g0346151 32.215 149 79 5 137 270 251 392 3.36e-13 70.1
MsaG031729 MtrunA17_Chr8g0386921 44.444 72 40 0 153 224 398 469 8.82e-13 69.3
MsaG031729 MtrunA17_Chr1g0211081 27.941 204 106 7 140 314 295 486 3.68e-12 67.0
MsaG031729 MtrunA17_Chr7g0260841 51.852 54 26 0 161 214 355 408 2.53e-11 64.7
MsaG031729 MtrunA17_Chr3g0131691 30.189 159 95 3 162 307 299 454 6.41e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG031729 AT4G37850.2 42.194 237 113 6 105 336 111 328 6.37e-45 156
MsaG031729 AT4G37850.1 42.194 237 113 6 105 336 111 328 6.37e-45 156
MsaG031729 AT2G22760.1 42.132 197 97 6 151 333 102 295 2.58e-39 141
MsaG031729 AT2G22750.3 33.616 354 172 13 7 328 3 325 4.20e-36 133
MsaG031729 AT2G22750.2 44.444 189 97 3 146 328 111 297 4.47e-36 132
MsaG031729 AT2G22750.5 44.444 189 97 3 146 328 135 321 6.04e-36 133
MsaG031729 AT2G22750.4 33.616 354 171 14 7 328 3 324 7.47e-35 130
MsaG031729 AT2G22750.1 44.444 189 96 4 146 328 111 296 8.83e-35 129
MsaG031729 AT2G22770.1 33.891 239 133 5 110 331 87 317 1.60e-33 126
MsaG031729 AT2G22760.2 41.477 176 87 5 151 313 102 274 9.74e-33 123
MsaG031729 AT4G17880.1 35.036 137 79 2 161 292 416 547 9.77e-17 81.6
MsaG031729 AT1G32640.1 34.074 135 84 2 161 292 452 584 2.21e-16 80.5
MsaG031729 AT5G46760.1 29.834 181 100 7 161 317 415 592 6.87e-16 79.0
MsaG031729 AT1G63650.3 30.178 169 95 5 161 309 405 570 3.58e-14 73.9
MsaG031729 AT1G63650.1 30.178 169 95 5 161 309 405 570 3.58e-14 73.9
MsaG031729 AT1G63650.2 30.178 169 95 5 161 309 405 570 3.58e-14 73.9
MsaG031729 AT1G01260.1 33.621 116 74 1 140 255 412 524 4.54e-13 70.5
MsaG031729 AT1G01260.2 33.621 116 74 1 140 255 412 524 4.54e-13 70.5
MsaG031729 AT1G01260.3 33.621 116 74 1 140 255 412 524 4.54e-13 70.5
MsaG031729 AT2G46510.1 50.000 60 30 0 161 220 395 454 1.68e-12 68.6
MsaG031729 AT5G41315.2 28.261 184 103 6 151 309 440 619 2.84e-12 68.2
MsaG031729 AT5G41315.3 28.261 184 103 6 151 309 437 616 2.99e-12 68.2
MsaG031729 AT5G41315.1 28.261 184 103 6 151 309 432 611 3.51e-12 67.8
MsaG031729 AT4G09820.1 32.540 126 55 3 162 282 364 464 8.63e-12 66.6
MsaG031729 AT4G16430.1 45.902 61 33 0 161 221 320 380 3.37e-11 64.7
MsaG031729 AT4G00870.1 28.191 188 106 5 97 272 193 363 9.74e-11 63.2

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATTAGTAGTGGGTGAATT+TGG 0.150027 6:-33951606 None:intergenic
ATCAAGTTATGAAACAAATT+TGG 0.207098 6:+33951434 MsaT031729.1:CDS
TCAGTTTCAAATTCCATCTT+TGG 0.246525 6:+33951575 MsaT031729.1:CDS
AATAACAGTGTCTTACCTTT+TGG 0.250719 6:+33952217 MsaT031729.1:CDS
GAAACAAATTTGGACTCTTT+TGG 0.256548 6:+33951444 MsaT031729.1:CDS
AATTAGTAGTGGGTGAATTT+GGG 0.256712 6:-33951605 None:intergenic
CAACAGCTGGTTATCTGATT+TGG 0.283101 6:+33950805 MsaT031729.1:CDS
CAAGTGGAAGCAAGAATCTT+AGG 0.299386 6:+33952100 MsaT031729.1:CDS
GGGCCTTCTAGTTAAAATTA+TGG 0.305314 6:+33952162 MsaT031729.1:CDS
TTACTTAATGTACCTTCTTA+AGG 0.323115 6:-33951767 None:intergenic
CATCTGTATCAAGGAAATTC+AGG 0.330296 6:-33951311 None:intergenic
GATGGTGATGAAGAAAGTTT+TGG 0.371053 6:-33951540 None:intergenic
ATTCTTGCTTCCACTTGAAA+TGG 0.371460 6:-33952094 None:intergenic
TACTAATTCCTCACAAAACT+TGG 0.378617 6:+33951620 MsaT031729.1:CDS
AAACAACAATGTTTCACTTC+AGG 0.379077 6:+33951384 MsaT031729.1:CDS
ATCGTTGCAGAGGCCTAGTT+TGG 0.384101 6:-33952023 None:intergenic
AACAACAATGTTTCACTTCA+GGG 0.435505 6:+33951385 MsaT031729.1:CDS
TAGGAAAACATATGTTGATT+CGG 0.438258 6:+33952119 MsaT031729.1:CDS
TAATGTACCTTCTTAAGGTT+AGG 0.447983 6:-33951762 None:intergenic
AAATTCAGGTTGCTTTCCTC+AGG 0.450905 6:-33951297 None:intergenic
CCGACAGTCTTGACCAAACT+AGG 0.471259 6:+33952010 MsaT031729.1:CDS
TTTGGGGTGTTGTCCAAAGA+TGG 0.491872 6:-33951588 None:intergenic
GGATCCAATGTCAAGAGCAC+AGG 0.507133 6:+33952140 MsaT031729.1:CDS
AAATTATGGTAGAGATTCAA+AGG 0.513560 6:+33952176 MsaT031729.1:CDS
GGCCCCTGTGCTCTTGACAT+TGG 0.522418 6:-33952144 None:intergenic
TCTTGTTCCTAACCTTAAGA+AGG 0.522439 6:+33951755 MsaT031729.1:CDS
AAAAGGTCTCGTACTCATCA+TGG 0.528225 6:+33951663 MsaT031729.1:CDS
AGGCTACAATATGAGCATAA+AGG 0.533101 6:+33952536 MsaT031729.1:CDS
TCAGATCTTCATTGCTCTTG+CGG 0.533498 6:+33951731 MsaT031729.1:CDS
ACTCTACCACATCTGTATCA+AGG 0.544071 6:-33951320 None:intergenic
TGAATACAATTTATTTCCTG+AGG 0.546737 6:+33951281 MsaT031729.1:CDS
CAAATCAGATAACCAGCTGT+TGG 0.564229 6:-33950804 None:intergenic
AACTGAAAAGATGACTTAGA+TGG 0.568833 6:-33951558 None:intergenic
TCATGGTCAAGATCATATCA+TGG 0.581035 6:+33951680 MsaT031729.1:CDS
TCGAGGATAGAATCTCCAAA+AGG 0.583129 6:-33952232 None:intergenic
TGTTGATTTACCATTTCAAG+TGG 0.584256 6:+33952084 MsaT031729.1:CDS
ATTAGTAGTGGGTGAATTTG+GGG 0.592448 6:-33951604 None:intergenic
GAGTTTCTCTCACATGACAT+AGG 0.592458 6:+33951339 MsaT031729.1:CDS
GATGAGTTACTAAGAGATGC+GGG 0.594467 6:-33951414 None:intergenic
AATTCAATGCTGCCATGCGT+AGG 0.603516 6:-33952572 None:intergenic
ACGTATCATCAACCAACAGC+TGG 0.606784 6:+33950792 MsaT031729.1:CDS
GATCCAATGTCAAGAGCACA+GGG 0.607017 6:+33952141 MsaT031729.1:CDS
CCTAGTTTGGTCAAGACTGT+CGG 0.617301 6:-33952010 None:intergenic
TGATGAGTTACTAAGAGATG+CGG 0.617560 6:-33951415 None:intergenic
GAGCAATAATAGTAATGTCG+AGG 0.636001 6:-33952249 None:intergenic
GAATTTCCTTGATACAGATG+TGG 0.638336 6:+33951314 MsaT031729.1:CDS
AGGAGTTATCATCGTTGCAG+AGG 0.639176 6:-33952033 None:intergenic
ACTTGTGAAGAACCTACGCA+TGG 0.684270 6:+33952560 MsaT031729.1:CDS
AATGCTCTCATGAGATGACG+AGG 0.706550 6:-33952053 None:intergenic
ATCCAATGTCAAGAGCACAG+GGG 0.815243 6:+33952142 MsaT031729.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 33950764 33952608 33950764 ID=MsaG031729
Chr6 mRNA 33950764 33952608 33950764 ID=MsaT031729.1;Parent=MsaG031729
Chr6 exon 33950764 33950826 33950764 ID=MsaT031729.1.exon1;Parent=MsaT031729.1
Chr6 CDS 33950764 33950826 33950764 ID=cds.MsaT031729.1;Parent=MsaT031729.1
Chr6 exon 33951273 33951776 33951273 ID=MsaT031729.1.exon2;Parent=MsaT031729.1
Chr6 CDS 33951273 33951776 33951273 ID=cds.MsaT031729.1;Parent=MsaT031729.1
Chr6 exon 33951905 33952273 33951905 ID=MsaT031729.1.exon3;Parent=MsaT031729.1
Chr6 CDS 33951905 33952273 33951905 ID=cds.MsaT031729.1;Parent=MsaT031729.1
Chr6 exon 33952528 33952608 33952528 ID=MsaT031729.1.exon4;Parent=MsaT031729.1
Chr6 CDS 33952528 33952608 33952528 ID=cds.MsaT031729.1;Parent=MsaT031729.1
Gene Sequence

>MsaT031729.1

ATGGAAGAAATCAACAATACAACAATGAACGTATCATCAACCAACAGCTGGTTATCTGATTTGGAAATGGATGAATACAATTTATTTCCTGAGGAAAGCAACCTGAATTTCCTTGATACAGATGTGGTAGAGTTTCTCTCACATGACATAGGTAATGTATTCCAAGAACAAAACAAACAACAATGTTTCACTTCAGGGTGCACTCCCGCATCTCTTAGTAACTCATCAAGTTATGAAACAAATTTGGACTCTTTTGGCTTTGATTTTGATAAGCCGAATATGGAGCTGAAAACAATTGATCATAGCAACAAAATCAATGAAACTTTTTCACCAAAACTTTCTTCATCACCATCTAAGTCATCTTTTCAGTTTCAAATTCCATCTTTGGACAACACCCCAAATTCACCCACTACTAATTCCTCACAAAACTTGGAAACAAAAACCTCAAAGAGCAAAAGGTCTCGTACTCATCATGGTCAAGATCATATCATGGCTGAGAGAAAGAGAAGAGAGAAACTCACTCAGATCTTCATTGCTCTTGCGGCTCTTGTTCCTAACCTTAAGAAGGTGGACAAGTATTCTGTATTAGTTGACACTATCAAATACTTGAAAGAACTTAAAAAGCGTTTGAAATTTTTGGAAGAACAAAATGAGAAAACAAAAATAGAGTCACCGACAGTCTTGACCAAACTAGGCCTCTGCAACGATGATAACTCCTCGTCATCTCATGAGAGCATTGATTGTGTTGTTGATTTACCATTTCAAGTGGAAGCAAGAATCTTAGGAAAACATATGTTGATTCGGATCCAATGTCAAGAGCACAGGGGCCTTCTAGTTAAAATTATGGTAGAGATTCAAAGGTTTCAACTATTTGTTATCAATAACAGTGTCTTACCTTTTGGAGATTCTATCCTCGACATTACTATTATTGCTCATTTGGGTGAAGGCTACAATATGAGCATAAAGGAACTTGTGAAGAACCTACGCATGGCAGCATTGAATTTTATGTCATCATAA
Protein sequence

>MsaT031729.1

MEEINNTTMNVSSTNSWLSDLEMDEYNLFPEESNLNFLDTDVVEFLSHDIGNVFQEQNKQQCFTSGCTPASLSNSSSYETNLDSFGFDFDKPNMELKTIDHSNKINETFSPKLSSSPSKSSFQFQIPSLDNTPNSPTTNSSQNLETKTSKSKRSRTHHGQDHIMAERKRREKLTQIFIALAALVPNLKKVDKYSVLVDTIKYLKELKKRLKFLEEQNEKTKIESPTVLTKLGLCNDDNSSSSHESIDCVVDLPFQVEARILGKHMLIRIQCQEHRGLLVKIMVEIQRFQLFVINNSVLPFGDSILDITIIAHLGEGYNMSIKELVKNLRMAALNFMSS*