AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026214

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026214 MtrunA17_Chr5g0411541 97.538 325 6 1 1 323 1 325 0.0 645
MsaG026214 MtrunA17_Chr3g0141091 52.161 347 132 15 1 323 1 337 4.24e-90 272
MsaG026214 MtrunA17_Chr3g0131691 46.798 203 79 7 140 320 287 482 4.48e-41 149
MsaG026214 MtrunA17_Chr7g0252041 45.312 192 80 4 152 320 284 473 6.88e-41 148
MsaG026214 MtrunA17_Chr1g0211081 28.505 214 105 5 142 313 305 512 1.59e-19 89.0
MsaG026214 MtrunA17_Chr5g0400671 26.630 184 125 3 140 313 140 323 3.94e-15 75.1
MsaG026214 MtrunA17_Chr8g0365711 27.513 189 121 3 140 314 230 416 8.95e-15 74.7
MsaG026214 MtrunA17_Chr1g0185621 31.527 203 108 7 138 312 454 653 9.17e-15 75.1
MsaG026214 MtrunA17_Chr8g0346161 30.508 177 103 6 152 316 289 457 2.68e-14 73.2
MsaG026214 MtrunA17_Chr2g0298751 33.544 158 83 4 150 285 48 205 4.07e-14 70.9
MsaG026214 MtrunA17_Chr2g0320291 30.682 176 103 5 147 309 126 295 4.22e-14 72.0
MsaG026214 MtrunA17_Chr4g0049331 23.891 293 184 10 32 312 37 302 5.84e-14 71.2
MsaG026214 MtrunA17_Chr2g0280161 28.571 161 99 4 145 289 162 322 7.88e-14 71.2
MsaG026214 MtrunA17_Chr4g0028071 53.448 58 27 0 153 210 148 205 1.64e-13 70.5
MsaG026214 MtrunA17_Chr2g0333611 26.984 189 117 5 143 314 32 216 1.70e-13 68.6
MsaG026214 MtrunA17_Chr5g0411341 28.221 163 97 2 151 293 490 652 2.11e-13 70.9
MsaG026214 MtrunA17_Chr5g0400621 30.464 151 96 2 145 286 148 298 6.66e-13 68.6
MsaG026214 MtrunA17_Chr8g0346151 30.872 149 86 4 152 285 277 423 8.42e-13 68.9
MsaG026214 MtrunA17_Chr7g0260841 35.789 95 59 1 151 243 352 446 1.43e-12 68.2
MsaG026214 MtrunA17_Chr7g0275821 28.261 138 96 2 151 286 249 385 1.58e-12 67.8
MsaG026214 MtrunA17_Chr8g0366751 29.375 160 93 4 151 290 459 618 3.30e-12 67.4
MsaG026214 MtrunA17_Chr4g0033291 32.500 160 92 4 141 289 142 296 3.07e-11 63.5
MsaG026214 MtrunA17_Chr6g0468461 41.860 86 44 3 131 212 148 231 5.60e-11 62.8
MsaG026214 MtrunA17_Chr4g0033281 43.478 69 39 0 141 209 140 208 7.22e-11 62.4
MsaG026214 MtrunA17_Chr4g0002781 29.121 182 102 5 107 274 138 306 8.23e-11 62.4
MsaG026214 MtrunA17_Chr3g0113721 28.736 174 104 6 147 312 35 196 9.06e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026214 AT5G65640.1 68.657 201 57 2 129 323 151 351 1.45e-84 259
MsaG026214 AT5G10570.1 48.235 340 121 11 11 323 4 315 2.11e-77 239
MsaG026214 AT1G12860.1 46.739 184 83 3 152 320 265 448 2.45e-41 149
MsaG026214 AT3G26744.1 45.745 188 83 2 152 320 305 492 2.33e-40 147
MsaG026214 AT3G26744.4 45.745 188 83 2 152 320 305 492 2.33e-40 147
MsaG026214 AT3G26744.2 45.745 188 83 2 152 320 305 492 2.33e-40 147
MsaG026214 AT1G12860.2 48.750 160 67 3 152 296 265 424 3.64e-37 138
MsaG026214 AT3G26744.6 47.561 164 67 2 152 296 305 468 2.40e-36 136
MsaG026214 AT5G65640.2 67.227 119 32 3 133 245 155 272 7.13e-36 131
MsaG026214 AT2G16910.1 33.663 202 97 7 153 319 313 512 4.49e-21 94.4
MsaG026214 AT4G09820.1 30.058 173 106 4 143 314 352 510 2.44e-17 82.8
MsaG026214 AT4G29930.6 35.036 137 83 2 153 284 53 188 9.53e-16 75.5
MsaG026214 AT4G29930.2 36.232 138 77 4 153 284 53 185 3.20e-15 73.9
MsaG026214 AT5G46760.1 31.319 182 106 5 151 317 412 589 3.52e-15 76.6
MsaG026214 AT4G29930.5 35.036 137 80 3 153 284 53 185 4.63e-15 73.9
MsaG026214 AT4G29930.4 51.667 60 29 0 153 212 53 112 2.77e-14 70.5
MsaG026214 AT4G17880.1 29.814 161 98 3 151 299 413 570 3.61e-14 73.6
MsaG026214 AT4G29930.1 51.667 60 29 0 153 212 53 112 7.07e-14 70.9
MsaG026214 AT2G46510.1 37.143 105 57 3 151 255 392 487 7.89e-14 72.4
MsaG026214 AT4G29930.3 51.667 60 29 0 153 212 53 112 8.46e-14 70.9
MsaG026214 AT4G29930.7 51.667 60 29 0 153 212 53 112 8.46e-14 70.9
MsaG026214 AT4G37850.2 29.064 203 124 6 100 284 93 293 1.25e-13 70.9
MsaG026214 AT4G37850.1 29.064 203 124 6 100 284 93 293 1.25e-13 70.9
MsaG026214 AT2G28160.1 44.444 72 35 1 139 210 121 187 1.27e-12 67.8
MsaG026214 AT2G28160.2 44.444 72 35 1 139 210 121 187 1.40e-12 67.8
MsaG026214 AT1G10610.2 42.308 78 43 1 149 226 229 304 6.86e-12 66.2
MsaG026214 AT1G10610.3 42.308 78 43 1 149 226 162 237 8.51e-12 65.9
MsaG026214 AT1G10610.1 42.308 78 43 1 149 226 259 334 9.42e-12 65.9
MsaG026214 AT2G22760.2 28.105 153 94 4 155 293 120 270 1.17e-11 64.7
MsaG026214 AT5G57150.1 28.221 163 99 1 153 297 53 215 1.28e-11 64.3
MsaG026214 AT5G57150.2 28.395 162 98 1 153 296 54 215 1.39e-11 63.9
MsaG026214 AT5G57150.5 29.139 151 89 1 153 285 53 203 1.54e-11 63.5
MsaG026214 AT2G22760.1 28.105 153 94 4 155 293 120 270 1.88e-11 64.3
MsaG026214 AT5G57150.3 29.139 151 89 1 153 285 54 204 1.91e-11 63.2
MsaG026214 AT4G16430.1 36.905 84 50 1 155 235 321 404 2.22e-11 65.1
MsaG026214 AT5G57150.4 29.139 151 89 2 153 285 54 204 3.73e-11 63.2
MsaG026214 AT1G63650.3 30.435 161 80 5 155 286 406 563 4.33e-11 64.3
MsaG026214 AT1G63650.1 30.435 161 80 5 155 286 406 563 4.33e-11 64.3
MsaG026214 AT1G63650.2 30.435 161 80 5 155 286 406 563 4.33e-11 64.3
MsaG026214 AT1G32640.1 45.763 59 32 0 151 209 449 507 5.70e-11 63.9

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAATCACCTTGCTGATCTT+AGG 0.222682 5:+18679133 None:intergenic
AGGCTGTCCTTCAACCCTTT+TGG 0.223211 5:+18679231 None:intergenic
AGTGATTGCTTTATCTCTTC+AGG 0.235636 5:+18677992 None:intergenic
ACTCCTTAGAAATTTCTAAA+AGG 0.276635 5:+18678740 None:intergenic
CATAGATTTGAATGTCCTTA+TGG 0.286074 5:-18679475 MsaT026214.1:CDS
TTCCCATGTGTTTAGGTAGA+TGG 0.318517 5:-18678034 MsaT026214.1:intron
TCATCATACCCTTATCTTGA+TGG 0.320494 5:-18679442 MsaT026214.1:CDS
TTTACCACAACAGGAAAGTA+TGG 0.321693 5:-18679383 MsaT026214.1:CDS
AGATAAAGCAATCACTATTC+AGG 0.330105 5:-18677985 MsaT026214.1:CDS
TTTCTTACCATTACTTCATT+TGG 0.330225 5:+18678712 None:intergenic
GAGTCAAAGGTCCAACCATT+AGG 0.336189 5:+18679568 None:intergenic
CAGGAAAGTATGGAAGAGTT+TGG 0.367985 5:-18679373 MsaT026214.1:CDS
CTTTCCTGTTGTGGTAAAAC+TGG 0.371402 5:+18679388 None:intergenic
CATTCAAATCTATGGTCTAA+TGG 0.372381 5:+18679484 None:intergenic
TAGTAAGTTACAAGAAGAAA+TGG 0.377782 5:-18678788 MsaT026214.1:CDS
CAGTAACAATCCTGGCTTTG+TGG 0.397442 5:+18678537 None:intergenic
GAATCACCTTGCTGATCTTA+GGG 0.398992 5:+18679134 None:intergenic
AATGAGTTACTACTCCCTAA+TGG 0.409168 5:-18679583 MsaT026214.1:CDS
CATAAGGACATTCAAATCTA+TGG 0.410090 5:+18679476 None:intergenic
ACAGCCTTCAAAGAATCTTA+TGG 0.411193 5:-18679215 MsaT026214.1:CDS
ATGGACAGGACATCAATTCT+AGG 0.415879 5:-18678850 MsaT026214.1:CDS
ATCTGCTGTGCCACAAAGCC+AGG 0.421676 5:-18678547 MsaT026214.1:CDS
GCAAATGAAGGGTTTAAAGA+TGG 0.426120 5:+18679520 None:intergenic
CTATTCAGGAATGCAGGTTA+TGG 0.429722 5:-18677971 MsaT026214.1:CDS
GTGATTGCTTTATCTCTTCA+GGG 0.432133 5:+18677993 None:intergenic
GAAGAAAGCGTTTGAATGAC+AGG 0.437266 5:-18679180 MsaT026214.1:CDS
TCAGCCATAAGATTCTTTGA+AGG 0.448137 5:+18679211 None:intergenic
AGTCAAAGGTCCAACCATTA+GGG 0.456761 5:+18679569 None:intergenic
ATGACAGGCTTTCTATGCTT+AGG 0.466666 5:-18679165 MsaT026214.1:CDS
AAAATGGAACTTTCTCAACT+TGG 0.469304 5:-18679667 MsaT026214.1:CDS
GCCAAATCCAAAAGGGTTGA+AGG 0.482278 5:-18679238 MsaT026214.1:CDS
ACTGAGAATCCATCAAGATA+AGG 0.498561 5:+18679433 None:intergenic
CTGAGAATCCATCAAGATAA+GGG 0.499837 5:+18679434 None:intergenic
TAAGTTACAAGAAGAAATGG+AGG 0.505778 5:-18678785 MsaT026214.1:CDS
ACATGAAAGAGCTTCTAGAA+AGG 0.506584 5:-18678813 MsaT026214.1:CDS
TCTTCCATACTTTCCTGTTG+TGG 0.509860 5:+18679379 None:intergenic
AGATACTGATTCTTGTGTCC+TGG 0.512516 5:+18678566 None:intergenic
ACATGGAATACTTTATCCAC+TGG 0.522465 5:-18679610 MsaT026214.1:CDS
CAATCACTATTCAGGAATGC+AGG 0.523750 5:-18677977 MsaT026214.1:CDS
TGATGTTGAGAGGAGAGACC+AGG 0.532244 5:-18678584 MsaT026214.1:CDS
TTCAGGAATGCAGGTTATGG+TGG 0.533157 5:-18677968 MsaT026214.1:CDS
GATGATGCATCAGTTCCATA+AGG 0.540398 5:+18679460 None:intergenic
GTTAAAGCCAAATGAAGTAA+TGG 0.545862 5:-18678719 MsaT026214.1:CDS
AGAATCTTATGGCTGAAAGA+AGG 0.549094 5:-18679204 MsaT026214.1:CDS
TTATGGTGGGAGGTGTCTCT+AGG 0.550677 5:-18677954 None:intergenic
TTGTTGGAAGTGAGAACAAG+AGG 0.557413 5:-18679348 MsaT026214.1:CDS
AGTTACTACTCCCTAATGGT+TGG 0.559379 5:-18679579 MsaT026214.1:CDS
CAAGAAGAAATGGAGGAAGA+AGG 0.564987 5:-18678778 MsaT026214.1:CDS
GTGAACACATTAGAAGCATT+AGG 0.568569 5:-18678508 MsaT026214.1:CDS
ACTGTTGACAGTAACAATCC+TGG 0.569200 5:+18678529 None:intergenic
GTTGAGAATGAAGCAAATGA+AGG 0.578645 5:+18679508 None:intergenic
TAAAATCAGCTGCAAAGTTG+AGG 0.582223 5:-18679314 MsaT026214.1:CDS
TAACACACTGGTGAATCTCA+AGG 0.606173 5:+18678485 None:intergenic
TCAGGAATGCAGGTTATGGT+GGG 0.610095 5:-18677967 MsaT026214.1:CDS
TTGAGAATGAAGCAAATGAA+GGG 0.614806 5:+18679509 None:intergenic
AATGGTAAGAAATTCCCCTA+AGG 0.619045 5:-18678701 MsaT026214.1:intron
TGAAACTGCTTATAACACAC+TGG 0.622427 5:+18678473 None:intergenic
GGTGCTGAATCATCAAACTC+AGG 0.624297 5:+18679409 None:intergenic
TAGTAACTCATTCAAACCAG+TGG 0.629735 5:+18679594 None:intergenic
GGAAATAAACCATACCTTAG+GGG 0.645486 5:+18678687 None:intergenic
GGAATGCAGGTTATGGTGGG+AGG 0.648346 5:-18677964 MsaT026214.1:CDS
TAGCTCCAAGAAAAGACACA+TGG 0.656108 5:-18679627 MsaT026214.1:CDS
ATTGCAAGCATCTTGCTCAG+AGG 0.660283 5:-18678440 MsaT026214.1:intron
AATTGTCCCTAAGATCAGCA+AGG 0.709185 5:-18679140 MsaT026214.1:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 18677955 18679686 18677955 ID=MsaG026214
Chr5 mRNA 18677955 18679686 18677955 ID=MsaT026214.1;Parent=MsaG026214
Chr5 exon 18677955 18678041 18677955 ID=MsaT026214.1.exon4;Parent=MsaT026214.1
Chr5 CDS 18677955 18678041 18677955 ID=cds.MsaT026214.1;Parent=MsaT026214.1
Chr5 exon 18678441 18678608 18678441 ID=MsaT026214.1.exon3;Parent=MsaT026214.1
Chr5 CDS 18678441 18678608 18678441 ID=cds.MsaT026214.1;Parent=MsaT026214.1
Chr5 exon 18678702 18678872 18678702 ID=MsaT026214.1.exon2;Parent=MsaT026214.1
Chr5 CDS 18678702 18678872 18678702 ID=cds.MsaT026214.1;Parent=MsaT026214.1
Chr5 exon 18679141 18679686 18679141 ID=MsaT026214.1.exon1;Parent=MsaT026214.1
Chr5 CDS 18679141 18679686 18679141 ID=cds.MsaT026214.1;Parent=MsaT026214.1
Gene Sequence

>MsaT026214.1

ATGGAACTTTCTCAACTTGGTTTTCTTGAGGAGCTACTAGCTCCAAGAAAAGACACATGGAATACTTTATCCACTGGTTTGAATGAGTTACTACTCCCTAATGGTTGGACCTTTGACTCATTTGATGAAAATCTTCTCATCAATCCATCTTTAAACCCTTCATTTGCTTCATTCTCAACACCATTAGACCATAGATTTGAATGTCCTTATGGAACTGATGCATCATCATACCCTTATCTTGATGGATTCTCAGTTCCTGAGTTTGATGATTCAGCACCAGTTTTACCACAACAGGAAAGTATGGAAGAGTTTGGTTTTGTTGGAAGTGAGAACAAGAGGTTTCAAGAGAGTAAAATCAGCTGCAAAGTTGAGGAACAAGTTAGTGAAACTCCAGTTTTTAACATGGGTCTGTGTGGTGAGAAAAAAGCCAAATCCAAAAGGGTTGAAGGACAGCCTTCAAAGAATCTTATGGCTGAAAGAAGGAGAAGAAAGCGTTTGAATGACAGGCTTTCTATGCTTAGGTCAATTGTCCCTAAGATCAGCAAGATGGACAGGACATCAATTCTAGGAGATACAATTGATTACATGAAAGAGCTTCTAGAAAGGATTAGTAAGTTACAAGAAGAAATGGAGGAAGAAGGAACAAATCAGATAAACCTTTTAGAAATTTCTAAGGAGTTAAAGCCAAATGAAGTAATGGTAAGAAATTCCCCTAAGTTTGATGTTGAGAGGAGAGACCAGGACACAAGAATCAGTATCTGCTGTGCCACAAAGCCAGGATTGTTACTGTCAACAGTGAACACATTAGAAGCATTAGGCCTTGAGATTCACCAGTGTGTTATAAGCAGTTTCAATGATTTTTCATTGCAAGCATCTTGCTCAGAGGTAGATGGTCAGAGAAATTGTATGAACCCTGAAGAGATAAAGCAATCACTATTCAGGAATGCAGGTTATGGTGGGAGGTGTCTCTAG
Protein sequence

>MsaT026214.1

MELSQLGFLEELLAPRKDTWNTLSTGLNELLLPNGWTFDSFDENLLINPSLNPSFASFSTPLDHRFECPYGTDASSYPYLDGFSVPEFDDSAPVLPQQESMEEFGFVGSENKRFQESKISCKVEEQVSETPVFNMGLCGEKKAKSKRVEGQPSKNLMAERRRRKRLNDRLSMLRSIVPKISKMDRTSILGDTIDYMKELLERISKLQEEMEEEGTNQINLLEISKELKPNEVMVRNSPKFDVERRDQDTRISICCATKPGLLLSTVNTLEALGLEIHQCVISSFNDFSLQASCSEVDGQRNCMNPEEIKQSLFRNAGYGGRCL*