AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG041891

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG041891 MtrunA17_Chr8g0346151 86.525 423 16 2 1 392 1 413 0.0 697
MsaG041891 MtrunA17_Chr8g0346161 78.450 413 56 5 13 395 16 425 0.0 642
MsaG041891 MtrunA17_Chr5g0411341 53.049 164 70 2 239 395 474 637 6.67e-45 164
MsaG041891 MtrunA17_Chr5g0411341 33.514 185 90 3 22 177 44 224 1.52e-29 120
MsaG041891 MtrunA17_Chr8g0366751 50.943 159 71 2 240 391 444 602 7.31e-43 158
MsaG041891 MtrunA17_Chr8g0366751 33.005 203 102 7 22 195 53 250 3.11e-26 110
MsaG041891 MtrunA17_Chr5g0411331 32.258 186 93 3 22 178 27 208 4.81e-30 116
MsaG041891 MtrunA17_Chr7g0260841 42.384 151 59 2 238 388 335 457 6.04e-28 115
MsaG041891 MtrunA17_Chr7g0275821 79.245 53 11 0 256 308 250 302 7.71e-22 96.7
MsaG041891 MtrunA17_Chr1g0185621 27.638 199 99 5 16 178 4 193 8.86e-19 88.6
MsaG041891 MtrunA17_Chr1g0185621 32.447 188 100 5 222 392 436 613 5.84e-17 82.8
MsaG041891 MtrunA17_Chr8g0386921 25.600 250 136 7 26 236 7 245 4.62e-16 80.1
MsaG041891 MtrunA17_Chr8g0386921 56.364 55 24 0 257 311 405 459 6.35e-12 67.4
MsaG041891 MtrunA17_Chr7g0225901 29.730 148 80 4 229 371 69 197 2.78e-15 75.1
MsaG041891 MtrunA17_Chr4g0002781 26.733 202 126 6 201 391 116 306 4.57e-15 75.9
MsaG041891 MtrunA17_Chr4g0054561 31.579 133 77 3 244 371 138 261 7.41e-15 75.1
MsaG041891 MtrunA17_Chr4g0002801 29.114 158 90 5 244 391 142 287 2.79e-14 73.2
MsaG041891 MtrunA17_Chr3g0131691 58.182 55 23 0 256 310 296 350 1.06e-13 72.4
MsaG041891 MtrunA17_Chr7g0252041 60.000 55 22 0 256 310 284 338 1.08e-13 72.4
MsaG041891 MtrunA17_Chr6g0468491 30.159 126 74 3 251 371 130 246 4.65e-13 69.3
MsaG041891 MtrunA17_Chr5g0400671 34.559 136 71 4 259 390 155 276 6.09e-13 69.3
MsaG041891 MtrunA17_Chr4g0054571 33.835 133 82 4 243 370 134 265 7.30e-13 68.9
MsaG041891 MtrunA17_Chr4g0033291 30.263 152 72 5 225 371 139 261 8.28e-13 68.9
MsaG041891 MtrunA17_Chr4g0033391 28.788 132 74 4 245 371 137 253 9.59e-13 68.6
MsaG041891 MtrunA17_Chr4g0054581 28.571 119 76 2 258 371 198 312 2.11e-12 68.2
MsaG041891 MtrunA17_Chr4g0049331 42.254 71 39 1 241 311 120 188 3.80e-12 66.6
MsaG041891 MtrunA17_Chr2g0280161 27.778 144 83 3 258 392 177 308 6.04e-12 66.6
MsaG041891 MtrunA17_Chr7g0270871 35.000 100 62 2 215 314 172 268 7.91e-12 66.2
MsaG041891 MtrunA17_Chr2g0298751 50.000 62 24 1 259 313 53 114 1.09e-11 64.3
MsaG041891 MtrunA17_Chr2g0307141 31.624 117 70 3 258 371 183 292 1.22e-11 65.5
MsaG041891 MtrunA17_Chr2g0307131 30.645 124 76 3 251 371 172 288 1.47e-11 65.5
MsaG041891 MtrunA17_Chr2g0320291 34.375 96 57 3 262 357 137 226 1.66e-11 64.7
MsaG041891 MtrunA17_Chr4g0054551 29.630 135 82 4 258 390 155 278 1.79e-11 64.7
MsaG041891 MtrunA17_Chr5g0400661 35.366 82 50 1 238 316 126 207 2.95e-11 64.3
MsaG041891 MtrunA17_Chr1g0211081 29.457 129 88 2 184 311 244 370 3.27e-11 64.7
MsaG041891 MtrunA17_Chr6g0468461 33.043 115 69 2 244 358 159 265 3.45e-11 64.3
MsaG041891 MtrunA17_Chr4g0028071 52.000 50 24 0 262 311 153 202 4.94e-11 63.5
MsaG041891 MtrunA17_Chr8g0336681 24.339 189 138 3 208 391 104 292 6.36e-11 63.2
MsaG041891 MtrunA17_Chr2g0333621 22.778 180 124 6 218 391 98 268 6.46e-11 63.2
MsaG041891 MtrunA17_Chr4g0033281 40.476 84 33 2 225 308 137 203 6.74e-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
MsaG041891 AT4G00870.1 38.021 384 196 9 17 390 29 380 2.30e-69 225
MsaG041891 AT5G46830.1 31.858 452 214 13 22 392 33 471 6.75e-57 194
MsaG041891 AT1G32640.1 52.632 171 65 4 228 392 423 583 1.48e-45 166
MsaG041891 AT1G32640.1 31.579 190 93 3 22 178 67 252 4.04e-31 125
MsaG041891 AT4G17880.1 50.314 159 65 4 239 392 397 546 2.09e-42 157
MsaG041891 AT4G17880.1 30.208 192 94 3 23 178 63 250 7.14e-29 119
MsaG041891 AT5G46760.1 50.955 157 71 3 239 392 396 549 1.41e-41 154
MsaG041891 AT5G46760.1 32.609 184 88 5 22 173 51 230 5.56e-27 113
MsaG041891 AT4G16430.1 28.046 435 232 13 3 390 25 425 1.72e-36 139
MsaG041891 AT2G46510.1 40.606 165 73 4 224 388 364 503 2.04e-30 123
MsaG041891 AT1G01260.1 42.177 147 59 3 242 388 417 537 1.30e-26 112
MsaG041891 AT1G01260.2 42.177 147 59 3 242 388 417 537 1.30e-26 112
MsaG041891 AT1G01260.3 42.177 147 59 3 242 388 417 537 1.30e-26 112
MsaG041891 AT4G37850.2 30.653 199 111 6 208 389 93 281 5.78e-17 81.6
MsaG041891 AT4G37850.1 30.653 199 111 6 208 389 93 281 5.78e-17 81.6
MsaG041891 AT3G26744.6 60.000 55 22 0 256 310 305 359 2.38e-14 74.7
MsaG041891 AT3G26744.1 60.000 55 22 0 256 310 305 359 2.39e-14 75.1
MsaG041891 AT3G26744.4 60.000 55 22 0 256 310 305 359 2.39e-14 75.1
MsaG041891 AT3G26744.2 60.000 55 22 0 256 310 305 359 2.39e-14 75.1
MsaG041891 AT1G12860.2 60.000 55 22 0 256 310 265 319 3.51e-14 74.3
MsaG041891 AT1G12860.1 60.000 55 22 0 256 310 265 319 4.02e-14 73.9
MsaG041891 AT4G29930.5 62.222 45 17 0 259 303 55 99 2.14e-12 67.0
MsaG041891 AT4G29930.2 62.222 45 17 0 259 303 55 99 2.15e-12 66.6
MsaG041891 AT4G29930.6 62.222 45 17 0 259 303 55 99 2.20e-12 66.6
MsaG041891 AT4G09820.1 50.909 55 27 0 257 311 362 416 2.50e-12 68.9
MsaG041891 AT5G57150.5 31.126 151 66 5 236 368 38 168 3.49e-12 65.9
MsaG041891 AT4G29930.4 63.636 44 16 0 260 303 56 99 3.54e-12 65.1
MsaG041891 AT5G57150.2 31.126 151 66 5 236 368 39 169 3.92e-12 65.9
MsaG041891 AT5G57150.3 31.126 151 66 5 236 368 39 169 3.96e-12 65.9
MsaG041891 AT4G29930.1 62.222 45 17 0 259 303 55 99 4.09e-12 66.2
MsaG041891 AT4G29930.3 62.222 45 17 0 259 303 55 99 4.22e-12 66.2
MsaG041891 AT4G29930.7 62.222 45 17 0 259 303 55 99 4.22e-12 66.2
MsaG041891 AT5G57150.1 33.577 137 81 4 236 368 38 168 4.70e-12 65.9
MsaG041891 AT1G63650.3 27.152 151 94 4 258 393 405 554 4.82e-12 68.2
MsaG041891 AT1G63650.1 27.152 151 94 4 258 393 405 554 4.82e-12 68.2
MsaG041891 AT1G63650.2 27.152 151 94 4 258 393 405 554 4.82e-12 68.2
MsaG041891 AT4G00480.2 25.359 209 102 5 28 188 26 228 6.18e-12 67.8
MsaG041891 AT4G00480.1 25.359 209 102 5 28 188 26 228 7.13e-12 67.4
MsaG041891 AT5G57150.4 37.719 114 67 3 259 368 56 169 7.55e-12 65.9
MsaG041891 AT4G00480.3 25.359 209 102 5 28 188 26 228 8.75e-12 67.0
MsaG041891 AT2G22750.4 36.429 140 80 4 238 370 130 267 1.46e-11 65.5
MsaG041891 AT2G22750.3 36.842 133 75 4 245 370 137 267 1.55e-11 65.5
MsaG041891 AT2G22750.5 36.842 133 75 4 245 370 133 263 1.57e-11 65.5
MsaG041891 AT2G22750.1 36.842 133 75 4 245 370 109 239 1.76e-11 65.1
MsaG041891 AT2G16910.1 54.000 50 23 0 262 311 318 367 1.78e-11 66.2
MsaG041891 AT2G22750.2 36.842 133 75 4 245 370 109 239 1.97e-11 65.1
MsaG041891 AT2G28160.2 36.735 98 50 2 214 311 99 184 8.60e-11 63.2
MsaG041891 AT5G41315.2 41.270 63 36 1 249 311 441 502 8.89e-11 64.3
MsaG041891 AT5G41315.3 41.270 63 36 1 249 311 438 499 9.43e-11 63.9
MsaG041891 AT2G28160.1 36.735 98 50 2 214 311 99 184 9.61e-11 63.2
MsaG041891 AT5G41315.1 41.270 63 36 1 249 311 433 494 9.73e-11 63.9

Find 61 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATTGAAGATTTAAAATT+AGG 0.097958 8:+13407270 MsaT041891.1:CDS
CTTGAAAGATTTGGAGTTTC+AGG 0.118528 8:+13407509 MsaT041891.1:CDS
GAGATTGATGTGAAGATTAT+AGG 0.182361 8:+13407420 MsaT041891.1:CDS
TCCAAACCCAATCCGAAAAT+TGG 0.228757 8:+13406351 MsaT041891.1:CDS
TTGCTTTAGATTCTGTTCTT+TGG 0.229970 8:+13406597 MsaT041891.1:CDS
AAGGTAAACCTTTCTTATCT+TGG 0.238310 8:+13406411 MsaT041891.1:CDS
GTTTGAAGTTGTTGTTTCTT+TGG 0.252021 8:-13406456 None:intergenic
ATGACAATATACAACAAAAT+TGG 0.257338 8:+13406741 MsaT041891.1:CDS
TACTACAACTAGGTTTGTTT+TGG 0.270219 8:-13407380 None:intergenic
AGGTAAACCTTTCTTATCTT+GGG 0.292720 8:+13406412 MsaT041891.1:CDS
ATCTTAAAGCATAGAATCTA+TGG 0.304209 8:-13407167 None:intergenic
AGATTGAAGATTTAAAATTA+GGG 0.310294 8:+13407271 MsaT041891.1:CDS
ATCTAAAGCAAAAGCTTTAC+CGG 0.323817 8:-13406585 None:intergenic
TTATCCATCTTTGAAACGTT+TGG 0.324231 8:-13407198 None:intergenic
AACTAACGGTGTAATCGAAA+TGG 0.327388 8:+13406712 MsaT041891.1:CDS
TTGATTCTGAGGAGGATGTT+TGG 0.339396 8:-13406793 None:intergenic
AATGAGTGTCTTGAAAGATT+TGG 0.347886 8:+13407500 MsaT041891.1:CDS
GGATGTTTGGAACATAGATT+TGG 0.360854 8:-13406780 None:intergenic
TCCATGCATGTGTGCTTCAT+TGG 0.364769 8:-13406663 None:intergenic
TGTTGAAGGGTTGGTGTTTG+TGG 0.365685 8:-13406311 None:intergenic
TGTTGGCAAAAGATGTGTTT+TGG 0.367022 8:-13406871 None:intergenic
AGGGTTGGTGTTTGTGGTGA+AGG 0.385693 8:-13406305 None:intergenic
TTTATCTCTCCTTTGTCTCT+CGG 0.386285 8:-13407139 None:intergenic
TCGATTACACCGTTAGTTGT+AGG 0.388592 8:-13406707 None:intergenic
CAAACAACAAAAGATGAAAA+AGG 0.404302 8:+13406392 MsaT041891.1:CDS
GGTTCCAAACGTTTCAAAGA+TGG 0.424360 8:+13407194 MsaT041891.1:CDS
GGGTTGGTGTTTGTGGTGAA+GGG 0.433509 8:-13406304 None:intergenic
GACAGTAACACGTGTACAAA+CGG 0.437917 8:+13406488 MsaT041891.1:CDS
CCTTTCTTATCTTGGGGTGA+AGG 0.446476 8:+13406419 MsaT041891.1:CDS
GAGATAATGAAATCTTTCAT+AGG 0.448427 8:-13406257 None:intergenic
ACATTTGTCAAGTGGGGTGG+TGG 0.451062 8:-13406837 None:intergenic
TTTAAAATTAGGGCAACAAA+AGG 0.456499 8:+13407281 MsaT041891.1:CDS
ATTTATGTTAGTCGCGGTAT+CGG 0.465101 8:+13408745 MsaT041891.1:intron
AAAAGAGAACCGAAGAAAAG+AGG 0.478932 8:+13407069 MsaT041891.1:CDS
GTACAAACGGCGATGCTGAA+TGG 0.480446 8:+13406501 MsaT041891.1:CDS
ACTAACGGTGTAATCGAAAT+GGG 0.485666 8:+13406713 MsaT041891.1:CDS
TTTGGAACATAGATTTGGCT+TGG 0.488416 8:-13406775 None:intergenic
CCTTCACCCCAAGATAAGAA+AGG 0.497048 8:-13406419 None:intergenic
TAAATTTGAGTTTGATTCTG+AGG 0.509911 8:-13406804 None:intergenic
TCGGCTTCCACATGGTTCAT+CGG 0.510182 8:-13407120 None:intergenic
GGAGTTTGAGTTCGTGTCAA+CGG 0.513774 8:-13407099 None:intergenic
ATTCTATGCTTTAAGATCTG+TGG 0.527981 8:+13407173 MsaT041891.1:CDS
ACACTCATTAATCGTGCACT+AGG 0.531276 8:-13407486 None:intergenic
AATTGAAGAAGCATTACCTA+TGG 0.532558 8:-13406555 None:intergenic
GGTAAACCTTTCTTATCTTG+GGG 0.537701 8:+13406413 MsaT041891.1:CDS
TTCTTTGTTATCAGATGCAG+TGG 0.539939 8:+13407224 MsaT041891.1:CDS
TTTGTCTCTCGGCTTCCACA+TGG 0.548386 8:-13407128 None:intergenic
TCCAATGAAGCACACATGCA+TGG 0.551566 8:+13406662 MsaT041891.1:CDS
GCTTCTTCAATTTCATTACC+CGG 0.556623 8:+13406566 MsaT041891.1:CDS
CAGAGCATTTACACCCATGT+TGG 0.564669 8:-13406888 None:intergenic
ATGTGGAAGCCGAGAGACAA+AGG 0.579932 8:+13407130 MsaT041891.1:CDS
ATTTGAGTTTGATTCTGAGG+AGG 0.594452 8:-13406801 None:intergenic
ATTTGTATACCTACAACTAA+CGG 0.599891 8:+13406698 MsaT041891.1:CDS
ATAAGATTCTTACTACAACT+AGG 0.600771 8:-13407390 None:intergenic
TTTACATTTGTCAAGTGGGG+TGG 0.601476 8:-13406840 None:intergenic
GATTATAGGACATGATGCTA+TGG 0.615350 8:+13407434 MsaT041891.1:CDS
CACTCATTAATCGTGCACTA+GGG 0.626623 8:-13407485 None:intergenic
TAGATTTGGCTTGGTATACG+AGG 0.640872 8:-13406766 None:intergenic
TCTAAAGCAAAAGCTTTACC+GGG 0.640910 8:-13406584 None:intergenic
TGCAACGACAACTTCAATCG+TGG 0.678130 8:+13407353 MsaT041891.1:CDS
TCAAACTCCGATGAACCATG+TGG 0.720543 8:+13407113 MsaT041891.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 13406260 13408770 13406260 ID=MsaG041891
Chr8 mRNA 13406260 13408770 13406260 ID=MsaT041891.1;Parent=MsaG041891
Chr8 exon 13406260 13406896 13406260 ID=MsaT041891.1.exon1;Parent=MsaT041891.1
Chr8 CDS 13406260 13406896 13406260 ID=cds.MsaT041891.1;Parent=MsaT041891.1
Chr8 exon 13406992 13407530 13406992 ID=MsaT041891.1.exon2;Parent=MsaT041891.1
Chr8 CDS 13406992 13407530 13406992 ID=cds.MsaT041891.1;Parent=MsaT041891.1
Chr8 exon 13408756 13408770 13408756 ID=MsaT041891.1.exon3;Parent=MsaT041891.1
Chr8 CDS 13408756 13408770 13408756 ID=cds.MsaT041891.1;Parent=MsaT041891.1
Gene Sequence

>MsaT041891.1

ATGAAAGATTTCATTATCTCACCATCTTCATCTTCTCATGAAAACCCTTCACCACAAACACCAACCCTTCAACAAAAGCTTCAAATTTTAGTCCAAACCCAATCCGAAAATTGGATCTATGCCATTTTGTGGCAAACAACAAAAGATGAAAAAGGTAAACCTTTCTTATCTTGGGGTGAAGGCTATTTTCAAGGAACCAAAGAAACAACAACTTCAAACAAACAAAACGACAGTAACACGTGTACAAACGGCGATGCTGAATGGTTCTACATGATGTCGATGACTCGAAATTTTTCCATAGGTAATGCTTCTTCAATTTCATTACCCGGTAAAGCTTTTGCTTTAGATTCTGTTCTTTGGTTGAATAGTAAACATGAACTTCAAATTTATAACTGTGAGCGATCCAATGAAGCACACATGCATGGAATTGAAACACTGATTTGTATACCTACAACTAACGGTGTAATCGAAATGGGTTCTTATGACAATATACAACAAAATTGGAACCTCGTATACCAAGCCAAATCTATGTTCCAAACATCCTCCTCAGAATCAAACTCAAATTTAGATCTTAACTCCACCACCCCACTTGACAAATGTAAAACATTCATCCAAAACACATCTTTTGCCAACATGGATTCTGAAGATTCTGATTCAGAATATTGTCCACTATTAGCAACAAAAACAACAACGACAAAGAACGATTCTTTTGAGAAAAGAGAACCGAAGAAAAGAGGAAGAAAACCGTTGACACGAACTCAAACTCCGATGAACCATGTGGAAGCCGAGAGACAAAGGAGAGATAAACTAAACCATAGATTCTATGCTTTAAGATCTGTGGTTCCAAACGTTTCAAAGATGGATAAAGCTTCTTTGTTATCAGATGCAGTGGATTACATCAATGAGTTAAAAGCAAAGATTGAAGATTTAAAATTAGGGCAACAAAAGGAATCGAAAAAGTTGATGATGAAAACGATGAAAATTGTCGATAATAACAGTGCAACGACAACTTCAATCGTGGTAGACCAAAACAAACCTAGTTGTAGTAAGAATCTTATTGCTTTAGAGATTGATGTGAAGATTATAGGACATGATGCTATGGTGAGAGTTCAAAGTTTGAATGTTAATCACCCTAGTGCACGATTAATGAGTGTCTTGAAAGATTTGGAGTTTCAGTCGCGGTATCGGTAA
Protein sequence

>MsaT041891.1

MKDFIISPSSSSHENPSPQTPTLQQKLQILVQTQSENWIYAILWQTTKDEKGKPFLSWGEGYFQGTKETTTSNKQNDSNTCTNGDAEWFYMMSMTRNFSIGNASSISLPGKAFALDSVLWLNSKHELQIYNCERSNEAHMHGIETLICIPTTNGVIEMGSYDNIQQNWNLVYQAKSMFQTSSSESNSNLDLNSTTPLDKCKTFIQNTSFANMDSEDSDSEYCPLLATKTTTTKNDSFEKREPKKRGRKPLTRTQTPMNHVEAERQRRDKLNHRFYALRSVVPNVSKMDKASLLSDAVDYINELKAKIEDLKLGQQKESKKLMMKTMKIVDNNSATTTSIVVDQNKPSCSKNLIALEIDVKIIGHDAMVRVQSLNVNHPSARLMSVLKDLEFQSRYR*