AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG017034

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017034 MtrunA17_Chr3g0135481 91.228 228 20 0 1 228 1 228 6.65e-120 347
MsaG017034 MtrunA17_Chr3g0089111 68.670 233 60 2 1 228 1 225 8.23e-92 275
MsaG017034 MtrunA17_Chr2g0318471 73.967 242 39 2 1 242 1 218 2.78e-84 256
MsaG017034 MtrunA17_Chr3g0131691 46.212 264 117 3 119 382 242 480 1.72e-69 226
MsaG017034 MtrunA17_Chr7g0252041 56.085 189 81 1 197 383 284 472 4.37e-62 206
MsaG017034 MtrunA17_Chr5g0411541 40.000 195 95 6 187 378 141 316 3.27e-30 118
MsaG017034 MtrunA17_Chr3g0141091 35.385 195 102 4 188 382 162 332 7.80e-30 117
MsaG017034 MtrunA17_Chr3g0089121 69.136 81 20 1 228 308 1 76 4.33e-29 109
MsaG017034 MtrunA17_Chr3g0089131 84.483 58 9 0 302 359 5 62 1.12e-28 107
MsaG017034 MtrunA17_Chr3g0135471 95.349 43 2 0 317 359 1 43 4.34e-23 91.7
MsaG017034 MtrunA17_Chr1g0211081 28.692 237 139 6 166 378 283 513 1.14e-22 99.8
MsaG017034 MtrunA17_Chr2g0318461 86.047 43 6 0 317 359 1 43 4.94e-19 80.5
MsaG017034 MtrunA17_Chr8g0365711 29.032 186 125 3 192 377 237 415 1.33e-18 87.0
MsaG017034 MtrunA17_Chr8g0346151 33.133 166 99 4 189 349 265 423 2.38e-17 83.2
MsaG017034 MtrunA17_Chr4g0028071 32.370 173 100 5 190 355 140 302 8.57e-17 80.9
MsaG017034 MtrunA17_Chr8g0346161 34.132 167 95 5 189 350 277 433 1.66e-16 80.9
MsaG017034 MtrunA17_Chr2g0320291 30.303 198 118 6 186 380 122 302 1.80e-16 79.3
MsaG017034 MtrunA17_Chr2g0280161 25.243 206 135 4 150 355 138 324 1.15e-14 74.7
MsaG017034 MtrunA17_Chr8g0366751 29.762 168 113 2 189 351 448 615 2.57e-14 74.7
MsaG017034 MtrunA17_Chr4g0049331 24.876 201 119 5 167 355 101 281 6.11e-14 72.0
MsaG017034 MtrunA17_Chr1g0185621 29.744 195 110 6 185 366 456 636 2.50e-13 71.6
MsaG017034 MtrunA17_Chr2g0298751 31.492 181 103 8 198 365 51 223 7.58e-13 67.8
MsaG017034 MtrunA17_Chr5g0411341 29.279 222 131 8 176 376 453 669 1.15e-12 69.3
MsaG017034 MtrunA17_Chr5g0400661 24.885 217 138 5 148 355 108 308 1.70e-12 67.8
MsaG017034 MtrunA17_Chr7g0225901 25.641 195 129 3 164 355 53 234 2.90e-12 66.2
MsaG017034 MtrunA17_Chr4g0033291 26.471 204 128 4 188 382 136 326 1.09e-11 65.5
MsaG017034 MtrunA17_Chr7g0275821 51.923 52 25 0 203 254 256 307 2.54e-11 64.7
MsaG017034 MtrunA17_Chr8g0386921 27.778 198 121 6 201 379 408 602 6.61e-11 63.9
MsaG017034 MtrunA17_Chr5g0400671 22.097 267 173 4 114 380 91 322 6.70e-11 63.2
MsaG017034 MtrunA17_Chr4g0054561 31.579 114 56 2 145 256 119 212 6.96e-11 63.2
MsaG017034 MtrunA17_Chr4g0054581 24.571 175 126 3 181 355 180 348 7.41e-11 63.2
MsaG017034 MtrunA17_Chr6g0468491 26.344 186 120 4 201 382 139 311 7.96e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG017034 AT3G26744.1 54.839 186 84 0 197 382 305 490 1.13e-65 217
MsaG017034 AT3G26744.4 54.839 186 84 0 197 382 305 490 1.13e-65 217
MsaG017034 AT3G26744.2 54.839 186 84 0 197 382 305 490 1.13e-65 217
MsaG017034 AT1G12860.1 54.011 187 80 2 197 382 265 446 4.29e-62 206
MsaG017034 AT3G26744.6 56.442 163 71 0 197 359 305 467 9.06e-59 198
MsaG017034 AT1G12860.2 55.488 164 67 2 197 359 265 423 2.49e-55 188
MsaG017034 AT2G16910.1 38.202 178 96 4 198 362 313 489 1.23e-24 105
MsaG017034 AT5G10570.1 37.313 201 89 6 186 378 135 306 1.35e-24 103
MsaG017034 AT5G65640.1 36.765 204 106 6 180 378 157 342 3.90e-24 102
MsaG017034 AT2G28160.1 40.594 101 53 2 161 256 90 188 5.90e-16 78.6
MsaG017034 AT2G28160.2 40.594 101 53 2 161 256 90 188 6.57e-16 78.2
MsaG017034 AT5G46760.1 29.148 223 135 5 170 377 371 585 1.20e-15 79.0
MsaG017034 AT4G17880.1 30.151 199 117 8 189 380 402 585 1.50e-15 78.6
MsaG017034 AT5G65640.2 52.703 74 33 1 183 254 160 233 8.45e-14 71.6
MsaG017034 AT4G00870.1 35.593 118 66 2 146 255 190 305 4.14e-13 70.9
MsaG017034 AT4G29930.6 27.742 155 91 3 198 349 53 189 8.05e-13 67.8
MsaG017034 AT5G41315.2 29.744 195 113 5 202 378 452 640 2.88e-12 68.6
MsaG017034 AT5G41315.3 29.744 195 113 5 202 378 449 637 3.20e-12 68.6
MsaG017034 AT1G32640.1 38.889 90 44 2 176 254 418 507 3.37e-12 68.6
MsaG017034 AT5G41315.1 29.744 195 113 5 202 378 444 632 3.48e-12 68.6
MsaG017034 AT2G46510.1 42.308 78 38 1 184 254 373 450 3.53e-12 68.2
MsaG017034 AT4G29930.2 28.662 157 84 4 198 349 53 186 5.46e-12 65.5
MsaG017034 AT4G09820.1 27.381 168 88 6 192 355 353 490 5.70e-12 67.4
MsaG017034 AT4G29930.5 28.662 157 84 4 198 349 53 186 7.48e-12 65.1
MsaG017034 AT5G57150.1 26.455 189 128 3 191 374 46 228 1.12e-11 64.7
MsaG017034 AT4G29930.1 28.395 162 105 4 198 348 53 214 1.29e-11 64.7
MsaG017034 AT1G63650.3 30.968 155 95 4 202 346 408 560 1.73e-11 66.2
MsaG017034 AT1G63650.1 30.968 155 95 4 202 346 408 560 1.73e-11 66.2
MsaG017034 AT1G63650.2 30.968 155 95 4 202 346 408 560 1.73e-11 66.2
MsaG017034 AT4G29930.3 28.395 162 105 4 198 348 53 214 1.99e-11 64.3
MsaG017034 AT4G29930.7 28.395 162 105 4 198 348 53 214 1.99e-11 64.3
MsaG017034 AT1G01260.1 48.485 66 29 1 203 263 437 502 2.47e-11 65.9
MsaG017034 AT1G01260.2 48.485 66 29 1 203 263 437 502 2.47e-11 65.9
MsaG017034 AT1G01260.3 48.485 66 29 1 203 263 437 502 2.47e-11 65.9
MsaG017034 AT5G57150.5 46.154 65 35 0 191 255 46 110 3.14e-11 63.2
MsaG017034 AT5G57150.3 46.154 65 35 0 191 255 47 111 3.21e-11 63.2
MsaG017034 AT4G29930.4 46.552 58 31 0 198 255 53 110 3.41e-11 62.4
MsaG017034 AT5G57150.2 46.154 65 35 0 191 255 47 111 3.71e-11 63.2
MsaG017034 AT5G57150.4 46.154 65 35 0 191 255 47 111 7.02e-11 62.8
MsaG017034 AT5G46830.1 31.613 155 86 6 203 353 347 485 8.53e-11 63.9

Find 96 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTCCACTCTTCTTCGATTT+GGG 0.166814 3:+105080250 None:intergenic
ATTCGGTAGATTTGAGAAAT+TGG 0.188390 3:+105080079 None:intergenic
TGTTCCACTCTTCTTCGATT+TGG 0.238362 3:+105080249 None:intergenic
TAGATTTGAGAAATTGGATT+TGG 0.261790 3:+105080085 None:intergenic
TACGATACCTTGGTAATCTT+TGG 0.271309 3:+105079615 None:intergenic
GTTGAAGGAGTTTGAGAATA+AGG 0.272801 3:-105079931 MsaT017034.1:CDS
TGCCAACAAACCAGGTGTTT+TGG 0.303987 3:-105072087 MsaT017034.1:CDS
TTAAGACCTGACACATTGTT+AGG 0.304905 3:+105073996 None:intergenic
GGTATTTGCAGGTAGATGTT+AGG 0.324730 3:-105072148 MsaT017034.1:intron
CCCCAAAACACCTGGTTTGT+TGG 0.337017 3:+105072085 None:intergenic
AAGAAAATGAGGAACCTAAA+TGG 0.357926 3:+105080117 None:intergenic
AGATGTTAGGGTAAGGGAAG+GGG 0.376203 3:-105072135 MsaT017034.1:CDS
CAATACCGCTTTAATTTGTC+CGG 0.376614 3:+105071222 None:intergenic
TTGCACAATTAACCTCGATA+TGG 0.377511 3:-105079953 MsaT017034.1:CDS
TTGATATTGTCATTGATATT+CGG 0.377584 3:+105080062 None:intergenic
AGATTTGAGAAATTGGATTT+GGG 0.379683 3:+105080086 None:intergenic
ATGGACAAAATTTCAATACT+TGG 0.390066 3:-105074182 MsaT017034.1:CDS
GATGTTAGGGTAAGGGAAGG+GGG 0.402944 3:-105072134 MsaT017034.1:CDS
GTTGAAAATTGTGTTGTTGA+TGG 0.411984 3:-105079744 MsaT017034.1:CDS
AGCGGTATTGTTGAAGGCAT+TGG 0.419346 3:-105071209 MsaT017034.1:CDS
GTTTGTTGGCACAAAACATA+TGG 0.425578 3:+105072099 None:intergenic
AAGTAAATAAGTACCTTTGT+TGG 0.430963 3:+105073966 None:intergenic
TTTCTGCCTTCGCTTCTTCT+CGG 0.437246 3:+105079674 None:intergenic
TGGACAAAATTTCAATACTT+GGG 0.438929 3:-105074181 MsaT017034.1:CDS
TCGGCGATGAGACTCTTTGA+TGG 0.448765 3:+105079693 None:intergenic
ACCATCACCAACAATCCATT+TGG 0.465647 3:-105080026 MsaT017034.1:CDS
GATCAACAACAAAACATTGT+TGG 0.466441 3:-105080173 MsaT017034.1:CDS
TTGAAAATTGTGTTGTTGAT+GGG 0.466467 3:-105079743 MsaT017034.1:CDS
GTATTTGCAGGTAGATGTTA+GGG 0.469646 3:-105072147 MsaT017034.1:intron
AGTGTTGGTGTTGGGAAGAT+GGG 0.474014 3:-105079852 MsaT017034.1:CDS
TTCTTTCATTTGAACTGGAA+GGG 0.474550 3:+105074028 None:intergenic
TGCAGGTAGATGTTAGGGTA+AGG 0.474740 3:-105072142 MsaT017034.1:intron
AATTAAAGCGGTATTGTTGA+AGG 0.477783 3:-105071215 MsaT017034.1:CDS
GAGAAATTGGATTTGGGTGA+TGG 0.477857 3:+105080092 None:intergenic
TTATGTCCTAACAATGTGTC+AGG 0.478443 3:-105074002 MsaT017034.1:CDS
GCAGGTAGATGTTAGGGTAA+GGG 0.478930 3:-105072141 MsaT017034.1:intron
GGGATAAGTTCTTCGATACA+AGG 0.479295 3:+105080212 None:intergenic
TATAATGCAAATAACAATGT+TGG 0.480147 3:-105079801 MsaT017034.1:CDS
GAGTGTTGGTGTTGGGAAGA+TGG 0.482223 3:-105079853 MsaT017034.1:CDS
TTCCACTCTTCTTCGATTTG+GGG 0.482765 3:+105080251 None:intergenic
ATGAAGGCATTGGATAGCCT+TGG 0.483753 3:-105072056 MsaT017034.1:CDS
CCTTGGATTGGATGTTCACC+AGG 0.489700 3:-105072039 MsaT017034.1:CDS
GGCATTGGATAGCCTTGGAT+TGG 0.491632 3:-105072051 MsaT017034.1:CDS
GGCGGTGGCATAAATGATAT+AGG 0.492043 3:+105074086 None:intergenic
GACATTACCAAATGGATTGT+TGG 0.497830 3:+105080019 None:intergenic
ATGGAGAGAGATATGCTACC+TGG 0.497924 3:-105080281 MsaT017034.1:CDS
TAAAACAGCTTATGTTAGCC+TGG 0.498246 3:+105072021 None:intergenic
TCATTTATGCCACCGCCTAC+AGG 0.499787 3:-105074080 MsaT017034.1:CDS
TTTCTTTCATTTGAACTGGA+AGG 0.499926 3:+105074027 None:intergenic
TAGATGTTAGGGTAAGGGAA+GGG 0.507834 3:-105072136 MsaT017034.1:CDS
AAATAAGTACCTTTGTTGGT+TGG 0.508995 3:+105073970 None:intergenic
GAGAATAAGGCGGAAACAGA+TGG 0.519276 3:-105079918 MsaT017034.1:CDS
GGGGTCGACTATGAAGGCAT+TGG 0.524597 3:-105072066 MsaT017034.1:CDS
CTAATGAGAGTGTTGGTGTT+GGG 0.532269 3:-105079860 MsaT017034.1:CDS
TCGATTTGGGGTTTCAACCC+AGG 0.534429 3:+105080263 None:intergenic
ACAGAAGTATTTGGGTCTGA+AGG 0.541178 3:+105080149 None:intergenic
GTTGTTGATGGGAACCGAAA+AGG 0.541244 3:-105079732 MsaT017034.1:CDS
ATTAACCTCGATATGGTTGA+AGG 0.542070 3:-105079946 MsaT017034.1:CDS
AATGACAATATCAACATCAC+TGG 0.551581 3:-105080053 MsaT017034.1:CDS
AAATTGAAGACATTACCAAA+TGG 0.551861 3:+105080011 None:intergenic
GTCTTCAATTTAGATTCCCA+AGG 0.555551 3:-105079999 MsaT017034.1:CDS
GGACAAAATTTCAATACTTG+GGG 0.557700 3:-105074180 MsaT017034.1:CDS
TTGTTGATGGGAACCGAAAA+GGG 0.560485 3:-105079731 MsaT017034.1:CDS
TTGAACTGGAAGGGCTGACA+TGG 0.561404 3:+105074037 None:intergenic
AATGCAAATAACAATGTTGG+CGG 0.568331 3:-105079798 MsaT017034.1:CDS
ATAGTCGACCCCAAAACACC+TGG 0.568599 3:+105072077 None:intergenic
AATACCGCTTTAATTTGTCC+GGG 0.573327 3:+105071223 None:intergenic
GGGTGATGGCAAAGAAAATG+AGG 0.574590 3:+105080106 None:intergenic
GTTAATTGTGCAACTGACAA+TGG 0.577189 3:+105079963 None:intergenic
ATGTGAGTTCCTGTAGGCGG+TGG 0.584540 3:+105074071 None:intergenic
TCTAGATGTGTTCAAAGCTG+AGG 0.585169 3:-105071988 MsaT017034.1:intron
GGAAATGAAGAGGTTGGCGG+AGG 0.586382 3:-105079897 MsaT017034.1:CDS
ACAGATGGAAATGAAGAGGT+TGG 0.589595 3:-105079903 MsaT017034.1:CDS
TCATCGCCGAGAAGAAGCGA+AGG 0.591349 3:-105079680 MsaT017034.1:CDS
AAATGGATTGTTGGTGATGG+TGG 0.593173 3:+105080028 None:intergenic
GTTGGGAAGATGGGAAACCA+TGG 0.598548 3:-105079843 MsaT017034.1:CDS
GTAGATGTTAGGGTAAGGGA+AGG 0.599192 3:-105072137 MsaT017034.1:CDS
AAAGACCAAGAATTGACCCC+CGG 0.603457 3:-105071241 MsaT017034.1:CDS
GATGGAAATGAAGAGGTTGG+CGG 0.607553 3:-105079900 MsaT017034.1:CDS
ACCAAATGGATTGTTGGTGA+TGG 0.608335 3:+105080025 None:intergenic
TCTAATGAGAGTGTTGGTGT+TGG 0.611113 3:-105079861 MsaT017034.1:CDS
CCTGGTGAACATCCAATCCA+AGG 0.613572 3:+105072039 None:intergenic
AACCCCAAATCGAAGAAGAG+TGG 0.625613 3:-105080253 MsaT017034.1:CDS
TACCGCTTTAATTTGTCCGG+GGG 0.625772 3:+105071225 None:intergenic
TGGAGAGAGATATGCTACCT+GGG 0.631619 3:-105080280 MsaT017034.1:CDS
CATGACTCTAATGAGAGTGT+TGG 0.632191 3:-105079867 MsaT017034.1:CDS
GTCATAATGTGAGTTCCTGT+AGG 0.642737 3:+105074065 None:intergenic
GGAAACAGATGGAAATGAAG+AGG 0.646809 3:-105079907 MsaT017034.1:CDS
TTGGGAAGATGGGAAACCAT+GGG 0.652197 3:-105079842 MsaT017034.1:CDS
GAAGGAGTTTGAGAATAAGG+CGG 0.653004 3:-105079928 MsaT017034.1:CDS
ATACCGCTTTAATTTGTCCG+GGG 0.659107 3:+105071224 None:intergenic
TGTTGTGCCAAAGATTACCA+AGG 0.666150 3:-105079622 MsaT017034.1:intron
AAACTCCTTCAACCATATCG+AGG 0.678488 3:+105079941 None:intergenic
ATAATGTGAGTTCCTGTAGG+CGG 0.737699 3:+105074068 None:intergenic
ATAAGTTCTTCGATACAAGG+TGG 0.749344 3:+105080215 None:intergenic
AATTGTGCAACTGACAATGG+AGG 0.769372 3:+105079966 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 105071198 105080303 105071198 ID=MsaG017034
Chr3 mRNA 105071198 105080303 105071198 ID=MsaT017034.1;Parent=MsaG017034
Chr3 exon 105071198 105071272 105071198 ID=MsaT017034.1.exon4;Parent=MsaT017034.1
Chr3 CDS 105071198 105071272 105071198 ID=cds.MsaT017034.1;Parent=MsaT017034.1
Chr3 exon 105071989 105072159 105071989 ID=MsaT017034.1.exon3;Parent=MsaT017034.1
Chr3 CDS 105071989 105072159 105071989 ID=cds.MsaT017034.1;Parent=MsaT017034.1
Chr3 exon 105073980 105074204 105073980 ID=MsaT017034.1.exon2;Parent=MsaT017034.1
Chr3 CDS 105073980 105074204 105073980 ID=cds.MsaT017034.1;Parent=MsaT017034.1
Chr3 exon 105079623 105080303 105079623 ID=MsaT017034.1.exon1;Parent=MsaT017034.1
Chr3 CDS 105079623 105080303 105079623 ID=cds.MsaT017034.1;Parent=MsaT017034.1
Gene Sequence

>MsaT017034.1

ATGGAGAGAGATATGCTACCTGGGTTGAAACCCCAAATCGAAGAAGAGTGGAACATGAACAATATACCACCTTGTATCGAAGAACTTATCCCAAATCTTCAAAACCATGATCAACAACAAAACATTGTTGGTCCTTCAGACCCAAATACTTCTGTTTTTAAGCACCATTTAGGTTCCTCATTTTCTTTGCCATCACCCAAATCCAATTTCTCAAATCTACCGAATATCAATGACAATATCAACATCACTGGCACCACCATCACCAACAATCCATTTGGTAATGTCTTCAATTTAGATTCCCAAGGTGTTTTTCAACCTCCATTGTCAGTTGCACAATTAACCTCGATATGGTTGAAGGAGTTTGAGAATAAGGCGGAAACAGATGGAAATGAAGAGGTTGGCGGAGGATCGAATCATGACTCTAATGAGAGTGTTGGTGTTGGGAAGATGGGAAACCATGGGAAAAATGAGGGAAATTATTATAATGCAAATAACAATGTTGGCGGTAGCAATAATAACATCAAAGATAATAATGATGTTGAAAATTGTGTTGTTGATGGGAACCGAAAAGGGAAGAAAAAGAAAACTCCATCAAAGAGTCTCATCGCCGAGAAGAAGCGAAGGCAGAAACTCAGTGATAATATGCACAAGCTTCGTTCTGTTGTGCCAAAGATTACCAAGATGGACAAAATTTCAATACTTGGGGATGCTGTTAACTACCTGAATGAGTTAAAAGAACAAATTAATGATCTTCAAAGTGAGATAGCGTCAAGCTCTCCTATATCATTTATGCCACCGCCTACAGGAACTCACATTATGACATCTACCATGTCAGCCCTTCCAGTTCAAATGAAAGAAAAGTTATGTCCTAACAATGTGTCAGGTCTTAAAAACCAACCAACAAAGGTAGATGTTAGGGTAAGGGAAGGGGGAATTGTCAACATCCATATGTTTTGTGCCAACAAACCAGGTGTTTTGGGGTCGACTATGAAGGCATTGGATAGCCTTGGATTGGATGTTCACCAGGCTAACATAAGCTGTTTTAATGATTTTTCTCTAGATGTGTTCAAAGCTGAGCAACACAACAAAGACCAAGAATTGACCCCCGGACAAATTAAAGCGGTATTGTTGAAGGCATTGGATTTTCATTGA
Protein sequence

>MsaT017034.1

MERDMLPGLKPQIEEEWNMNNIPPCIEELIPNLQNHDQQQNIVGPSDPNTSVFKHHLGSSFSLPSPKSNFSNLPNINDNINITGTTITNNPFGNVFNLDSQGVFQPPLSVAQLTSIWLKEFENKAETDGNEEVGGGSNHDSNESVGVGKMGNHGKNEGNYYNANNNVGGSNNNIKDNNDVENCVVDGNRKGKKKKTPSKSLIAEKKRRQKLSDNMHKLRSVVPKITKMDKISILGDAVNYLNELKEQINDLQSEIASSSPISFMPPPTGTHIMTSTMSALPVQMKEKLCPNNVSGLKNQPTKVDVRVREGGIVNIHMFCANKPGVLGSTMKALDSLGLDVHQANISCFNDFSLDVFKAEQHNKDQELTPGQIKAVLLKALDFH*