AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033877

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033877 MtrunA17_Chr6g0479921 98.089 471 9 0 1 471 1 471 0.0 967
MsaG033877 MtrunA17_Chr8g0375521 58.244 467 136 12 1 457 1 418 1.33e-173 494
MsaG033877 MtrunA17_Chr7g0263941 58.730 189 70 3 1 184 3 188 4.91e-75 241
MsaG033877 MtrunA17_Chr8g0373541 63.855 166 59 1 29 194 33 197 1.45e-74 243
MsaG033877 MtrunA17_Chr8g0342421 65.385 156 53 1 29 184 62 216 1.75e-74 243
MsaG033877 MtrunA17_Chr1g0181381 64.375 160 55 2 26 184 35 193 4.14e-74 241
MsaG033877 MtrunA17_Chr1g0151351 61.404 171 59 3 21 185 28 197 5.97e-73 237
MsaG033877 MtrunA17_Chr2g0330171 63.462 156 56 1 29 184 46 200 1.09e-72 237
MsaG033877 MtrunA17_Chr1g0191991 56.757 185 69 2 29 203 63 246 4.96e-72 237
MsaG033877 MtrunA17_Chr4g0040571 64.103 156 55 1 29 184 39 193 6.46e-72 236
MsaG033877 MtrunA17_Chr1g0199101 62.179 156 58 1 29 184 47 201 1.15e-71 236
MsaG033877 MtrunA17_Chr1g0185121 63.694 157 55 2 29 184 40 195 1.37e-71 233
MsaG033877 MtrunA17_Chr2g0326381 62.179 156 57 2 29 183 32 186 3.19e-70 229
MsaG033877 MtrunA17_Chr1g0210821 61.438 153 58 1 32 184 47 198 6.15e-70 232
MsaG033877 MtrunA17_Chr1g0163001 61.538 156 59 1 29 184 43 197 1.05e-69 231
MsaG033877 MtrunA17_Chr1g0162971 59.615 156 62 1 29 184 41 195 1.15e-69 228
MsaG033877 MtrunA17_Chr4g0029521 61.783 157 58 2 29 184 38 193 1.68e-69 229
MsaG033877 MtrunA17_Chr7g0268961 65.068 146 50 1 39 184 32 176 2.81e-68 226
MsaG033877 MtrunA17_Chr3g0141431 58.642 162 65 2 24 184 17 177 1.28e-67 222
MsaG033877 MtrunA17_Chr2g0324991 67.424 132 42 1 40 171 3 133 1.02e-62 200
MsaG033877 MtrunA17_Chr3g0123941 37.908 153 86 4 35 179 114 265 6.85e-21 93.6
MsaG033877 MtrunA17_Chr2g0320341 33.333 156 89 5 38 179 224 378 8.53e-20 91.3
MsaG033877 MtrunA17_Chr1g0200421 35.333 150 82 7 43 179 236 383 6.69e-18 86.3
MsaG033877 MtrunA17_Chr8g0382121 35.897 156 84 6 37 179 104 256 2.75e-17 82.4
MsaG033877 MtrunA17_Chr4g0057391 39.241 79 48 0 360 438 62 140 4.10e-16 75.5
MsaG033877 MtrunA17_Chr8g0352011 31.034 145 90 5 50 186 171 313 1.44e-13 71.6
MsaG033877 MtrunA17_Chr7g0258011 30.822 146 89 6 50 186 181 323 2.86e-12 67.8
MsaG033877 MtrunA17_Chr2g0328921 28.966 145 93 4 50 186 143 285 8.96e-12 66.2
MsaG033877 MtrunA17_Chr2g0321291 30.496 141 82 5 50 179 138 273 2.25e-11 64.7
MsaG033877 MtrunA17_Chr4g0026521 29.710 138 87 4 50 179 123 258 5.04e-11 63.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033877 AT2G01940.1 51.299 462 155 13 21 462 32 443 2.27e-138 405
MsaG033877 AT2G01940.3 50.647 464 156 15 21 462 32 444 3.88e-133 392
MsaG033877 AT1G68130.1 49.119 454 136 10 22 457 34 410 1.16e-132 390
MsaG033877 AT1G25250.3 81.026 195 32 2 22 211 26 220 1.07e-113 340
MsaG033877 AT1G25250.1 81.461 178 28 2 39 211 20 197 1.20e-102 311
MsaG033877 AT2G01940.2 46.535 404 150 12 75 462 1 354 5.96e-99 301
MsaG033877 AT1G68130.2 42.893 401 134 10 75 457 1 324 2.76e-89 276
MsaG033877 AT1G25250.2 77.465 142 27 2 75 211 1 142 8.00e-74 235
MsaG033877 AT5G66730.1 64.151 159 56 1 26 184 29 186 1.51e-72 238
MsaG033877 AT3G50700.1 59.195 174 65 2 26 194 31 203 2.60e-72 236
MsaG033877 AT1G55110.3 63.125 160 57 2 26 184 60 218 7.07e-71 232
MsaG033877 AT1G55110.1 63.125 160 57 2 26 184 60 218 7.07e-71 232
MsaG033877 AT1G55110.2 63.125 160 57 2 26 184 60 218 7.07e-71 232
MsaG033877 AT2G02080.1 60.256 156 61 1 29 184 54 208 1.37e-70 233
MsaG033877 AT2G02080.4 60.256 156 61 1 29 184 54 208 1.37e-70 233
MsaG033877 AT2G02080.5 60.256 156 61 1 29 184 54 208 1.37e-70 233
MsaG033877 AT2G02080.3 60.256 156 61 1 29 184 54 208 1.37e-70 233
MsaG033877 AT1G03840.1 63.462 156 56 1 29 184 41 195 3.20e-70 232
MsaG033877 AT5G03150.1 62.112 161 59 2 25 184 49 208 3.52e-70 231
MsaG033877 AT4G02670.2 58.757 177 66 3 29 199 55 230 1.82e-69 227
MsaG033877 AT4G02670.1 58.757 177 66 3 29 199 53 228 2.01e-69 227
MsaG033877 AT1G14580.1 58.333 156 64 1 29 184 53 207 7.85e-69 227
MsaG033877 AT1G14580.2 58.333 156 64 1 29 184 53 207 7.85e-69 227
MsaG033877 AT3G13810.6 62.500 160 58 2 25 183 47 205 7.89e-69 228
MsaG033877 AT3G13810.4 62.500 160 58 2 25 183 66 224 1.01e-68 228
MsaG033877 AT3G13810.1 62.500 160 58 2 25 183 66 224 1.01e-68 228
MsaG033877 AT3G13810.5 62.500 160 58 2 25 183 61 219 1.06e-68 228
MsaG033877 AT1G14580.3 58.333 156 64 1 29 184 67 221 1.27e-68 227
MsaG033877 AT5G44160.1 62.179 156 58 1 29 184 37 191 4.07e-68 225
MsaG033877 AT5G60470.3 50.000 204 95 3 6 208 22 219 9.79e-68 224
MsaG033877 AT5G60470.2 50.000 204 95 3 6 208 26 223 9.94e-68 224
MsaG033877 AT2G02070.2 59.615 156 62 1 29 184 52 206 3.00e-67 226
MsaG033877 AT2G02070.1 59.615 156 62 1 29 184 52 206 3.00e-67 226
MsaG033877 AT3G45260.2 59.873 157 61 2 29 184 39 194 3.29e-67 222
MsaG033877 AT3G45260.1 59.873 157 61 2 29 184 39 194 3.29e-67 222
MsaG033877 AT1G03840.2 62.179 156 56 2 29 184 41 193 1.44e-66 222
MsaG033877 AT5G44160.2 63.014 146 53 1 39 184 8 152 1.44e-64 215
MsaG033877 AT3G13810.3 64.138 145 50 2 40 183 68 211 1.19e-63 214
MsaG033877 AT3G13810.2 64.138 145 50 2 40 183 82 225 1.68e-63 214
MsaG033877 AT5G60470.1 53.529 170 77 2 40 208 46 214 2.03e-61 207
MsaG033877 AT2G02080.6 59.091 132 53 1 53 184 1 131 5.23e-58 198
MsaG033877 AT2G02080.2 59.091 132 53 1 53 184 1 131 5.23e-58 198
MsaG033877 AT5G22890.1 30.994 171 102 6 24 179 182 351 1.34e-17 84.7
MsaG033877 AT1G34370.3 31.210 157 91 5 38 179 14 168 1.35e-16 80.5
MsaG033877 AT1G34370.2 31.210 157 91 5 38 179 224 378 2.16e-16 82.0
MsaG033877 AT1G34370.1 31.210 157 91 5 38 179 224 378 2.16e-16 82.0
MsaG033877 AT3G48550.1 41.772 79 46 0 360 438 79 157 1.11e-15 74.7
MsaG033877 AT3G20880.1 29.252 147 94 4 50 188 248 392 7.33e-12 67.4

Find 81 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTATGCATCTGTAAATTT+TGG 0.191998 6:-101254421 None:intergenic
ATAGTAGTAATAGGAGTAAT+AGG 0.205036 6:-101256222 None:intergenic
TTGCTATTGCTACTCTCTTT+TGG 0.260760 6:-101256495 None:intergenic
TTGAAATTTGTTTCACTTGA+TGG 0.265033 6:-101256129 None:intergenic
GCACTTCTTCCACTAATAAA+AGG 0.270599 6:+101253937 MsaT033877.1:CDS
AGTGAACTTGATAAAGCTTA+TGG 0.272526 6:+101256708 MsaT033877.1:CDS
CATGATCCTTGTCATGCTTT+AGG 0.279693 6:+101254536 MsaT033877.1:CDS
AACAAGCAAAGGAACAATTA+AGG 0.285904 6:+101256571 MsaT033877.1:CDS
GAAGGTGTAATAGTAGTAAT+AGG 0.296600 6:-101256231 None:intergenic
GAGTAGAAGTTTACTGTTCT+TGG 0.309900 6:-101256268 None:intergenic
GAGAGTTGAAGTTCCAAGTT+TGG 0.344241 6:-101256294 None:intergenic
TTTGGTCCCTTTGGAATCCT+TGG 0.356941 6:-101254403 None:intergenic
TTGGAGAAAGTTTGAGAAGA+AGG 0.371907 6:-101256249 None:intergenic
ACCCAGTTGCATCTCTCAAT+AGG 0.390031 6:+101256411 MsaT033877.1:CDS
TTCACCACCTTCAGTAGTTA+TGG 0.411636 6:-101256850 None:intergenic
GTGGTTGAGATTCTGAATTA+TGG 0.414564 6:-101256059 None:intergenic
AGAGACACCACTTCTGCATC+TGG 0.419684 6:-101254329 None:intergenic
CAAACAACATGGCTTTATTG+AGG 0.420212 6:+101256541 MsaT033877.1:CDS
TCTCTCTTCAATAGCTTCCA+TGG 0.428102 6:-101254458 None:intergenic
AGCAAAGAAACAAATTGAAA+TGG 0.432424 6:+101256638 MsaT033877.1:CDS
TGGTGCAAACAAGTTGGTTC+AGG 0.440705 6:-101254515 None:intergenic
GTAGAAAATGTTGATGGAAA+AGG 0.444254 6:+101256873 MsaT033877.1:CDS
CCCAGTTGCATCTCTCAATA+GGG 0.448514 6:+101256412 MsaT033877.1:CDS
AGAAGACAAACCTGGTGTTC+CGG 0.450569 6:-101253973 None:intergenic
ACAAGCAAAGGAACAATTAA+GGG 0.459888 6:+101256572 MsaT033877.1:CDS
CATGCTTTAGGTGATCTTGT+TGG 0.466169 6:+101254548 MsaT033877.1:CDS
TTTGTTTCACTTGATGGACT+TGG 0.468237 6:-101256123 None:intergenic
ACTTCTACTCCATCCAAACT+TGG 0.470050 6:+101256281 MsaT033877.1:CDS
AAACAACATGGCTTTATTGA+GGG 0.470111 6:+101256542 MsaT033877.1:CDS
AGACGTGTTGGCGTTGTTTG+TGG 0.476892 6:-101256319 None:intergenic
TCAGAAGATGGAAGTGAAGA+TGG 0.478640 6:-101253891 None:intergenic
GTTTGTGAAAGATGTTCTAA+AGG 0.483884 6:+101254617 MsaT033877.1:CDS
TAGTAGTAATAGGAGTAATA+GGG 0.486179 6:-101256221 None:intergenic
ACCCTATTGAGAGATGCAAC+TGG 0.499687 6:-101256413 None:intergenic
CGTGTTGGCGTTGTTTGTGG+TGG 0.503527 6:-101256316 None:intergenic
ACATAGTAATCATAAACAAT+GGG 0.505280 6:+101254595 MsaT033877.1:CDS
GTTGAAGTTCCAAGTTTGGA+TGG 0.511669 6:-101256290 None:intergenic
GGTGAAGTAGAAAATGTTGA+TGG 0.512722 6:+101256867 MsaT033877.1:CDS
AGAGATGCAACTGGGTTGAC+CGG 0.514213 6:-101256404 None:intergenic
TCAACATGAAGATAACTCTC+TGG 0.515367 6:+101256806 MsaT033877.1:CDS
GTATGTGAGATCTGCAACCA+AGG 0.515942 6:+101254386 MsaT033877.1:CDS
AGAAGACCCGCCGGAACACC+AGG 0.530373 6:+101253963 MsaT033877.1:CDS
AACATAGTAATCATAAACAA+TGG 0.531879 6:+101254594 MsaT033877.1:CDS
GGAACAATTAAGGGTAGCTA+TGG 0.532033 6:+101256581 MsaT033877.1:CDS
CTAAAGCATGACAAGGATCA+TGG 0.532248 6:-101254535 None:intergenic
ATTTACAGATGCATAGAAGA+AGG 0.537823 6:+101254426 MsaT033877.1:CDS
GTCTGTTGTCAGAGACGTGT+TGG 0.545858 6:-101256331 None:intergenic
GATGCATAGAAGAAGGCATA+AGG 0.546337 6:+101254433 MsaT033877.1:CDS
CATGCAGTTGGTGTTTGTAG+TGG 0.548615 6:-101256078 None:intergenic
TCTTCTGCCATAACTACTGA+AGG 0.549896 6:+101256843 MsaT033877.1:CDS
GCTTGAAGCCTTGTTTGCCA+TGG 0.551999 6:-101256159 None:intergenic
GCATCAAGATGCTTGTAACA+TGG 0.556790 6:+101256029 MsaT033877.1:CDS
GACAAACCTGGTGTTCCGGC+GGG 0.558405 6:-101253969 None:intergenic
CCCTATTGAGAGATGCAACT+GGG 0.563924 6:-101256412 None:intergenic
TACTGTAGAGGCTATTCAGA+AGG 0.567832 6:+101256377 MsaT033877.1:CDS
CTCAAAACTTGTGGTACTAG+AGG 0.574559 6:+101254671 MsaT033877.1:CDS
ATACATGTCCATGGCAAACA+AGG 0.574678 6:+101256151 MsaT033877.1:CDS
AAGATGCTTGTAACATGGGA+AGG 0.578944 6:+101256034 MsaT033877.1:CDS
AGATAAGCTATTAGCTAACA+TGG 0.580180 6:-101253868 None:intergenic
CATCAAGATGCTTGTAACAT+GGG 0.585409 6:+101256030 MsaT033877.1:CDS
TTTCTCATGACTCATTTCTG+AGG 0.585431 6:-101256436 None:intergenic
CAAATTTCAATACATGTCCA+TGG 0.586561 6:+101256142 MsaT033877.1:CDS
AGGCTATTCAGAAGGTTAGC+CGG 0.588730 6:+101256385 MsaT033877.1:CDS
AAAGCTCATCTCAAAACTTG+TGG 0.590538 6:+101254662 MsaT033877.1:CDS
AGAGGTCATTCATGTGATTG+TGG 0.593681 6:+101254689 MsaT033877.1:CDS
AAGCTTATGCTGAAGAAGCA+AGG 0.595645 6:+101256610 MsaT033877.1:CDS
CAGAAGTGTTGGTACTGTAG+AGG 0.600946 6:+101256365 MsaT033877.1:CDS
CTGCAACCAAGGATTCCAAA+GGG 0.607708 6:+101254397 MsaT033877.1:CDS
GGATCATGGTGCAAACAAGT+TGG 0.608116 6:-101254521 None:intergenic
GAAGAAGGCATAAGGTACCA+TGG 0.614434 6:+101254441 MsaT033877.1:CDS
AATAGATCCAGATGCAGAAG+TGG 0.615906 6:+101254322 MsaT033877.1:intron
GTTCTTGATAAGCATGCAGT+TGG 0.616099 6:-101256090 None:intergenic
GAGGGTTCAAGAACAAGCAA+AGG 0.618259 6:+101256560 MsaT033877.1:CDS
AGACAAACCTGGTGTTCCGG+CGG 0.621320 6:-101253970 None:intergenic
GTACCAACACTTCTGATCGA+AGG 0.635253 6:-101256357 None:intergenic
ACGCCTTCGATCAGAAGTGT+TGG 0.635353 6:+101256354 MsaT033877.1:CDS
TCTGCAACCAAGGATTCCAA+AGG 0.641443 6:+101254396 MsaT033877.1:CDS
AAAAGGAAAAGAAGACCCGC+CGG 0.646338 6:+101253954 MsaT033877.1:CDS
TCTGCCATAACTACTGAAGG+TGG 0.661155 6:+101256846 MsaT033877.1:CDS
ATCAACAACAACAAACAACA+TGG 0.678900 6:+101256530 MsaT033877.1:CDS
AGATCACCTAAAGCATGACA+AGG 0.685132 6:-101254542 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 101253870 101256911 101253870 ID=MsaG033877
Chr6 mRNA 101253870 101256911 101253870 ID=MsaT033877.1;Parent=MsaG033877
Chr6 exon 101253870 101253984 101253870 ID=MsaT033877.1.exon1;Parent=MsaT033877.1
Chr6 CDS 101253870 101253984 101253870 ID=cds.MsaT033877.1;Parent=MsaT033877.1
Chr6 exon 101254327 101254726 101254327 ID=MsaT033877.1.exon2;Parent=MsaT033877.1
Chr6 CDS 101254327 101254726 101254327 ID=cds.MsaT033877.1;Parent=MsaT033877.1
Chr6 exon 101256011 101256911 101256011 ID=MsaT033877.1.exon3;Parent=MsaT033877.1
Chr6 CDS 101256011 101256911 101256011 ID=cds.MsaT033877.1;Parent=MsaT033877.1
Gene Sequence

>MsaT033877.1

ATGTTAGCTAATAGCTTATCTCCATCTTCACTTCCATCTTCTGAGCCTTTTTCTTGCAATGAAAATGGCACTTCTTCCACTAATAAAAGGAAAAGAAGACCCGCCGGAACACCAGATCCAGATGCAGAAGTGGTGTCTCTCTCACCAAAAACATTGTTGGAATCAGATCGTTATGTATGTGAGATCTGCAACCAAGGATTCCAAAGGGACCAAAATTTACAGATGCATAGAAGAAGGCATAAGGTACCATGGAAGCTATTGAAGAGAGAAACACCAGTTGTTAGAAAAAGAGTTTTTGTTTGTCCTGAACCAACTTGTTTGCACCATGATCCTTGTCATGCTTTAGGTGATCTTGTTGGTATCAAAAAACATTTTAGAAGAAAACATAGTAATCATAAACAATGGGTTTGTGAAAGATGTTCTAAAGGTTATGCAGTGCAATCTGATTATAAAGCTCATCTCAAAACTTGTGGTACTAGAGGTCATTCATGTGATTGTGGTCGTGTTTTCTCAAGGGTTGAGAGCTTTATTGAGCATCAAGATGCTTGTAACATGGGAAGGATCCATAATTCAGAATCTCAACCACTACAAACACCAACTGCATGCTTATCAAGAACAGCTTCAAGTCCAAGTCCATCAAGTGAAACAAATTTCAATACATGTCCATGGCAAACAAGGCTTCAAGCAATGCCAAAAACAACAAAAGAATCAACAATATTCATGAACCCTATTACTCCTATTACTACTATTACACCTTCTTCTCAAACTTTCTCCAAGAACAGTAAACTTCTACTCCATCCAAACTTGGAACTTCAACTCTCCACCACAAACAACGCCAACACGTCTCTGACAACAGACACGCCTTCGATCAGAAGTGTTGGTACTGTAGAGGCTATTCAGAAGGTTAGCCGGTCAACCCAGTTGCATCTCTCAATAGGGTCCTCAGAAATGAGTCATGAGAAAAATGAATCAAACAATATTAGAAACTCAAACTCATCACCAAAAGAGAGTAGCAATAGCAATGAGAAAGTTCAATCAACAACAACAAACAACATGGCTTTATTGAGGGTTCAAGAACAAGCAAAGGAACAATTAAGGGTAGCTATGGCCGAAAAAGCTTATGCTGAAGAAGCAAGGAAACAAGCAAAGAAACAAATTGAAATGGCTGAACAAGAGTTCAACAATGCAAAGAGAATTAGACAACAAGCACAAAGTGAACTTGATAAAGCTTATGGATTGAAACAACATGCAATAAAGCAAATCAACTCAACTATGCTTCAAATCACTTGTCAAACTTGCAAACAACAATTTCAACATGAAGATAACTCTCTGGTGTTGAGCTATGTTTCTTCTGCCATAACTACTGAAGGTGGTGAAGTAGAAAATGTTGATGGAAAAGGCAAAACAACTAATTAG
Protein sequence

>MsaT033877.1

MLANSLSPSSLPSSEPFSCNENGTSSTNKRKRRPAGTPDPDAEVVSLSPKTLLESDRYVCEICNQGFQRDQNLQMHRRRHKVPWKLLKRETPVVRKRVFVCPEPTCLHHDPCHALGDLVGIKKHFRRKHSNHKQWVCERCSKGYAVQSDYKAHLKTCGTRGHSCDCGRVFSRVESFIEHQDACNMGRIHNSESQPLQTPTACLSRTASSPSPSSETNFNTCPWQTRLQAMPKTTKESTIFMNPITPITTITPSSQTFSKNSKLLLHPNLELQLSTTNNANTSLTTDTPSIRSVGTVEAIQKVSRSTQLHLSIGSSEMSHEKNESNNIRNSNSSPKESSNSNEKVQSTTTNNMALLRVQEQAKEQLRVAMAEKAYAEEARKQAKKQIEMAEQEFNNAKRIRQQAQSELDKAYGLKQHAIKQINSTMLQITCQTCKQQFQHEDNSLVLSYVSSAITTEGGEVENVDGKGKTTN*