AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001429

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001429 MtrunA17_Chr1g0163071 92.053 302 20 1 33 334 1 298 0.0 545
MsaG001429 MtrunA17_Chr1g0208771 46.204 461 226 11 34 486 13 459 1.45e-124 371
MsaG001429 MtrunA17_Chr8g0390841 41.586 517 248 13 1 486 26 519 8.35e-123 369
MsaG001429 MtrunA17_Chr3g0131891 37.615 327 151 11 13 323 14 303 1.92e-55 188
MsaG001429 MtrunA17_Chr7g0233541 35.484 310 165 7 33 330 1 287 4.32e-52 178
MsaG001429 MtrunA17_Chr7g0233561 32.827 329 168 6 16 323 16 312 3.39e-50 174
MsaG001429 MtrunA17_Chr7g0233521 34.628 309 152 8 33 330 1 270 1.09e-48 169
MsaG001429 MtrunA17_Chr3g0103181 32.704 318 163 8 12 322 6 279 3.92e-46 162
MsaG001429 MtrunA17_Chr3g0103181 27.206 272 171 9 235 484 13 279 2.70e-19 87.8
MsaG001429 MtrunA17_Chr7g0233531 32.039 309 160 6 33 330 1 270 2.90e-44 157
MsaG001429 MtrunA17_Chr3g0103191 34.686 271 138 8 12 282 6 237 8.62e-42 149
MsaG001429 MtrunA17_Chr4g0033961 28.861 395 198 12 18 331 6 398 1.37e-40 151
MsaG001429 MtrunA17_Chr1g0163181 27.484 473 279 15 26 487 13 432 2.82e-39 147
MsaG001429 MtrunA17_Chr4g0067431 30.723 332 196 11 13 331 10 320 2.97e-38 142
MsaG001429 MtrunA17_Chr3g0103171 29.630 297 164 7 34 322 6 265 4.57e-38 140
MsaG001429 MtrunA17_Chr3g0103171 28.030 264 156 9 251 484 6 265 2.93e-19 87.4
MsaG001429 MtrunA17_Chr7g0233571 33.040 227 131 4 18 244 10 215 2.15e-32 123
MsaG001429 MtrunA17_Chr3g0103151 41.176 153 86 3 16 168 10 158 4.13e-32 120
MsaG001429 MtrunA17_Chr1g0163221 30.154 325 190 9 13 331 6 299 9.37e-30 119
MsaG001429 MtrunA17_Chr1g0163261 25.857 321 193 6 17 330 8 290 6.18e-27 110
MsaG001429 MtrunA17_Chr3g0103201 30.315 254 133 8 76 322 4 220 2.16e-26 106
MsaG001429 MtrunA17_Chr3g0103201 38.095 126 71 5 363 484 98 220 1.35e-15 75.9
MsaG001429 MtrunA17_Chr1g0163251 27.742 310 182 9 26 329 13 286 6.03e-26 109
MsaG001429 MtrunA17_Chr5g0419201 33.962 159 89 3 18 168 16 166 2.16e-25 103
MsaG001429 MtrunA17_Chr1g0154041 25.641 351 215 8 32 351 29 364 2.34e-25 109
MsaG001429 MtrunA17_Chr3g0077411 21.951 533 309 14 18 484 25 516 1.39e-24 106
MsaG001429 MtrunA17_Chr3g0077411 25.153 326 158 9 15 322 259 516 7.62e-22 98.6
MsaG001429 MtrunA17_Chr1g0163131 28.660 321 185 11 13 319 13 303 7.90e-23 99.0
MsaG001429 MtrunA17_Chr1g0163131 24.013 304 174 10 226 481 9 303 8.82e-11 63.2
MsaG001429 MtrunA17_Chr1g0163201 25.166 302 189 6 34 328 19 290 3.60e-21 95.5
MsaG001429 MtrunA17_Chr3g0077451 27.119 295 148 7 32 326 10 237 4.38e-21 92.4
MsaG001429 MtrunA17_Chr5g0429931 26.667 300 142 9 34 323 11 242 5.54e-21 92.0
MsaG001429 MtrunA17_Chr6g0467351 32.911 158 92 3 16 172 13 157 1.02e-20 90.9
MsaG001429 MtrunA17_Chr3g0103161 40.650 123 68 3 364 483 2 122 3.42e-20 86.3
MsaG001429 MtrunA17_Chr1g0163231 22.857 315 186 10 18 321 9 277 3.49e-19 88.2
MsaG001429 MtrunA17_Chr1g0162441 33.813 139 79 2 18 146 7 142 1.89e-18 87.4
MsaG001429 MtrunA17_Chr1g0162441 28.000 175 114 4 165 327 222 396 2.65e-17 84.0
MsaG001429 MtrunA17_Chr3g0077461 26.351 296 133 8 21 311 241 456 5.78e-18 86.3
MsaG001429 MtrunA17_Chr3g0077461 21.967 478 303 15 34 479 23 462 1.82e-15 78.6
MsaG001429 MtrunA17_Chr1g0163191 41.758 91 51 1 26 116 13 101 1.28e-17 80.1
MsaG001429 MtrunA17_Chr1g0154071 24.444 315 212 6 32 320 169 483 5.55e-17 83.6
MsaG001429 MtrunA17_Chr1g0154161 23.270 318 194 10 16 322 28 306 1.70e-15 77.4
MsaG001429 MtrunA17_Chr1g0163101 33.333 144 88 4 13 151 12 152 3.09e-15 73.9
MsaG001429 MtrunA17_Chr3g0077381 21.750 400 245 11 32 392 34 404 3.86e-15 77.4
MsaG001429 MtrunA17_Chr1g0163061 36.449 107 61 2 16 118 13 116 7.90e-15 74.7
MsaG001429 MtrunA17_Chr1g0154171 20.968 310 221 6 31 319 35 341 1.64e-14 75.1
MsaG001429 MtrunA17_Chr1g0171611 34.343 99 63 1 18 116 9 105 1.66e-14 73.9
MsaG001429 MtrunA17_Chr1g0163241 40.964 83 47 1 34 116 23 103 2.12e-14 71.2
MsaG001429 MtrunA17_Chr1g0162411 31.532 111 68 1 18 120 7 117 5.84e-14 73.9
MsaG001429 MtrunA17_Chr1g0163141 38.542 96 56 2 32 127 9 101 1.65e-13 68.9
MsaG001429 MtrunA17_Chr4g0009491 36.782 87 55 0 32 118 11 97 1.70e-13 72.4
MsaG001429 MtrunA17_Chr4g0009491 34.694 98 63 1 21 118 229 325 2.33e-11 65.9
MsaG001429 MtrunA17_Chr1g0154151 23.411 299 211 9 34 321 20 311 6.42e-13 69.7
MsaG001429 MtrunA17_Chr1g0163121 35.652 115 67 4 32 142 9 120 1.69e-12 65.1
MsaG001429 MtrunA17_Chr1g0162161 35.714 112 65 4 33 140 3 111 1.13e-11 63.2
MsaG001429 MtrunA17_Chr1g0163161 37.255 102 56 3 46 142 1 99 1.14e-11 62.4
MsaG001429 MtrunA17_Chr1g0163091 30.556 108 67 3 229 328 17 124 1.51e-11 62.8
MsaG001429 MtrunA17_Chr3g0077361 29.078 141 92 4 18 156 40 174 3.99e-11 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001429 AT3G18990.1 27.794 349 197 10 18 326 6 339 8.15e-36 136
MsaG001429 AT3G18990.1 36.607 112 66 3 378 487 230 338 3.32e-14 74.3
MsaG001429 AT3G18990.2 25.707 389 228 11 18 368 6 371 1.04e-35 136
MsaG001429 AT3G18990.2 36.607 112 66 3 378 487 230 338 4.58e-14 73.9
MsaG001429 AT4G01580.1 33.571 140 84 2 17 154 29 161 3.84e-18 82.8
MsaG001429 AT3G18960.2 36.275 102 65 0 17 118 29 130 8.82e-18 82.0
MsaG001429 AT3G18960.1 36.275 102 65 0 17 118 29 130 1.37e-17 81.6
MsaG001429 AT4G33280.1 26.562 320 186 13 31 330 36 326 1.83e-15 78.2
MsaG001429 AT1G49480.3 31.081 148 94 5 186 326 78 224 2.24e-15 75.9
MsaG001429 AT1G49480.3 36.607 112 66 3 378 487 115 223 3.19e-15 75.5
MsaG001429 AT1G49480.1 31.081 148 94 5 186 326 78 224 2.24e-15 75.9
MsaG001429 AT1G49480.1 36.607 112 66 3 378 487 115 223 3.19e-15 75.5
MsaG001429 AT1G49480.2 31.081 148 94 5 186 326 78 224 2.24e-15 75.9
MsaG001429 AT1G49480.2 36.607 112 66 3 378 487 115 223 3.19e-15 75.5
MsaG001429 AT1G49475.1 33.333 135 79 4 17 142 33 165 9.31e-15 73.2
MsaG001429 AT3G18960.3 40.000 85 51 0 34 118 9 93 1.24e-14 72.4

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTAGAGGTTGGAAGCTATTT+TGG 0.155141 1:+20012545 MsaT001429.1:CDS
TGAGGACTCCATTGAAATTT+TGG 0.168496 1:+20010924 MsaT001429.1:CDS
AATCAAATAATCCTTCTTTC+AGG 0.198997 1:+20011307 MsaT001429.1:CDS
AACTCTTGGATGGGAGAGTT+TGG 0.242668 1:+20011630 MsaT001429.1:CDS
GGACACATAATTGGTGATTT+TGG 0.244060 1:-20010979 None:intergenic
TAATTTGTAATGAAGGAATT+TGG 0.257343 1:-20012424 None:intergenic
CATGATGCTTAGGCAAGTTT+TGG 0.267797 1:-20011062 None:intergenic
CAAAGTAAGGTATTGGCTTT+TGG 0.269874 1:-20011750 None:intergenic
GAATAACAATGCAACTTTAC+AGG 0.277076 1:-20012499 None:intergenic
GTACACAACAAGTTGAAAAT+TGG 0.282001 1:+20011704 MsaT001429.1:CDS
AACAACAATGACTAGCAATA+TGG 0.282526 1:+20009970 None:intergenic
CAGATGGTGATGTTAAAGTT+TGG 0.294860 1:+20012463 MsaT001429.1:CDS
CTAGAATGCCCTCGTTGATT+TGG 0.297882 1:-20012271 None:intergenic
AGCTTTCCATCTTGAAGAAT+TGG 0.312657 1:-20010049 None:intergenic
ATAAATATGTGAAGACTTCA+TGG 0.326594 1:-20011334 None:intergenic
TGTGGTTGAGGACACATAAT+TGG 0.354680 1:-20010988 None:intergenic
TGACATTCTTCTTCAACTCT+TGG 0.360124 1:+20011616 MsaT001429.1:CDS
TTACTTTCAAAGTAAGGTAT+TGG 0.362100 1:-20011757 None:intergenic
AGATGGTGATGTTAAAGTTT+GGG 0.372056 1:+20012464 MsaT001429.1:CDS
TGGTCCTTAGTGAAACCTTT+TGG 0.375145 1:-20010625 None:intergenic
CTCAATTTCTTATGTGGTTG+AGG 0.376046 1:-20011000 None:intergenic
TGTTATTCCAACATGAAATC+AGG 0.384360 1:+20012514 MsaT001429.1:CDS
TTCCTTCATTACAAATTACT+TGG 0.385639 1:+20012429 MsaT001429.1:CDS
ACTCTTGGATGGGAGAGTTT+GGG 0.388176 1:+20011631 MsaT001429.1:CDS
ATCCAAGTAATTTGTAATGA+AGG 0.391002 1:-20012431 None:intergenic
GATTTGACATGTCATTCATA+TGG 0.392626 1:-20010645 None:intergenic
TTCAATCTCAAGGGTGCTCT+TGG 0.393696 1:-20010845 None:intergenic
ATATTATTACTTTCAAAGTA+AGG 0.401134 1:-20011763 None:intergenic
TATTTAACTGCTCCTGCTCT+TGG 0.409863 1:-20011269 None:intergenic
GCTTCCAACCTCTACAAAAC+TGG 0.416735 1:-20012537 None:intergenic
TCACTTCTCAATTTCTTATG+TGG 0.420211 1:-20011006 None:intergenic
TGACTTGTCCAAAATTTCAA+TGG 0.426645 1:-20010932 None:intergenic
ATTCTTCTTCAACTCTTGGA+TGG 0.449374 1:+20011620 MsaT001429.1:CDS
TGAGTGCGACTAAAATCAAT+GGG 0.458480 1:+20010707 MsaT001429.1:CDS
ACATATTTATAGTCATTCCT+TGG 0.460818 1:+20011347 MsaT001429.1:CDS
CAAGAATTATACCACTAGAT+TGG 0.461063 1:-20011086 None:intergenic
ACACATTATTCACTAGATCA+TGG 0.461106 1:+20010766 MsaT001429.1:CDS
GATTCCTCAAAATTTGTTTG+CGG 0.461509 1:-20012090 None:intergenic
TGGAGTTGAATTTATCAGCT+TGG 0.461811 1:-20012219 None:intergenic
TCAACGAGGGCATTCTAGAT+TGG 0.465952 1:+20012276 MsaT001429.1:CDS
ACAACAATGACTAGCAATAT+GGG 0.471707 1:+20009971 None:intergenic
TTCTTCTTCAACTCTTGGAT+GGG 0.471949 1:+20011621 MsaT001429.1:CDS
CTGGAAGAATTAAAGGTGGA+TGG 0.489864 1:+20011669 MsaT001429.1:CDS
TGGGAAGAAAATAAATTGAA+AGG 0.492702 1:+20012565 MsaT001429.1:CDS
ACCACACCAATTCTTCAAGA+TGG 0.495178 1:+20010043 MsaT001429.1:CDS
ATGAGTGCGACTAAAATCAA+TGG 0.496366 1:+20010706 MsaT001429.1:CDS
AGTAATAATATTTAGACTTG+AGG 0.498996 1:+20011775 MsaT001429.1:CDS
TAAAGTTTGGGAAGAAATTG+TGG 0.501503 1:+20012476 MsaT001429.1:CDS
TTGGATTACCTTGATGTAGA+GGG 0.501942 1:-20011811 None:intergenic
CTAGATTGGACATGATGCTT+AGG 0.523842 1:-20011072 None:intergenic
GGAAAGGATATTCAATCTCA+AGG 0.524747 1:-20010855 None:intergenic
TCTGGAGTCTTGAGAAACAT+TGG 0.528591 1:-20010667 None:intergenic
CACATTATTCACTAGATCAT+GGG 0.539236 1:+20010767 MsaT001429.1:CDS
TTCATGGTAATCCTGAAAGA+AGG 0.545664 1:-20011318 None:intergenic
TCGCGTTATGACAGGAGAGA+AGG 0.560064 1:+20012138 MsaT001429.1:CDS
ATTGGATTACCTTGATGTAG+AGG 0.560769 1:-20011812 None:intergenic
CTTGGATAACAAGGAACAGA+TGG 0.569177 1:+20012447 MsaT001429.1:CDS
ACGAATAGTAGAAGCAGAGA+GGG 0.570331 1:-20010005 None:intergenic
GCATTGTAGATGATACCAAA+AGG 0.572068 1:+20010610 MsaT001429.1:intron
AAACTGGCCTGATTTCATGT+TGG 0.576131 1:-20012521 None:intergenic
TACAAATTACTTGGATAACA+AGG 0.576875 1:+20012438 MsaT001429.1:CDS
TGATTGTTAGCAAATTGTGA+TGG 0.578116 1:-20011575 None:intergenic
GAAGAAAATAAATTGAAAGG+TGG 0.594266 1:+20012568 MsaT001429.1:CDS
GATTGTTAGCAAATTGTGAT+GGG 0.597689 1:-20011574 None:intergenic
GAAAGGATATTCAATCTCAA+GGG 0.599161 1:-20010854 None:intergenic
GATACCAAAAGGTTTCACTA+AGG 0.601016 1:+20010621 MsaT001429.1:CDS
ATGTTTCTCAAGACTCCAGA+TGG 0.601949 1:+20010670 MsaT001429.1:CDS
AGTGACTCAAGTGAAGGTGT+TGG 0.603054 1:+20011024 MsaT001429.1:CDS
TCCATCTTGAAGAATTGGTG+TGG 0.604101 1:-20010044 None:intergenic
TTGAGAAGTGACTCAAGTGA+AGG 0.604348 1:+20011018 MsaT001429.1:CDS
TGTCTTTGAGCTTATCAAGA+GGG 0.608394 1:+20012600 MsaT001429.1:CDS
CCACACACCCCTCTACATCA+AGG 0.612061 1:+20011803 MsaT001429.1:CDS
TTCACTAGATCATGGGCACA+TGG 0.616979 1:+20010774 MsaT001429.1:CDS
CCTTGATGTAGAGGGGTGTG+TGG 0.632002 1:-20011803 None:intergenic
TGGATTACCTTGATGTAGAG+GGG 0.635013 1:-20011810 None:intergenic
AAGCATCATGTCCAATCTAG+TGG 0.644078 1:+20011075 MsaT001429.1:CDS
AACGAATAGTAGAAGCAGAG+AGG 0.651419 1:-20010006 None:intergenic
TGATCAACAAAGTAGTGATG+AGG 0.654895 1:+20010906 MsaT001429.1:CDS
GTGTCTTTGAGCTTATCAAG+AGG 0.662665 1:+20012599 MsaT001429.1:CDS
AATATTATGCCAAATCAACG+AGG 0.719522 1:+20012262 MsaT001429.1:CDS
ATATTATGCCAAATCAACGA+GGG 0.724045 1:+20012263 MsaT001429.1:CDS
GAGTGCGACTAAAATCAATG+GGG 0.768451 1:+20010708 MsaT001429.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 20009977 20012663 20009977 ID=MsaG001429
Chr1 mRNA 20009977 20012663 20009977 ID=MsaT001429.1;Parent=MsaG001429
Chr1 exon 20009977 20010072 20009977 ID=MsaT001429.1.exon1;Parent=MsaT001429.1
Chr1 CDS 20009977 20010072 20009977 ID=cds.MsaT001429.1;Parent=MsaT001429.1
Chr1 exon 20010619 20011096 20010619 ID=MsaT001429.1.exon2;Parent=MsaT001429.1
Chr1 CDS 20010619 20011096 20010619 ID=cds.MsaT001429.1;Parent=MsaT001429.1
Chr1 exon 20011196 20011368 20011196 ID=MsaT001429.1.exon3;Parent=MsaT001429.1
Chr1 CDS 20011196 20011368 20011196 ID=cds.MsaT001429.1;Parent=MsaT001429.1
Chr1 exon 20011569 20011824 20011569 ID=MsaT001429.1.exon4;Parent=MsaT001429.1
Chr1 CDS 20011569 20011824 20011569 ID=cds.MsaT001429.1;Parent=MsaT001429.1
Chr1 exon 20012083 20012297 20012083 ID=MsaT001429.1.exon5;Parent=MsaT001429.1
Chr1 CDS 20012083 20012297 20012083 ID=cds.MsaT001429.1;Parent=MsaT001429.1
Chr1 exon 20012418 20012663 20012418 ID=MsaT001429.1.exon6;Parent=MsaT001429.1
Chr1 CDS 20012418 20012663 20012418 ID=cds.MsaT001429.1;Parent=MsaT001429.1
Gene Sequence

>MsaT001429.1

ATGACTAGCAATATGGGAACTAAGCATACCCTCTCTGCTTCTACTATTCGTTTCTTTAGAGTTATTACCACACCAATTCTTCAAGATGGAAAGCTTATGATACCAAAAGGTTTCACTAAGGACCATATGAATGACATGTCAAATCCAATGTTTCTCAAGACTCCAGATGGCAAAAATTGGGAAATGAGTGCGACTAAAATCAATGGGGATTTTTGGTTTCAAAAGGGTTGGAAAGAATTTGCTACACATTATTCACTAGATCATGGGCACATGGTATTATTTCAATATGAAGAAAACTCTCATTTTGTGGTTCATATATTTTCCAAGAGCACCCTTGAGATTGAATATCCTTTCCATGAAAATCAACATGAACAAAGCAACTTTGATCAACAAAGTAGTGATGAGGACTCCATTGAAATTTTGGACAAGTCACGTTCATGCAAGAAGAAAACTAGACCAAAATCACCAATTATGTGTCCTCAACCACATAAGAAATTGAGAAGTGACTCAAGTGAAGGTGTTGGAACAAGCTCGAGATTCCAAAACTTGCCTAAGCATCATGTCCAATCTAGTGAGGATACGGGTGCTAGCGCTGAATTCCGAAAAGTAAAGCACGAGCTAGAACAAGATCAAGACAAAAAGCAATACCAAGAGCAGGAGCAGTTAAATAGAGTTAGAAGCTTCAAATCAAATAATCCTTCTTTCAGGATTACCATGAAGTCTTCACATATTTATAGTCATTCCTTGTATGTCCCATCACAATTTGCTAACAATCATATGAAGAAAGAGCAAAGTGACATTCTTCTTCAACTCTTGGATGGGAGAGTTTGGGATGCTAAATATTTTTCTGGAAGAATTAAAGGTGGATGGAAGAAATTTGCAGTACACAACAAGTTGAAAATTGGAGATGTGTGTATTTTTGAACTAACCAAAAGCCAATACCTTACTTTGAAAGTAATAATATTTAGACTTGAGGAAGATCCACACACCCCTCTACATCAAGAATCAGGCCGCAAACAAATTTTGAGGAATCAAATTGATAAACTGAGTTGTTTTTGTCGCGTTATGACAGGAGAGAAGGCAACCCAAAAAACTTCATTGCGGACAAAGGCTGAATTCTTTACGAATGAAGCTGAGAACCAAGCTGATAAATTCAACTCCAAATATCCATTTTTCAAGGTCAATATTATGCCAAATCAACGAGGGCATTCTAGATTGCATGTACCAAATTCCTTCATTACAAATTACTTGGATAACAAGGAACAGATGGTGATGTTAAAGTTTGGGAAGAAATTGTGGCCTGTAAAGTTGCATTGTTATTCCAACATGAAATCAGGCCAGTTTTGTAGAGGTTGGAAGCTATTTTGGGAAGAAAATAAATTGAAAGGTGGAGATGCATGTGTCTTTGAGCTTATCAAGAGGGAAGATGTTGTGCTTAATGTTCATATTTTCAGAGGCAATTGA
Protein sequence

>MsaT001429.1

MTSNMGTKHTLSASTIRFFRVITTPILQDGKLMIPKGFTKDHMNDMSNPMFLKTPDGKNWEMSATKINGDFWFQKGWKEFATHYSLDHGHMVLFQYEENSHFVVHIFSKSTLEIEYPFHENQHEQSNFDQQSSDEDSIEILDKSRSCKKKTRPKSPIMCPQPHKKLRSDSSEGVGTSSRFQNLPKHHVQSSEDTGASAEFRKVKHELEQDQDKKQYQEQEQLNRVRSFKSNNPSFRITMKSSHIYSHSLYVPSQFANNHMKKEQSDILLQLLDGRVWDAKYFSGRIKGGWKKFAVHNKLKIGDVCIFELTKSQYLTLKVIIFRLEEDPHTPLHQESGRKQILRNQIDKLSCFCRVMTGEKATQKTSLRTKAEFFTNEAENQADKFNSKYPFFKVNIMPNQRGHSRLHVPNSFITNYLDNKEQMVMLKFGKKLWPVKLHCYSNMKSGQFCRGWKLFWEENKLKGGDACVFELIKREDVVLNVHIFRGN*