AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG026681

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG026681 MtrunA17_Chr5g0413201 98.734 316 4 0 1 316 1 316 0.0 657
MsaG026681 MtrunA17_Chr1g0151961 55.691 246 104 2 66 308 113 356 6.27e-86 263
MsaG026681 MtrunA17_Chr2g0289201 55.319 235 103 1 72 306 117 349 1.87e-82 254
MsaG026681 MtrunA17_Chr1g0192791 52.549 255 105 3 65 309 12 260 2.29e-81 247
MsaG026681 MtrunA17_Chr5g0439391 54.430 237 93 4 75 306 49 275 1.23e-73 229
MsaG026681 MtrunA17_Chr2g0305101 34.959 246 135 5 73 294 95 339 1.20e-34 129
MsaG026681 MtrunA17_Chr1g0149651 33.198 247 140 5 73 294 174 420 7.57e-34 128
MsaG026681 MtrunA17_Chr5g0398181 33.594 256 131 5 72 294 27 276 1.46e-33 125
MsaG026681 MtrunA17_Chr3g0137241 33.096 281 149 9 50 294 78 355 6.50e-32 122
MsaG026681 MtrunA17_Chr4g0065241 33.065 248 137 6 73 294 71 315 1.04e-30 118
MsaG026681 MtrunA17_Chr4g0008591 54.545 55 25 0 242 296 367 421 6.81e-13 69.3
MsaG026681 MtrunA17_Chr8g0373801 31.818 176 100 7 130 296 473 637 6.93e-13 69.3
MsaG026681 MtrunA17_Chr6g0479181 33.913 115 67 4 71 184 66 172 1.74e-12 65.1
MsaG026681 MtrunA17_Chr8g0387321 38.144 97 58 1 202 296 334 430 2.10e-12 67.8
MsaG026681 MtrunA17_Chr7g0240371 50.909 55 27 0 242 296 312 366 4.12e-12 66.6
MsaG026681 MtrunA17_Chr4g0025521 49.091 55 28 0 242 296 409 463 8.06e-12 65.9
MsaG026681 MtrunA17_Chr3g0141941 37.079 89 50 3 208 296 324 406 2.72e-11 64.3
MsaG026681 MtrunA17_Chr5g0403251 49.091 55 28 0 242 296 531 585 4.24e-11 63.9
MsaG026681 MtrunA17_Chr7g0267481 49.091 55 28 0 242 296 365 419 5.70e-11 63.5
MsaG026681 MtrunA17_Chr1g0177751 34.653 101 66 0 196 296 307 407 6.60e-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
MsaG026681 AT1G23380.1 64.848 330 99 5 1 316 1 327 2.57e-147 417
MsaG026681 AT1G23380.2 64.458 332 99 6 1 316 1 329 2.39e-145 412
MsaG026681 AT1G70510.1 62.187 320 106 5 1 315 1 310 1.54e-135 387
MsaG026681 AT1G70510.2 61.420 324 106 6 1 315 1 314 3.55e-133 381
MsaG026681 AT4G08150.1 55.187 241 104 2 72 308 134 374 5.80e-85 261
MsaG026681 AT1G62360.1 54.852 237 103 2 72 306 121 355 2.24e-78 244
MsaG026681 AT1G62990.1 33.603 247 140 6 72 294 29 275 2.71e-34 127
MsaG026681 AT4G32040.2 32.727 330 168 12 6 294 46 362 4.01e-34 128
MsaG026681 AT4G32040.1 32.827 329 167 12 7 294 47 362 4.67e-34 128
MsaG026681 AT5G25220.2 31.803 305 166 7 32 294 99 403 1.42e-33 128
MsaG026681 AT5G11060.1 34.008 247 135 6 73 294 124 367 1.54e-33 127
MsaG026681 AT5G25220.1 31.803 305 166 7 32 294 99 403 1.55e-33 128
MsaG026681 AT2G23760.2 29.902 204 106 12 100 296 312 485 1.61e-12 68.6
MsaG026681 AT2G23760.1 29.902 204 106 12 100 296 312 485 1.61e-12 68.6
MsaG026681 AT2G23760.3 29.902 204 106 12 100 296 312 485 1.61e-12 68.6
MsaG026681 AT5G41410.1 39.130 92 54 1 207 296 361 452 2.13e-12 68.2
MsaG026681 AT5G02030.1 52.727 55 26 0 242 296 355 409 2.37e-12 67.8
MsaG026681 AT1G19700.1 36.607 112 61 2 185 296 311 412 3.60e-12 67.4
MsaG026681 AT1G19700.3 36.607 112 61 2 185 296 311 412 3.60e-12 67.4
MsaG026681 AT1G19700.5 36.607 112 61 2 185 296 311 412 3.60e-12 67.4
MsaG026681 AT1G19700.4 36.607 112 61 2 185 296 311 412 3.60e-12 67.4
MsaG026681 AT1G19700.2 36.607 112 61 2 185 296 311 412 3.60e-12 67.4
MsaG026681 AT2G27220.1 50.909 55 27 0 242 296 235 289 4.16e-12 67.0
MsaG026681 AT2G27220.3 50.909 55 27 0 242 296 235 289 4.16e-12 67.0
MsaG026681 AT2G27220.2 50.909 55 27 0 242 296 253 307 5.63e-12 66.6
MsaG026681 AT4G36870.2 28.713 202 111 9 100 296 386 559 6.31e-12 66.6
MsaG026681 AT4G36870.1 28.713 202 111 9 100 296 386 559 6.31e-12 66.6
MsaG026681 AT1G75430.1 49.091 55 28 0 242 296 209 263 1.44e-11 64.3
MsaG026681 AT2G35940.3 33.858 127 77 4 171 296 326 446 2.22e-11 65.1
MsaG026681 AT2G35940.1 33.858 127 77 4 171 296 326 446 2.22e-11 65.1
MsaG026681 AT2G35940.2 33.858 127 77 4 171 296 326 446 2.22e-11 65.1
MsaG026681 AT4G34610.2 49.091 55 28 0 242 296 321 375 5.05e-11 63.9
MsaG026681 AT4G34610.4 49.091 55 28 0 242 296 321 375 5.05e-11 63.9
MsaG026681 AT4G34610.3 49.091 55 28 0 242 296 321 375 5.05e-11 63.9
MsaG026681 AT4G34610.1 49.091 55 28 0 242 296 321 375 5.05e-11 63.9
MsaG026681 AT1G75410.1 38.824 85 51 1 212 296 324 407 5.64e-11 63.5
MsaG026681 AT1G75410.2 38.824 85 51 1 212 296 324 407 5.64e-11 63.5
MsaG026681 AT2G16400.1 49.091 55 28 0 242 296 292 346 6.01e-11 63.5
MsaG026681 AT2G27990.1 50.909 55 27 0 242 296 431 485 7.37e-11 63.5

Find 72 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCAATAAACTTGCAATTTC+AGG 0.099347 5:-26719595 None:intergenic
TCCCGAGCTTGATGAATTTA+TGG 0.187854 5:+26719684 MsaT026681.1:CDS
TCCTGAAATTGCAAGTTTAT+TGG 0.199892 5:+26719594 MsaT026681.1:CDS
CGCAAATTTGGAAGTCATAT+TGG 0.217603 5:+26727070 MsaT026681.1:CDS
GCTTCAGTTCCAACTGCTTC+TGG 0.217937 5:+26719925 MsaT026681.1:CDS
TCATATTGGTACTTTGAAAT+TGG 0.238802 5:+26727084 MsaT026681.1:CDS
ACCAATTGTTAATTTGCTTC+TGG 0.259235 5:-26727332 None:intergenic
AATGTTTGTCTTGCTTCTTT+TGG 0.292821 5:-26727139 None:intergenic
TGAAGGAGACGAGGGTAATA+AGG 0.358906 5:-26719433 None:intergenic
TTAATCAAAGAAAACGTCAT+TGG 0.361817 5:+26727358 MsaT026681.1:CDS
ATTGAGTTGGCTAAGTCAAC+AGG 0.362593 5:+26727303 MsaT026681.1:CDS
GACAATCGATATAAGCTTGA+AGG 0.382556 5:-26719450 None:intergenic
GTTGTTGTTTCCACGTGTTT+TGG 0.385565 5:+26719655 MsaT026681.1:CDS
TTAGATTCTCCGGTGTCATC+AGG 0.388564 5:-26719246 None:intergenic
ACCAGAAGCAAATTAACAAT+TGG 0.400017 5:+26727331 MsaT026681.1:CDS
AACGTTGTAGCTTCGTCAAA+AGG 0.422258 5:-26719847 None:intergenic
AGATGATGGTGGTGCATCTT+CGG 0.425255 5:+26726964 MsaT026681.1:intron
ACCGGAGAATCTAATCTTCC+CGG 0.432363 5:+26719255 MsaT026681.1:CDS
TCGCCGTATTCCACTGTTGT+TGG 0.437685 5:-26719217 None:intergenic
CGGTTTCTTTCTGAAGAATG+AGG 0.454540 5:+26727429 MsaT026681.1:CDS
GGTGGAATGTTCACTACAAA+TGG 0.464796 5:+26727170 MsaT026681.1:CDS
CAAGACAAACATTACTTCAA+TGG 0.465456 5:+26727149 MsaT026681.1:CDS
TGAAATTGCAAGTTTATTGG+AGG 0.470197 5:+26719597 MsaT026681.1:CDS
ACCAACCGAATTCCTATGTT+CGG 0.480437 5:+26719316 MsaT026681.1:CDS
GACCATAAATTCATCAAGCT+CGG 0.486176 5:-26719686 None:intergenic
CGGATCCGAACATAGGAATT+CGG 0.490352 5:-26719321 None:intergenic
AAGATCGTGAGCTCAAAGAT+AGG 0.491803 5:+26727041 MsaT026681.1:CDS
AGCTTATATCGATTGTCAAA+AGG 0.494441 5:+26719456 MsaT026681.1:CDS
GAAATATTTACCGTAGGGTA+AGG 0.498999 5:-26727193 None:intergenic
CTCAGTCATCTCTGCACTGG+TGG 0.506127 5:+26719892 MsaT026681.1:CDS
CTTCGTCAAAAGGTCGAGTA+AGG 0.512678 5:-26719837 None:intergenic
TTCTTCAGAAAGAAACCGTC+CGG 0.514035 5:-26727424 None:intergenic
AGGAAACTGTTGTAGTCCGC+CGG 0.522277 5:-26719274 None:intergenic
ACCATAAATTCATCAAGCTC+GGG 0.523273 5:-26719685 None:intergenic
GAAAATTGCATATTCTCAGA+TGG 0.531157 5:-26727384 None:intergenic
GCCGGGAAGATTAGATTCTC+CGG 0.538481 5:-26719256 None:intergenic
ATGTTCAAGATGGACAATCA+AGG 0.539011 5:+26727014 MsaT026681.1:CDS
AAATTCATCAAGCTCGGGAT+CGG 0.546306 5:-26719680 None:intergenic
GTACCAACAACAGTGGAATA+CGG 0.552491 5:+26719214 MsaT026681.1:CDS
ATATCGTCGGATCCGAACAT+AGG 0.553879 5:-26719328 None:intergenic
CTACAAATGGCCTTACCCTA+CGG 0.555178 5:+26727183 MsaT026681.1:CDS
CAACTCAGTCATCTCTGCAC+TGG 0.557500 5:+26719889 MsaT026681.1:CDS
CGGATCCGACGATATCTTCA+CGG 0.574581 5:+26719336 MsaT026681.1:CDS
TGTTCAAGATGGACAATCAA+GGG 0.577717 5:+26727015 MsaT026681.1:CDS
TCCGAACATAGGAATTCGGT+TGG 0.578896 5:-26719317 None:intergenic
TCGGACGAAGATCTTAGTAC+AGG 0.580602 5:+26726983 MsaT026681.1:CDS
GACAAACATTACTTCAATGG+TGG 0.584232 5:+26727152 MsaT026681.1:CDS
GGTTTCTTTCTGAAGAATGA+GGG 0.584785 5:+26727430 MsaT026681.1:CDS
GGAAACTGTTGTAGTCCGCC+GGG 0.588293 5:-26719273 None:intergenic
GGAAGCTGATAAGATTGAGT+TGG 0.588630 5:+26727290 MsaT026681.1:intron
GGAGATGGTGATGTTCAAGA+TGG 0.589542 5:+26727004 MsaT026681.1:CDS
GAAGATCTTAGTACAGGAGA+TGG 0.592331 5:+26726989 MsaT026681.1:CDS
CGCCGCAATTCAAGATGACG+TGG 0.594449 5:+26719375 MsaT026681.1:CDS
AATTCGGTTGGTTGATGAAG+TGG 0.597505 5:-26719305 None:intergenic
TAGATTCTCCGGTGTCATCA+GGG 0.607484 5:-26719245 None:intergenic
CGACAAATCCCTGATGACAC+CGG 0.609163 5:+26719237 MsaT026681.1:CDS
CACGTCATCTTGAATTGCGG+CGG 0.616624 5:-26719374 None:intergenic
AATAAACTTGCAATTTCAGG+AGG 0.620737 5:-26719592 None:intergenic
TCGGTTGGTTGATGAAGTGG+TGG 0.632474 5:-26719302 None:intergenic
TTGATGAAGTGGTGGACATG+AGG 0.640994 5:-26719294 None:intergenic
TGCCACGTCATCTTGAATTG+CGG 0.644950 5:-26719377 None:intergenic
TTTGTTTCGCTAGATGATGG+TGG 0.653500 5:+26726953 MsaT026681.1:intron
TTGAGTTGGCTAAGTCAACA+GGG 0.662111 5:+26727304 MsaT026681.1:CDS
ATATAAGCTTGAAGGAGACG+AGG 0.666970 5:-26719442 None:intergenic
GTTCAAGATGGACAATCAAG+GGG 0.671513 5:+26727016 MsaT026681.1:CDS
AGCCGCCGTGAAGATATCGT+CGG 0.684032 5:-26719341 None:intergenic
ACGTTGATGGAAGAAATGTA+CGG 0.686623 5:+26719190 None:intergenic
TATAAGCTTGAAGGAGACGA+GGG 0.691645 5:-26719441 None:intergenic
GTACGGAGTACCAACAACAG+TGG 0.698660 5:+26719207 MsaT026681.1:CDS
GGGATCGGCTCCAAAACACG+TGG 0.709131 5:-26719665 None:intergenic
GGAGAATCTAATCTTCCCGG+CGG 0.768163 5:+26719258 MsaT026681.1:CDS
ATCCGACGATATCTTCACGG+CGG 0.775616 5:+26719339 MsaT026681.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 26719196 26727449 26719196 ID=MsaG026681
Chr5 mRNA 26719196 26727449 26719196 ID=MsaT026681.1;Parent=MsaG026681
Chr5 exon 26719196 26719477 26719196 ID=MsaT026681.1.exon1;Parent=MsaT026681.1
Chr5 CDS 26719196 26719477 26719196 ID=cds.MsaT026681.1;Parent=MsaT026681.1
Chr5 exon 26719583 26719705 26719583 ID=MsaT026681.1.exon2;Parent=MsaT026681.1
Chr5 CDS 26719583 26719705 26719583 ID=cds.MsaT026681.1;Parent=MsaT026681.1
Chr5 exon 26719799 26719946 26719799 ID=MsaT026681.1.exon3;Parent=MsaT026681.1
Chr5 CDS 26719799 26719946 26719799 ID=cds.MsaT026681.1;Parent=MsaT026681.1
Chr5 exon 26726966 26727204 26726966 ID=MsaT026681.1.exon4;Parent=MsaT026681.1
Chr5 CDS 26726966 26727204 26726966 ID=cds.MsaT026681.1;Parent=MsaT026681.1
Chr5 exon 26727291 26727449 26727291 ID=MsaT026681.1.exon5;Parent=MsaT026681.1
Chr5 CDS 26727291 26727449 26727291 ID=cds.MsaT026681.1;Parent=MsaT026681.1
Gene Sequence

>MsaT026681.1

ATGGAAGAAATGTACGGAGTACCAACAACAGTGGAATACGGCGACAAATCCCTGATGACACCGGAGAATCTAATCTTCCCGGCGGACTACAACAGTTTCCTCATGTCCACCACTTCATCAACCAACCGAATTCCTATGTTCGGATCCGACGATATCTTCACGGCGGCTGAAACTTCTTCCGCCGCAATTCAAGATGACGTGGCATCTAATATCATGAAAGCTAAAATTGCTTCTCATCCTTATTACCCTCGTCTCCTTCAAGCTTATATCGATTGTCAAAAGGTTGGTGCTCCTCCTGAAATTGCAAGTTTATTGGAGGAGATTCGAAGAGAAAACGATATGTGTAAAAGAGACGTTGTTGTTTCCACGTGTTTTGGAGCCGATCCCGAGCTTGATGAATTTATGGAAAGTTATTGTGACATGCTTGTGAAGTATAAATCAGACCTTACTCGACCTTTTGACGAAGCTACAACGTTTCTGAACAAGATCGAAACGCAACTCAGTCATCTCTGCACTGGTGGTGCTGCTGCTGCTTCAGTTCCAACTGCTTCTGATGATGGTGGTGCATCTTCGGACGAAGATCTTAGTACAGGAGATGGTGATGTTCAAGATGGACAATCAAGGGGAGAAGATCGTGAGCTCAAAGATAGGCTTTTACGCAAATTTGGAAGTCATATTGGTACTTTGAAATTGGAGTTTTCAAAGAAGAAAAAGAAGGGTAAGCTTCCAAAAGAAGCAAGACAAACATTACTTCAATGGTGGAATGTTCACTACAAATGGCCTTACCCTACGGAAGCTGATAAGATTGAGTTGGCTAAGTCAACAGGGTTAGACCAGAAGCAAATTAACAATTGGTTTATTAATCAAAGAAAACGTCATTGGAAACCATCTGAGAATATGCAATTTTCTATGATGGAAAATTTTACCGGACGGTTTCTTTCTGAAGAATGA
Protein sequence

>MsaT026681.1

MEEMYGVPTTVEYGDKSLMTPENLIFPADYNSFLMSTTSSTNRIPMFGSDDIFTAAETSSAAIQDDVASNIMKAKIASHPYYPRLLQAYIDCQKVGAPPEIASLLEEIRRENDMCKRDVVVSTCFGADPELDEFMESYCDMLVKYKSDLTRPFDEATTFLNKIETQLSHLCTGGAAAASVPTASDDGGASSDEDLSTGDGDVQDGQSRGEDRELKDRLLRKFGSHIGTLKLEFSKKKKKGKLPKEARQTLLQWWNVHYKWPYPTEADKIELAKSTGLDQKQINNWFINQRKRHWKPSENMQFSMMENFTGRFLSEE*