AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002237


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002237 MtrunA17_Chr1g0164761 88.571 490 37 2 1 490 1 471 0.0 897
MsaG002237 MtrunA17_Chr1g0164731 82.073 463 83 0 2 464 39 501 0.0 782
MsaG002237 MtrunA17_Chr5g0410721 55.388 464 206 1 2 465 83 545 0.0 542
MsaG002237 MtrunA17_Chr3g0116441 38.056 360 187 8 8 346 18 362 1.14e-66 233
MsaG002237 MtrunA17_Chr8g0380981 35.659 387 176 8 4 325 39 417 1.62e-57 206
MsaG002237 MtrunA17_Chr7g0214951 77.500 120 9 2 181 299 99 201 2.95e-56 187
MsaG002237 MtrunA17_Chr1g0189211 30.019 533 288 16 6 463 148 670 9.35e-55 198
MsaG002237 MtrunA17_Chr1g0199511 45.745 188 98 1 152 339 291 474 4.71e-53 193
MsaG002237 MtrunA17_Chr5g0397501 35.864 382 199 12 109 464 323 684 5.08e-52 190
MsaG002237 MtrunA17_Chr2g0303101 32.512 406 201 9 4 344 48 445 3.64e-51 187
MsaG002237 MtrunA17_Chr7g0261401 32.508 323 179 11 156 456 338 643 9.40e-30 123
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002237 AT5G46910.2 54.506 466 211 1 7 472 102 566 0.0 533
MsaG002237 AT5G46910.1 55.338 459 204 1 7 465 102 559 0.0 533
MsaG002237 AT2G34880.1 31.343 536 281 16 7 471 60 579 2.07e-58 207
MsaG002237 AT3G48430.1 34.688 369 199 6 8 339 20 383 1.66e-57 207
MsaG002237 AT1G30810.3 29.870 539 290 13 4 467 55 580 2.04e-57 204
MsaG002237 AT1G30810.2 29.870 539 290 13 4 467 55 580 2.04e-57 204
MsaG002237 AT1G30810.1 29.870 539 290 13 4 467 55 580 2.04e-57 204
MsaG002237 AT1G63490.1 42.642 265 126 6 93 340 52 307 1.89e-56 203
MsaG002237 AT1G63490.2 42.642 265 126 6 93 340 305 560 2.80e-56 203
MsaG002237 AT1G63490.4 42.642 265 126 6 93 340 305 560 2.94e-56 203
MsaG002237 AT4G20400.1 31.235 413 196 9 4 344 52 448 1.71e-54 197
MsaG002237 AT5G04240.1 46.277 188 97 1 152 339 259 442 2.73e-52 191
MsaG002237 AT4G20400.2 31.671 401 186 9 16 344 7 391 1.72e-51 188
MsaG002237 AT1G08620.3 34.006 347 197 9 117 440 327 664 8.88e-45 169
MsaG002237 AT1G08620.2 40.254 236 121 4 117 339 313 541 9.51e-45 169
MsaG002237 AT1G08620.4 40.254 236 121 4 117 339 313 541 9.51e-45 169
MsaG002237 AT1G08620.1 40.254 236 121 4 117 339 313 541 9.51e-45 169
MsaG002237 AT2G38950.1 25.912 521 312 15 2 466 102 604 2.07e-34 137
MsaG002237 AT1G63490.3 52.874 87 41 0 254 340 15 101 3.88e-24 107

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACACAATTGTACAGCCTCTT+AGG 0.195974 1:+34731550 MsaT002237.1:CDS
GATGCATTCATTTATGTTAT+AGG 0.215836 1:-34738709 None:intergenic
TAGGAGAATATATTTGTTAA+AGG 0.243804 1:-34738690 None:intergenic
AATCCAGCATGATATGAATT+TGG 0.254423 1:-34732660 None:intergenic
TTCTTTACCACGCAATCTAT+TGG 0.264442 1:-34731759 None:intergenic
TGTCTTAACGGAAGAGAAAA+AGG 0.267528 1:+34731515 MsaT002237.1:CDS
AGTTCCTCATATGGAATTAT+AGG 0.316333 1:-34738168 None:intergenic
GAGAAAGGAACAGTTGAGTA+TGG 0.324983 1:+34731836 MsaT002237.1:CDS
TTACAAAGAAGTTCCTCATA+TGG 0.344918 1:-34738177 None:intergenic
TTACCATGGAAAAGGCAAAT+TGG 0.359872 1:-34738453 None:intergenic
AGCTCTTCAAATACATCATT+AGG 0.370354 1:+34738357 MsaT002237.1:CDS
TGACATGCAGCCTCTGCAAT+AGG 0.375602 1:+34738385 MsaT002237.1:CDS
AACAAGCAATTTCAATTTGA+AGG 0.380018 1:+34731910 MsaT002237.1:CDS
TAAACTTTGCTATTGGTGAT+TGG 0.380389 1:+34738094 MsaT002237.1:CDS
CTCCATTGCGTTTAGTTGAC+AGG 0.390855 1:+34732117 MsaT002237.1:CDS
GACAAAAGAAGCAGGATTAG+AGG 0.392437 1:-34731496 None:intergenic
CTGATCCTATGCTTTACATT+GGG 0.424948 1:+34732253 MsaT002237.1:CDS
TGCTGCCAAAAGTCTTCAAC+AGG 0.428587 1:+34738644 MsaT002237.1:CDS
CACAATTGTACAGCCTCTTA+GGG 0.435355 1:+34731551 MsaT002237.1:CDS
CTTGTTCCAAGCTTATCATC+AGG 0.440827 1:-34731893 None:intergenic
TAAGACATCGCTATCGCGGT+TGG 0.443672 1:+34738314 MsaT002237.1:CDS
GAAGCTGTAAACTTTGCTAT+TGG 0.453482 1:+34738087 MsaT002237.1:CDS
TTGGTGATTGGTTTCCACTC+GGG 0.456519 1:+34738106 MsaT002237.1:CDS
TTTGATTCGAAAACCCTAAG+AGG 0.457545 1:-34731564 None:intergenic
GCTACCTATAATTCCATATG+AGG 0.458631 1:+34738164 MsaT002237.1:CDS
AAGACATCGCTATCGCGGTT+GGG 0.473169 1:+34738315 MsaT002237.1:CDS
TGCTCAAACTCTTGTTCTGA+TGG 0.476367 1:-34730991 None:intergenic
TACAAGGCGGTGCAAAAGCC+AGG 0.481676 1:+34732618 MsaT002237.1:CDS
TTAAAAGAACATGGAGAGAA+TGG 0.487266 1:+34732522 MsaT002237.1:CDS
ACATAATGTGCCGGTTTACA+AGG 0.487938 1:+34732602 MsaT002237.1:CDS
ATACCAAATTTAGACGCCTC+GGG 0.488483 1:-34731042 None:intergenic
TTGAAGATCACTATTTGTAC+AGG 0.488775 1:+34732304 MsaT002237.1:CDS
ATTTGAAGCTCTTGCAAACA+AGG 0.496352 1:+34731730 MsaT002237.1:CDS
TTTCCAAATTCATATCATGC+TGG 0.496493 1:+34732657 MsaT002237.1:CDS
TGCCACAAAATTGTTTATGC+GGG 0.497644 1:+34738574 MsaT002237.1:CDS
GACATGCAGCCTCTGCAATA+GGG 0.498995 1:+34738386 MsaT002237.1:CDS
ATCATCAGGATCACTTGAAA+AGG 0.501772 1:-34731879 None:intergenic
GGTGCAAATAAAACTTGGTA+TGG 0.503293 1:+34732432 MsaT002237.1:CDS
ATTGGTGATTGGTTTCCACT+CGG 0.503752 1:+34738105 MsaT002237.1:CDS
TACAACTCCTCAAAAGATAG+AGG 0.507371 1:+34738216 MsaT002237.1:CDS
TCATCTTACTTGCAGATGAC+AGG 0.507422 1:+34739195 MsaT002237.1:intron
ACGAGGTCTTACCATGGAAA+AGG 0.511206 1:-34738461 None:intergenic
GAAATAGTACATGGAGAGAA+AGG 0.511259 1:+34731821 MsaT002237.1:CDS
CAAAATCAAACTTGAAGATA+CGG 0.514277 1:+34738242 MsaT002237.1:CDS
ACTGATCCTATGCTTTACAT+TGG 0.515442 1:+34732252 MsaT002237.1:CDS
AGTGATCCTGATGATAAGCT+TGG 0.516084 1:+34731887 MsaT002237.1:CDS
TGCTATTCAGTATGTTTGCA+TGG 0.518171 1:+34732277 MsaT002237.1:CDS
TGGTGATTGGTTTCCACTCG+GGG 0.521993 1:+34738107 MsaT002237.1:CDS
TCCGTTAAGACAAAAGAAGC+AGG 0.523048 1:-34731504 None:intergenic
GAGAACATACTGTATTTAAG+AGG 0.523058 1:+34738598 MsaT002237.1:CDS
AATTGAGAGGATGCAGAACT+AGG 0.531709 1:-34732459 None:intergenic
ACTCAGGTGCAAATAAAACT+TGG 0.537060 1:+34732427 MsaT002237.1:CDS
TTATGTTCTAACAAGACATC+AGG 0.538881 1:-34732585 None:intergenic
CTTGTTAGAACATAATGTGC+CGG 0.547471 1:+34732593 MsaT002237.1:CDS
AATGGAGACTGTGGCAGCCG+CGG 0.554838 1:-34732101 None:intergenic
GCAGGATTAGAGGCAGCGAT+TGG 0.560174 1:-34731486 None:intergenic
TTTATAAGACATCGCTATCG+CGG 0.560344 1:+34738310 MsaT002237.1:CDS
AAGGTGACGACAAACTCTCC+TGG 0.561754 1:-34732636 None:intergenic
CAAGACATCAGGAGAGAACA+TGG 0.563327 1:-34732574 None:intergenic
CATACCAAATTTAGACGCCT+CGG 0.566207 1:-34731043 None:intergenic
TGTTCTGATGGATAATACGT+TGG 0.567602 1:-34730979 None:intergenic
TTCCTGTCAACTAAACGCAA+TGG 0.577093 1:-34732119 None:intergenic
GTGCCACAAAATTGTTTATG+CGG 0.580719 1:+34738573 MsaT002237.1:CDS
TTGCTAGCTGCGGCCCCGAG+TGG 0.581206 1:-34738120 None:intergenic
ATTTAAGAGGAATGACATGT+TGG 0.584034 1:+34738611 MsaT002237.1:CDS
TTCTGGCACGAAATAGTACA+TGG 0.584729 1:+34731812 MsaT002237.1:CDS
TATCATGCTGGATTTAGTCA+TGG 0.587724 1:+34732669 MsaT002237.1:CDS
GAAAGGCAATGTTCAGATTG+TGG 0.589806 1:+34739217 MsaT002237.1:CDS
ATTTGTTAAAGGTAACGCGT+TGG 0.609530 1:-34738679 None:intergenic
AGCATCCCAATGTAAAGCAT+AGG 0.618659 1:-34732258 None:intergenic
TGAATAACGTTTGCTAGCTG+CGG 0.626370 1:-34738130 None:intergenic
AGCATAAATTACCATCACTC+AGG 0.628951 1:+34732411 MsaT002237.1:intron
TACCAAATTTAGACGCCTCG+GGG 0.634434 1:-34731041 None:intergenic
AGCATGATATGAATTTGGAA+AGG 0.636839 1:-34732655 None:intergenic
AACAAAGTCTTAAAAGAACA+TGG 0.646276 1:+34732513 MsaT002237.1:CDS
CATAACAATCCCTATTGCAG+AGG 0.648673 1:-34738395 None:intergenic
TTACTTGCAGATGACAGGAA+AGG 0.651112 1:+34739200 MsaT002237.1:intron
TGAATGCATCAAAGAACACA+AGG 0.658928 1:+34738722 MsaT002237.1:CDS
ACCAAATTTAGACGCCTCGG+GGG 0.671194 1:-34731040 None:intergenic
ACTAAACGCAATGGAGACTG+TGG 0.698121 1:-34732110 None:intergenic
TAATGTGCCGGTTTACAAGG+CGG 0.701604 1:+34732605 MsaT002237.1:CDS
TGAGTATGGAGTCAATGTTG+AGG 0.703101 1:+34731850 MsaT002237.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 34730955 34739242 34730955 ID=MsaG002237
Chr1 mRNA 34730955 34739242 34730955 ID=MsaT002237.1;Parent=MsaG002237
Chr1 exon 34730955 34731060 34730955 ID=MsaT002237.1.exon1;Parent=MsaT002237.1
Chr1 CDS 34730955 34731060 34730955 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34731466 34731622 34731466 ID=MsaT002237.1.exon2;Parent=MsaT002237.1
Chr1 CDS 34731466 34731622 34731466 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34731712 34731931 34731712 ID=MsaT002237.1.exon3;Parent=MsaT002237.1
Chr1 CDS 34731712 34731931 34731712 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34732095 34732148 34732095 ID=MsaT002237.1.exon4;Parent=MsaT002237.1
Chr1 CDS 34732095 34732148 34732095 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34732246 34732325 34732246 ID=MsaT002237.1.exon5;Parent=MsaT002237.1
Chr1 CDS 34732246 34732325 34732246 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34732413 34732690 34732413 ID=MsaT002237.1.exon6;Parent=MsaT002237.1
Chr1 CDS 34732413 34732690 34732413 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34738073 34738471 34738073 ID=MsaT002237.1.exon7;Parent=MsaT002237.1
Chr1 CDS 34738073 34738471 34738073 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34738568 34738743 34738568 ID=MsaT002237.1.exon8;Parent=MsaT002237.1
Chr1 CDS 34738568 34738743 34738568 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Chr1 exon 34739210 34739242 34739210 ID=MsaT002237.1.exon9;Parent=MsaT002237.1
Chr1 CDS 34739210 34739242 34739210 ID=cds.MsaT002237.1;Parent=MsaT002237.1
Gene Sequence

>MsaT002237.1

ATGACGAACATTACTCAAGAATGTCCAACGTATTATCCATCAGAACAAGAGTTTGAGCATCCTTTAGTTTATCTGCAGAAAATTGCCCCCGAGGCGTCTAAATTTGGTATATGCAAAATTGTTTCACCAATCGCTGCCTCTAATCCTGCTTCTTTTGTCTTAACGGAAGAGAAAAAGGATTTTAAGTTTAACACAATTGTACAGCCTCTTAGGGTTTTCGAATCAAATGAGATGGATAAAATAACTTTTTCTAAGAGAAAAAGAAAATATACATATCATGAATTTGAAGCTCTTGCAAACAAGGCGTTTTCCAATAGATTGCGTGGTAAAGAAGATCTCTCTTGTTCAGATATCGAAAAAGCGTTCTGGCACGAAATAGTACATGGAGAGAAAGGAACAGTTGAGTATGGAGTCAATGTTGAGGAAAGCGCCTTTTCAAGTGATCCTGATGATAAGCTTGGAACAAGCAATTTCAATTTGAAGAATTTGCCGCGGCTGCCACAGTCTCCATTGCGTTTAGTTGACAGGAAAATTCCAGGATTAACTGATCCTATGCTTTACATTGGGATGCTATTCAGTATGTTTGCATGGCATGTTGAAGATCACTATTTGTACAGCATAAATTACCATCACTCAGGTGCAAATAAAACTTGGTATGGTGTGCCTAGTTCTGCATCCTCTCAATTTGAAAAGACTGTCTTGAATCATGTGTATTGCAACAAAGTCTTAAAAGAACATGGAGAGAATGGTGCATTCCAATTTCTTGCACAAAAAACAACCATGTTCTCTCCTGATGTCTTGTTAGAACATAATGTGCCGGTTTACAAGGCGGTGCAAAAGCCAGGAGAGTTTGTCGTCACCTTTCCAAATTCATATCATGCTGGATTTAGTCATGGTTTTAACTGTGGAGAAGCTGTAAACTTTGCTATTGGTGATTGGTTTCCACTCGGGGCCGCAGCTAGCAAACGTTATTCACATCTCAAAATGCTACCTATAATTCCATATGAGGAACTTCTTTGTAAAGAAGCATTGCTTATCTACAACTCCTCAAAAGATAGAGGTGACAAAATCAAACTTGAAGATACGGCAACTTATCGAGCTATTGCACTATCTTTCTTGCATCTTATTCAATTTTATAAGACATCGCTATCGCGGTTGGGCAGTTCGAGAAAGTTGTCAAGCTCTTCAAATACATCATTAGGTTCTGTGACATGCAGCCTCTGCAATAGGGATTGTTATGTAGCTTTCTTCTTGTGCAAGAAATGCTATTCAGATCCAATTTGCCTTTTCCATGACAATGTGCCACAAAATTGTTTATGCGGGAGAGAACATACTGTATTTAAGAGGAATGACATGTTGGAACTCGAAGATGCTGCCAAAAGTCTTCAACAGGAAAAAGAATACACCAACGCGTTACCTTTAACAAATATATTCTCCTATAACATAAATGAATGCATCAAAGAACACAAGATGACAGGAAAGGCAATGTTCAGATTGTGGTAG

Protein sequence

>MsaT002237.1

MTNITQECPTYYPSEQEFEHPLVYLQKIAPEASKFGICKIVSPIAASNPASFVLTEEKKDFKFNTIVQPLRVFESNEMDKITFSKRKRKYTYHEFEALANKAFSNRLRGKEDLSCSDIEKAFWHEIVHGEKGTVEYGVNVEESAFSSDPDDKLGTSNFNLKNLPRLPQSPLRLVDRKIPGLTDPMLYIGMLFSMFAWHVEDHYLYSINYHHSGANKTWYGVPSSASSQFEKTVLNHVYCNKVLKEHGENGAFQFLAQKTTMFSPDVLLEHNVPVYKAVQKPGEFVVTFPNSYHAGFSHGFNCGEAVNFAIGDWFPLGAAASKRYSHLKMLPIIPYEELLCKEALLIYNSSKDRGDKIKLEDTATYRAIALSFLHLIQFYKTSLSRLGSSRKLSSSSNTSLGSVTCSLCNRDCYVAFFLCKKCYSDPICLFHDNVPQNCLCGREHTVFKRNDMLELEDAAKSLQQEKEYTNALPLTNIFSYNINECIKEHKMTGKAMFRLW*