AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040416

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040416 MtrunA17_Chr7g0270031 82.126 207 26 4 1 202 1 201 2.63e-109 329
MsaG040416 MtrunA17_Chr7g0270031 79.874 159 23 2 192 341 398 556 3.48e-85 267
MsaG040416 MtrunA17_Chr1g0194621 73.387 124 33 0 218 341 397 520 7.30e-62 206
MsaG040416 MtrunA17_Chr1g0194621 45.614 114 47 6 89 196 49 153 1.51e-14 74.3
MsaG040416 MtrunA17_Chr2g0294461 59.055 127 51 1 216 341 461 587 9.62e-45 161
MsaG040416 MtrunA17_Chr2g0294471 57.480 127 52 2 216 341 453 578 1.93e-42 155
MsaG040416 MtrunA17_Chr8g0357601 38.095 126 68 5 218 339 433 552 4.60e-16 79.3
MsaG040416 MtrunA17_Chr8g0376381 33.065 124 82 1 217 340 401 523 2.36e-15 77.0
MsaG040416 MtrunA17_Chr7g0224271 34.146 123 79 2 218 339 552 673 3.04e-14 73.9
MsaG040416 MtrunA17_Chr7g0245601 35.172 145 87 4 200 339 650 792 7.71e-14 72.8
MsaG040416 MtrunA17_Chr4g0057891 34.646 127 72 4 218 339 400 520 1.42e-13 71.6
MsaG040416 MtrunA17_Chr7g0238891 34.146 123 79 2 218 339 619 740 6.44e-13 69.7
MsaG040416 MtrunA17_Chr1g0183641 33.333 129 83 3 212 338 349 476 9.51e-13 68.9
MsaG040416 MtrunA17_Chr4g0038761 38.095 126 71 5 217 339 321 442 1.69e-12 68.2
MsaG040416 MtrunA17_Chr4g0031741 35.484 124 75 4 218 338 528 649 5.66e-12 66.6
MsaG040416 MtrunA17_Chr2g0328391 37.097 124 72 4 218 338 548 668 2.82e-11 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040416 AT1G14920.1 31.707 123 82 1 218 340 410 530 3.57e-15 76.6
MsaG040416 AT2G01570.1 30.894 123 83 1 218 340 462 582 3.89e-15 76.6
MsaG040416 AT1G66350.1 32.520 123 80 1 218 340 388 507 1.01e-14 75.5
MsaG040416 AT3G03450.1 31.707 123 84 0 218 340 424 546 2.05e-14 74.7
MsaG040416 AT1G07530.1 38.710 124 70 3 218 338 644 764 1.42e-13 72.4
MsaG040416 AT3G46600.3 32.520 123 81 2 218 339 426 547 1.44e-13 72.0
MsaG040416 AT3G46600.1 32.520 123 81 2 218 339 458 579 1.54e-13 72.0
MsaG040416 AT3G46600.2 32.520 123 81 2 218 339 250 371 2.41e-13 70.9
MsaG040416 AT3G54220.1 34.722 144 87 4 200 338 508 649 2.65e-13 71.2
MsaG040416 AT5G17490.1 30.894 123 85 0 218 340 395 517 1.15e-12 69.3
MsaG040416 AT2G37650.1 33.333 123 80 2 218 339 592 713 2.74e-12 68.2
MsaG040416 AT2G37650.2 33.333 123 80 2 218 339 580 701 2.74e-12 68.2
MsaG040416 AT2G29060.1 33.607 122 80 1 218 338 570 691 2.86e-11 65.1
MsaG040416 AT2G29060.2 33.607 122 80 1 218 338 533 654 2.87e-11 65.1

Find 52 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TACTAAAGCTTCTTCAAATT+TGG 0.128771 7:-99995782 MsaT040416.1:CDS
CCTTATAGATTTGACCTTAA+TGG 0.142996 7:-99995652 MsaT040416.1:CDS
GAATGGGAAGTGTTTGATAT+TGG 0.247092 7:-99994555 MsaT040416.1:CDS
CTCAATATTCTTCTTCTCAT+TGG 0.265071 7:-99995702 MsaT040416.1:CDS
CAGCTTGGAGGTTTCTTTGA+TGG 0.281090 7:-99994502 None:intergenic
GTTGTTGTTGATCATGATTT+TGG 0.285842 7:+99996001 None:intergenic
CCATTAAGGTCAAATCTATA+AGG 0.308445 7:+99995652 None:intergenic
CTTCCTCAGATAAACCATTA+AGG 0.338720 7:+99995638 None:intergenic
ATGATTTCTCAGAATCTCTA+AGG 0.348847 7:+99995837 None:intergenic
GGTAGTTGTTCATTCTCATT+TGG 0.361963 7:+99996039 None:intergenic
CAAATCTATAAGGGTGTGTT+TGG 0.366485 7:+99995662 None:intergenic
GAAATGTGAAAATTGATGTT+TGG 0.381287 7:-99994694 MsaT040416.1:CDS
AATGGGAAGTGTTTGATATT+GGG 0.407459 7:-99994554 MsaT040416.1:CDS
GAAGGAATAATAAGAGTAGC+TGG 0.427571 7:-99995736 MsaT040416.1:CDS
TTTGCGATGTGGAAAAGAAT+GGG 0.457035 7:-99994571 MsaT040416.1:CDS
GCAAGCACTTGCTGAGAGAC+AGG 0.457628 7:-99995212 MsaT040416.1:CDS
TTAGAGATTCTGAGAAATCA+TGG 0.458237 7:-99995835 MsaT040416.1:CDS
GTGTCTAAAGAGTTTGATCA+TGG 0.459768 7:-99994599 MsaT040416.1:CDS
CATTAAGGTCAAATCTATAA+GGG 0.469089 7:+99995653 None:intergenic
GGTATAGAATGGTGGAAACT+AGG 0.481546 7:-99994655 MsaT040416.1:CDS
ATTCTTTGCAAGGTATAGAA+TGG 0.481831 7:-99994666 MsaT040416.1:CDS
ATGTGTTTACCAAGCTGAAT+TGG 0.482893 7:-99994621 MsaT040416.1:CDS
TGAAGCGTTGTTCTTCTACT+CGG 0.492367 7:-99994840 MsaT040416.1:CDS
ACAGAAGGAATATTATCTGC+AGG 0.492833 7:-99994761 MsaT040416.1:CDS
TGTATTCAATCTCAGCTTGG+AGG 0.499895 7:-99994514 MsaT040416.1:CDS
CAACAACAAGAATTCGAAGT+TGG 0.519349 7:-99995985 MsaT040416.1:CDS
TGTTCATTCTCATTTGGAAG+AGG 0.520704 7:+99996045 None:intergenic
CTTTAGACACCAATTCAGCT+TGG 0.526186 7:+99994612 None:intergenic
GTGTTTGATATTGGGATGGA+AGG 0.529103 7:-99994546 MsaT040416.1:CDS
TGTTTGATATTGGGATGGAA+GGG 0.535874 7:-99994545 MsaT040416.1:CDS
AGAACAACGCTTCAACGAAT+CGG 0.538399 7:+99994849 None:intergenic
TTTGGAGAAGATTCTTTGCA+AGG 0.540946 7:-99994676 MsaT040416.1:CDS
AGAAATATTGTCGCATCAGA+AGG 0.541164 7:-99994734 MsaT040416.1:CDS
TCTAAGGATGATAAATATTG+TGG 0.555614 7:+99995853 None:intergenic
GTTTGATATTGGGATGGAAG+GGG 0.560675 7:-99994544 MsaT040416.1:CDS
CAATGTATTCAATCTCAGCT+TGG 0.567255 7:-99994517 MsaT040416.1:CDS
CAAGCTGAGATTGAATACAT+TGG 0.568796 7:+99994518 None:intergenic
GGAAGTGTTTGATATTGGGA+TGG 0.581535 7:-99994550 MsaT040416.1:CDS
TTCTTCTACGAAGTCATGAG+TGG 0.585867 7:+99996131 None:intergenic
TCGCATCAGAAGGTAGAGAA+AGG 0.588622 7:-99994724 MsaT040416.1:CDS
CATCAAAAGATGTCAACAGA+AGG 0.596462 7:-99995754 MsaT040416.1:CDS
CAGAAGGAATATTATCTGCA+GGG 0.601009 7:-99994760 MsaT040416.1:CDS
TGCTGAGAGACAGGATTGCA+TGG 0.602620 7:-99995203 MsaT040416.1:CDS
CTTTGCAAGGTATAGAATGG+TGG 0.606333 7:-99994663 MsaT040416.1:CDS
TGACCTTAATGGTTTATCTG+AGG 0.606438 7:-99995641 MsaT040416.1:CDS
GAGTGTAGGATGATAACAGA+AGG 0.608979 7:-99994776 MsaT040416.1:CDS
TAATAAGAGTAGCTGGAGCA+AGG 0.609556 7:-99995729 MsaT040416.1:CDS
TGAGCGAGGAGGATGAGTGT+AGG 0.628200 7:-99994790 MsaT040416.1:CDS
TGTCTAAAGAGTTTGATCAT+GGG 0.633104 7:-99994598 MsaT040416.1:CDS
GGCTGAAACATGTATGAGCG+AGG 0.648686 7:-99994804 MsaT040416.1:CDS
GGTGGAAACTAGGTTTAGTG+AGG 0.671023 7:-99994645 MsaT040416.1:CDS
TGAAACATGTATGAGCGAGG+AGG 0.773647 7:-99994801 MsaT040416.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 99994505 99996175 99994505 ID=MsaG040416
Chr7 mRNA 99994505 99996175 99994505 ID=MsaT040416.1;Parent=MsaG040416
Chr7 exon 99994505 99994882 99994505 ID=MsaT040416.1.exon3;Parent=MsaT040416.1
Chr7 CDS 99994505 99994882 99994505 ID=cds.MsaT040416.1;Parent=MsaT040416.1
Chr7 exon 99995189 99995248 99995189 ID=MsaT040416.1.exon2;Parent=MsaT040416.1
Chr7 CDS 99995189 99995248 99995189 ID=cds.MsaT040416.1;Parent=MsaT040416.1
Chr7 exon 99995588 99996175 99995588 ID=MsaT040416.1.exon1;Parent=MsaT040416.1
Chr7 CDS 99995588 99996175 99995588 ID=cds.MsaT040416.1;Parent=MsaT040416.1
Gene Sequence

>MsaT040416.1

ATGGAAATTGACCATTTTTCTTCCACTCATGACTTCGTAGAAGAAATTGTGTTCCAAGATAAACAACATAGTTTTTCTGGAATACAATTGTTGGAAGAAATTAACAATCCTCTTCCAAATGAGAATGAACAACTACCCAACATGTTCAACAACCAAAATCATGATCAACAACAACAAGAATTCGAAGTTGGTAATTTCTTGTCATTAGTAGAAGATATCAACCTAGAAACTAATCAACAAAATAATCATCACCACAAAGTTCCAATTCCAAAACCTTTAGAAAACAATATTCAGAAGATGCCACAATATTTATCATCCTTAGAGATTCTGAGAAATCATGGAAGCAGATTCAACAAGAAAAACACAATCAGTACTAAAGCTTCTTCAAATTTGGAACAGCATCAAAAGATGTCAACAGAAGGAATAATAAGAGTAGCTGGAGCAAGGTATACTCAATATTCTTCTTCTCATTGGAGTGAAATTTTTTGCATCCAAACACACCCTTATAGATTTGACCTTAATGGTTTATCTGAGGAAGAAAATAGAGACATTGAACTTGCACAGTTTCTCTATGTAGCAGCTGAAAGATGCATAGCTTTGATGCAAGCACTTGCTGAGAGACAGGATTGCATGGTTGAAATTTTTAAGTCTTTTGTGAACCGATTCGTTGAAGCGTTGTTCTTCTACTCGGCTTTTTTCGATATGGCTGAAACATGTATGAGCGAGGAGGATGAGTGTAGGATGATAACAGAAGGAATATTATCTGCAGGGATAAGAAATATTGTCGCATCAGAAGGTAGAGAAAGGACTGTTAGAAATGTGAAAATTGATGTTTGGAGAAGATTCTTTGCAAGGTATAGAATGGTGGAAACTAGGTTTAGTGAGGCATGTGTTTACCAAGCTGAATTGGTGTCTAAAGAGTTTGATCATGGGAAATTTTGCGATGTGGAAAAGAATGGGAAGTGTTTGATATTGGGATGGAAGGGGACTCCAATGTATTCAATCTCAGCTTGGAGGTTTCTTTGA
Protein sequence

>MsaT040416.1

MEIDHFSSTHDFVEEIVFQDKQHSFSGIQLLEEINNPLPNENEQLPNMFNNQNHDQQQQEFEVGNFLSLVEDINLETNQQNNHHHKVPIPKPLENNIQKMPQYLSSLEILRNHGSRFNKKNTISTKASSNLEQHQKMSTEGIIRVAGARYTQYSSSHWSEIFCIQTHPYRFDLNGLSEEENRDIELAQFLYVAAERCIALMQALAERQDCMVEIFKSFVNRFVEALFFYSAFFDMAETCMSEEDECRMITEGILSAGIRNIVASEGRERTVRNVKIDVWRRFFARYRMVETRFSEACVYQAELVSKEFDHGKFCDVEKNGKCLILGWKGTPMYSISAWRFL*