AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG012058


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012058 MtrunA17_Chr3g0081631 98.901 91 1 0 1 91 1 91 1.80e-64 189
MsaG012058 MtrunA17_Chr7g0255841 70.000 80 23 1 12 91 14 92 2.71e-36 118
MsaG012058 MtrunA17_Chr3g0141601 58.242 91 33 2 4 90 1 90 6.43e-32 107
MsaG012058 MtrunA17_Chr1g0155181 58.621 87 29 3 4 84 1 86 1.16e-30 103
MsaG012058 MtrunA17_Chr6g0449111 62.667 75 27 1 1 75 1 74 1.37e-30 103
MsaG012058 MtrunA17_Chr3g0144631 64.198 81 22 2 1 75 1 80 5.22e-30 102
MsaG012058 MtrunA17_Chr8g0373111 56.522 69 28 1 7 75 2 68 1.07e-23 85.5
MsaG012058 MtrunA17_Chr8g0373121 56.522 69 28 1 7 75 2 68 1.07e-23 85.5
MsaG012058 MtrunA17_Chr8g0373131 57.353 68 27 1 7 74 2 67 1.16e-23 85.5
MsaG012058 MtrunA17_Chr5g0404301 59.375 64 24 1 8 71 2 63 3.86e-23 84.0
MsaG012058 MtrunA17_Chr8g0373101 59.375 64 24 1 8 71 3 64 5.18e-23 84.0
MsaG012058 MtrunA17_Chr5g0404101 48.649 74 37 1 1 74 10 82 1.58e-21 80.9
MsaG012058 MtrunA17_Chr5g0436501 49.315 73 36 1 1 73 18 89 1.72e-17 74.3
MsaG012058 MtrunA17_Chr3g0141641 38.462 91 46 2 9 90 2 91 1.89e-16 67.8
MsaG012058 MtrunA17_Chr8g0364741 44.737 76 41 1 1 76 1 75 3.68e-16 68.2
MsaG012058 MtrunA17_Chr5g0429521 46.429 84 33 2 9 81 28 110 6.62e-16 70.5
MsaG012058 MtrunA17_Chr7g0241761 44.706 85 37 2 10 85 35 118 1.63e-15 69.3
MsaG012058 MtrunA17_Chr3g0104071 50.704 71 34 1 3 73 36 105 3.28e-15 68.6
MsaG012058 MtrunA17_Chr1g0194071 52.632 57 27 0 10 66 11 67 5.68e-15 63.9
MsaG012058 MtrunA17_Chr7g0270711 54.237 59 27 0 10 68 11 69 6.85e-15 63.9
MsaG012058 MtrunA17_Chr8g0365011 48.529 68 34 1 6 73 4 70 1.63e-14 66.6
MsaG012058 MtrunA17_Chr1g0162081 42.667 75 42 1 1 75 3 76 1.48e-13 63.9
MsaG012058 MtrunA17_Chr4g0062741 44.737 76 37 3 4 75 1 75 8.10e-13 62.0
MsaG012058 MtrunA17_Chr1g0210471 40.909 66 38 1 10 75 24 88 3.05e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG012058 AT4G39250.1 60.227 88 28 2 10 91 14 100 2.09e-34 114
MsaG012058 AT2G21650.1 61.798 89 26 2 10 91 14 101 2.43e-34 114
MsaG012058 AT1G75250.2 53.684 95 35 3 3 90 5 97 1.14e-27 96.7
MsaG012058 AT1G75250.1 60.811 74 28 1 3 76 5 77 2.32e-26 94.4
MsaG012058 AT1G19510.1 51.724 87 33 3 13 91 15 100 2.41e-22 83.6
MsaG012058 AT2G18328.1 63.492 63 22 1 13 75 14 75 4.87e-22 82.0
MsaG012058 AT4G36570.1 68.889 45 13 1 10 54 12 55 8.54e-17 68.2
MsaG012058 AT5G58900.1 52.000 75 32 2 2 73 23 96 1.28e-16 72.8
MsaG012058 AT5G05790.2 49.351 77 36 2 7 81 28 103 1.30e-16 72.4
MsaG012058 AT5G05790.1 49.351 77 36 2 7 81 28 103 1.30e-16 72.4
MsaG012058 AT2G38090.1 50.649 77 31 2 10 80 29 104 1.79e-16 72.4
MsaG012058 AT3G11280.2 48.438 64 32 1 10 73 33 95 8.48e-14 64.7
MsaG012058 AT3G11280.1 48.438 64 32 1 10 73 33 95 8.48e-14 64.7
MsaG012058 AT5G23650.1 47.222 72 37 1 4 75 7 77 1.56e-12 61.6
MsaG012058 AT5G08520.1 48.438 64 32 1 10 73 12 74 1.02e-11 59.3
MsaG012058 AT5G04760.1 39.706 68 39 1 6 73 2 67 2.71e-11 57.4

Find 25 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTCCAATGTTCTTGTAATT+TGG 0.053146 3:+18249378 None:intergenic
CTCCAATGTTCTTGTAATTT+GGG 0.244052 3:+18249379 None:intergenic
GACACTATGAACACCTTCTA+AGG 0.262540 3:-18249437 MsaT012058.1:CDS
CATTTGGTTACTGGAGCTTC+AGG 0.328788 3:+18248610 None:intergenic
TATGCCTAACATCCCTTAGA+AGG 0.404703 3:+18249424 None:intergenic
CAATGTCAGCATCTGGTTCA+TGG 0.413232 3:-18249581 MsaT012058.1:CDS
GATGTTAGGCATATTGAATC+AGG 0.424945 3:-18249414 MsaT012058.1:CDS
AACACCTTCTAAGGGATGTT+AGG 0.467379 3:-18249428 MsaT012058.1:CDS
TAGTGTCTCTTAACATCCTC+AGG 0.475467 3:+18249453 None:intergenic
CCAAATTACAAGAACATTGG+AGG 0.482774 3:-18249378 MsaT012058.1:CDS
ATGGCATCAATGTCAGCATC+TGG 0.486683 3:-18249588 MsaT012058.1:CDS
ACCAACAGCTTGAGCAACAT+TGG 0.499603 3:+18249488 None:intergenic
TTCCCAAATTACAAGAACAT+TGG 0.502964 3:-18249381 MsaT012058.1:CDS
AGGACAATAAAGCATTTGAA+AGG 0.506069 3:-18249551 MsaT012058.1:CDS
TCCAATGTTGCTCAAGCTGT+TGG 0.520440 3:-18249489 MsaT012058.1:CDS
GGACAATAAAGCATTTGAAA+GGG 0.535274 3:-18249550 MsaT012058.1:CDS
GCAACATTGGACCAACGGTC+AGG 0.535547 3:+18249501 None:intergenic
AATGTTGCTCAAGCTGTTGG+TGG 0.546053 3:-18249486 MsaT012058.1:CDS
GTTGCTCAAGCTGTTGGTGG+TGG 0.554528 3:-18249483 MsaT012058.1:CDS
ATCTGGTTCATGGAGTGCTA+AGG 0.583163 3:-18249571 MsaT012058.1:CDS
ATAAAGACACACCTGACCGT+TGG 0.596639 3:-18249512 MsaT012058.1:CDS
ACACTATGAACACCTTCTAA+GGG 0.610400 3:-18249436 MsaT012058.1:CDS
CTTGAGCAACATTGGACCAA+CGG 0.640722 3:+18249496 None:intergenic
GAACATTGGAGGCTATGATG+AGG 0.660409 3:-18249367 MsaT012058.1:CDS
TGGTGGTGGAAAGACTCCTG+AGG 0.678384 3:-18249469 MsaT012058.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 18248617 18249610 18248617 ID=MsaG012058
Chr3 mRNA 18248617 18249610 18248617 ID=MsaT012058.1;Parent=MsaG012058
Chr3 exon 18248617 18248641 18248617 ID=MsaT012058.1.exon2;Parent=MsaT012058.1
Chr3 CDS 18248617 18248641 18248617 ID=cds.MsaT012058.1;Parent=MsaT012058.1
Chr3 exon 18249360 18249610 18249360 ID=MsaT012058.1.exon1;Parent=MsaT012058.1
Chr3 CDS 18249360 18249610 18249360 ID=cds.MsaT012058.1;Parent=MsaT012058.1
Gene Sequence

>MsaT012058.1

ATGGCATCAATGTCAGCATCTGGTTCATGGAGTGCTAAGGACAATAAAGCATTTGAAAGGGCACTAGCTGTTTTTGATAAAGACACACCTGACCGTTGGTCCAATGTTGCTCAAGCTGTTGGTGGTGGAAAGACTCCTGAGGATGTTAAGAGACACTATGAACACCTTCTAAGGGATGTTAGGCATATTGAATCAGGTCATGTTGCATTCCCAAATTACAAGAACATTGGAGGCTATGATGAGGAAAAAAGGTTGAGAAACCTGAAGCTCCAGTAA

Protein sequence

>MsaT012058.1

MASMSASGSWSAKDNKAFERALAVFDKDTPDRWSNVAQAVGGGKTPEDVKRHYEHLLRDVRHIESGHVAFPNYKNIGGYDEEKRLRNLKLQ*