AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063160

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063160.t1 MTR_3g116720 100.000 81 0 0 1 81 1 81 1.08e-56 169
MS.gene063160.t1 MTR_1g022290 73.134 67 18 0 14 80 5 71 2.43e-34 112
MS.gene063160.t1 MTR_3g111880 73.846 65 17 0 14 78 5 69 8.46e-32 106
MS.gene063160.t1 MTR_7g089210 77.049 61 14 0 19 79 15 75 2.80e-30 102
MS.gene063160.t1 MTR_3g013440 62.963 81 23 2 1 80 1 75 6.35e-29 99.4
MS.gene063160.t1 MTR_8g077360 64.615 65 22 1 16 80 5 68 2.35e-27 94.7
MS.gene063160.t1 MTR_8g077380 64.615 65 22 1 16 80 5 68 2.42e-27 94.7
MS.gene063160.t1 MTR_8g077390 64.615 65 22 1 16 80 5 68 2.42e-27 94.7
MS.gene063160.t1 MTR_5g020170 60.938 64 25 0 16 79 19 82 5.42e-26 92.0
MS.gene063160.t1 MTR_6g004250 60.000 65 26 0 14 78 8 72 1.07e-25 90.9
MS.gene063160.t1 MTR_5g020540 68.852 61 18 1 16 76 4 63 1.56e-25 89.7
MS.gene063160.t1 MTR_8g077420 63.492 63 22 1 14 76 3 64 2.64e-25 89.4
MS.gene063160.t1 MTR_3g111920 53.846 65 30 0 16 80 3 67 7.00e-22 81.3
MS.gene063160.t1 MTR_8g063870 50.725 69 34 0 12 80 4 72 1.27e-20 82.4
MS.gene063160.t1 MTR_3g462790 57.576 66 28 0 16 81 43 108 2.65e-20 82.4
MS.gene063160.t1 MTR_5g069710 53.846 65 30 0 16 80 29 93 9.36e-20 80.9
MS.gene063160.t1 MTR_1g033600 48.529 68 35 0 14 81 10 77 9.90e-20 77.4
MS.gene063160.t1 MTR_8g063600 50.769 65 32 0 16 80 10 74 1.62e-19 79.7
MS.gene063160.t1 MTR_7g067080 51.471 68 33 0 14 81 33 100 2.02e-18 77.0
MS.gene063160.t1 MTR_5g081860 53.968 63 29 0 16 78 27 89 3.71e-18 75.9
MS.gene063160.t1 MTR_1g086180 59.649 57 22 1 16 71 11 67 2.97e-16 67.4
MS.gene063160.t1 MTR_1g111830 47.619 63 33 0 16 78 24 86 6.97e-16 69.7
MS.gene063160.t1 MTR_7g110580 57.627 59 24 1 16 73 8 66 4.36e-15 63.9
MS.gene063160.t1 MTR_4g111975 41.176 68 37 1 14 78 6 73 1.24e-13 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063160.t1 AT1G75250 67.500 80 22 1 1 80 1 76 2.29e-35 116
MS.gene063160.t1 AT1G75250 67.500 80 22 1 1 80 1 76 2.86e-35 115
MS.gene063160.t1 AT4G39250 69.697 66 20 0 16 81 14 79 8.28e-34 112
MS.gene063160.t1 AT2G21650 66.667 66 22 0 16 81 14 79 1.81e-30 103
MS.gene063160.t1 AT1G19510 71.429 63 18 0 19 81 15 77 9.91e-30 101
MS.gene063160.t1 AT2G18328 69.841 63 19 0 19 81 14 76 7.29e-29 98.6
MS.gene063160.t1 AT4G36570 77.273 44 10 0 16 59 12 55 1.87e-21 79.3
MS.gene063160.t1 AT5G05790 52.941 68 32 0 14 81 29 96 2.67e-18 76.6
MS.gene063160.t1 AT5G05790 52.941 68 32 0 14 81 29 96 2.67e-18 76.6
MS.gene063160.t1 AT2G38090 53.846 65 30 0 16 80 29 93 1.40e-17 74.7
MS.gene063160.t1 AT3G11280 50.794 63 31 0 16 78 33 95 7.22e-17 72.4
MS.gene063160.t1 AT3G11280 50.794 63 31 0 16 78 33 95 7.22e-17 72.4
MS.gene063160.t1 AT5G58900 47.059 68 36 0 14 81 32 99 7.94e-17 72.8
MS.gene063160.t1 AT5G08520 49.254 67 34 0 14 80 10 76 3.19e-16 71.2
MS.gene063160.t1 AT5G04760 41.791 67 38 1 12 78 2 67 1.57e-13 62.8
MS.gene063160.t1 AT1G49010 42.647 68 36 1 14 78 6 73 6.13e-13 62.4
MS.gene063160.t1 AT5G01200 43.284 67 37 1 13 78 27 93 1.51e-12 60.8
MS.gene063160.t1 AT5G23650 39.189 74 45 0 5 78 2 75 1.16e-11 58.9

Find 16 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTCACGTGGATTTGTAATT+TGG 0.099924 3.2:+92098449 None:intergenic
ACAAGCCTTGTGATTCAATT+TGG 0.187124 3.2:-92098649 MS.gene063160:CDS
GTGGATTTGTAATTTGGAAT+AGG 0.364725 3.2:+92098455 None:intergenic
AGCACTTGCAAAATTTGATA+AGG 0.422428 3.2:-92098597 MS.gene063160:CDS
CACAAGGCTTGTGTTTGCTA+AGG 0.474591 3.2:+92098660 None:intergenic
GATCTCAAACACATTGAGTC+TGG 0.498892 3.2:-92098485 MS.gene063160:CDS
GAGACACTATGAGCTACTCT+TGG 0.504426 3.2:-92098510 MS.gene063160:CDS
CTAATTTGCTACACTTCACG+TGG 0.522033 3.2:+92098436 None:intergenic
ACAAGGCTTGTGTTTGCTAA+GGG 0.544579 3.2:+92098661 None:intergenic
ACACTATGAGCTACTCTTGG+AGG 0.567606 3.2:-92098507 MS.gene063160:CDS
GTGTTTGCTAAGGGAACTTG+AGG 0.586339 3.2:+92098670 None:intergenic
AATGTAGCAAAAGCAGTTGG+TGG 0.597235 3.2:-92098554 MS.gene063160:CDS
CAAAATGTAGCAAAAGCAGT+TGG 0.599555 3.2:-92098557 MS.gene063160:CDS
GGAGTCCAAATTGAATCACA+AGG 0.603739 3.2:+92098644 None:intergenic
ATAAGGATACCCCTGACCGT+TGG 0.605106 3.2:-92098580 MS.gene063160:CDS
AGTTGGTGGTAAATCAGTTG+AGG 0.635333 3.2:-92098540 MS.gene063160:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCAAACAACTTGTTTTGTTT+TGG + chr3.2:92098505-92098524 None:intergenic 25.0%
AGCACTTGCAAAATTTGATA+AGG - chr3.2:92098528-92098547 MS.gene063160:CDS 30.0%
! GTGGATTTGTAATTTGGAAT+AGG + chr3.2:92098673-92098692 None:intergenic 30.0%
CAAAATGTAGCAAAAGCAGT+TGG - chr3.2:92098568-92098587 MS.gene063160:CDS 35.0%
! ACAAGCCTTGTGATTCAATT+TGG - chr3.2:92098476-92098495 MS.gene063160:CDS 35.0%
! CTTTTGCTACATTTTGCCAA+CGG + chr3.2:92098564-92098583 None:intergenic 35.0%
AATGTAGCAAAAGCAGTTGG+TGG - chr3.2:92098571-92098590 MS.gene063160:CDS 40.0%
GATCTCAAACACATTGAGTC+TGG - chr3.2:92098640-92098659 MS.gene063160:CDS 40.0%
GGAGTCCAAATTGAATCACA+AGG + chr3.2:92098484-92098503 None:intergenic 40.0%
! ACAAGGCTTGTGTTTGCTAA+GGG + chr3.2:92098467-92098486 None:intergenic 40.0%
!! AGTTGGTGGTAAATCAGTTG+AGG - chr3.2:92098585-92098604 MS.gene063160:CDS 40.0%
ACACTATGAGCTACTCTTGG+AGG - chr3.2:92098618-92098637 MS.gene063160:CDS 45.0%
GAGACACTATGAGCTACTCT+TGG - chr3.2:92098615-92098634 MS.gene063160:CDS 45.0%
! CACAAGGCTTGTGTTTGCTA+AGG + chr3.2:92098468-92098487 None:intergenic 45.0%
! CTACATTTTGCCAACGGTCA+GGG + chr3.2:92098558-92098577 None:intergenic 45.0%
! GTGTTTGCTAAGGGAACTTG+AGG + chr3.2:92098458-92098477 None:intergenic 45.0%
! TACATTTTGCCAACGGTCAG+GGG + chr3.2:92098557-92098576 None:intergenic 45.0%
ATAAGGATACCCCTGACCGT+TGG - chr3.2:92098545-92098564 MS.gene063160:CDS 50.0%
! GCTACATTTTGCCAACGGTC+AGG + chr3.2:92098559-92098578 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 92098451 92098696 92098451 ID=MS.gene063160
chr3.2 mRNA 92098451 92098696 92098451 ID=MS.gene063160.t1;Parent=MS.gene063160
chr3.2 exon 92098451 92098696 92098451 ID=MS.gene063160.t1.exon1;Parent=MS.gene063160.t1
chr3.2 CDS 92098451 92098696 92098451 ID=cds.MS.gene063160.t1;Parent=MS.gene063160.t1
Gene Sequence

>MS.gene063160

ATGGCCTCAAGTTCCCTTAGCAAACACAAGCCTTGTGATTCAATTTGGACTCCAAAACAAAACAAGTTGTTTGAAAAAGCACTTGCAAAATTTGATAAGGATACCCCTGACCGTTGGCAAAATGTAGCAAAAGCAGTTGGTGGTAAATCAGTTGAGGAAGTTAAGAGACACTATGAGCTACTCTTGGAGGATCTCAAACACATTGAGTCTGGTCATGTTCCTATTCCAAATTACAAATCCACGTGA
Protein sequence

>MS.gene063160.t1

MASSSLSKHKPCDSIWTPKQNKLFEKALAKFDKDTPDRWQNVAKAVGGKSVEEVKRHYELLLEDLKHIESGHVPIPNYKST