AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene23008

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23008.t1 MTR_7g108220 97.087 103 3 0 1 103 1 103 4.05e-72 209
MS.gene23008.t1 MTR_7g108210 96.117 103 4 0 1 103 1 103 1.35e-71 208
MS.gene23008.t1 MTR_1g088910 89.320 103 10 1 1 103 1 102 7.34e-64 188
MS.gene23008.t1 MTR_2g019950 66.019 103 34 1 1 103 1 102 5.13e-48 148
MS.gene23008.t1 MTR_2g019900 57.843 102 42 1 1 102 1 101 4.83e-38 123
MS.gene23008.t1 MTR_4g119050 52.427 103 49 0 1 103 1 103 3.97e-35 116
MS.gene23008.t1 MTR_4g119030 52.427 103 49 0 1 103 1 103 3.97e-35 116
MS.gene23008.t1 MTR_4g119040 52.427 103 49 0 1 103 1 103 3.97e-35 116
MS.gene23008.t1 MTR_7g108200 54.737 95 42 1 1 95 1 94 7.58e-34 112
MS.gene23008.t1 MTR_1g088920 53.684 95 43 1 1 95 1 94 4.23e-33 110
MS.gene23008.t1 MTR_1g088925 51.579 95 45 1 1 95 1 94 9.72e-33 110
MS.gene23008.t1 MTR_7g026770 48.544 103 53 0 1 103 22 124 1.35e-30 110
MS.gene23008.t1 MTR_7g108250 49.515 103 51 1 1 103 1 102 4.45e-30 103
MS.gene23008.t1 MTR_7g022690 45.631 103 56 0 1 103 30 132 2.78e-29 102
MS.gene23008.t1 MTR_7g022550 45.631 103 56 0 1 103 30 132 3.01e-29 102
MS.gene23008.t1 MTR_1g088905 47.573 103 53 1 1 103 1 102 4.83e-29 100
MS.gene23008.t1 MTR_7g022710 45.631 103 56 0 1 103 30 132 8.56e-29 101
MS.gene23008.t1 MTR_7g108260 42.718 103 58 1 1 103 1 102 4.97e-26 93.2
MS.gene23008.t1 MTR_1g088895 47.000 100 52 1 4 103 4 102 6.04e-24 88.2
MS.gene23008.t1 MTR_2g048970 40.000 105 60 1 2 103 29 133 1.39e-19 77.8
MS.gene23008.t1 MTR_2g014760 36.000 100 63 1 4 103 29 127 4.49e-19 76.3
MS.gene23008.t1 MTR_3g077570 39.604 101 60 1 1 101 18 117 2.72e-18 73.9
MS.gene23008.t1 MTR_3g077560 37.624 101 62 1 1 101 21 120 1.29e-16 70.1
MS.gene23008.t1 MTR_1g015890 36.275 102 64 1 3 103 48 149 2.51e-16 69.7
MS.gene23008.t1 MTR_2g090755 31.731 104 63 2 4 103 41 140 2.61e-16 69.3
MS.gene23008.t1 MTR_7g035245 36.634 101 63 1 1 101 3 102 6.89e-16 67.4
MS.gene23008.t1 MTR_3g104510 33.663 101 60 2 3 102 23 117 1.36e-15 67.0
MS.gene23008.t1 MTR_1g069255 35.922 103 58 3 2 100 84 182 7.79e-15 66.6
MS.gene23008.t1 MTR_4g079110 33.333 99 64 2 6 103 58 155 5.05e-14 63.9
MS.gene23008.t1 MTR_5g077550 33.010 103 68 1 2 103 21 123 6.09e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene23008.t1 AT3G62950 72.816 103 28 0 1 103 1 103 7.74e-54 163
MS.gene23008.t1 AT2G47870 72.816 103 28 0 1 103 1 103 1.08e-51 158
MS.gene23008.t1 AT3G21460 57.282 103 43 1 1 103 1 102 3.28e-42 134
MS.gene23008.t1 AT5G18600 51.961 102 48 1 1 102 1 101 6.81e-34 113
MS.gene23008.t1 AT4G15700 49.515 103 51 1 1 103 1 102 1.26e-33 112
MS.gene23008.t1 AT4G15690 48.544 103 52 1 1 103 1 102 3.02e-33 111
MS.gene23008.t1 AT4G15670 47.573 103 53 1 1 103 1 102 4.52e-33 110
MS.gene23008.t1 AT4G15680 47.573 103 53 1 1 103 1 102 8.54e-33 110
MS.gene23008.t1 AT4G15660 46.602 103 54 1 1 103 1 102 1.59e-32 109
MS.gene23008.t1 AT2G47880 46.602 103 54 1 1 103 1 102 5.00e-31 105
MS.gene23008.t1 AT3G62960 49.474 95 47 1 1 95 1 94 2.11e-29 101
MS.gene23008.t1 AT3G62930 50.980 102 49 1 1 102 1 101 2.93e-29 101
MS.gene23008.t1 AT5G14070 43.636 110 55 1 1 103 31 140 2.11e-28 100
MS.gene23008.t1 AT2G30540 46.000 100 53 1 1 100 1 99 3.36e-28 98.6
MS.gene23008.t1 AT1G03020 47.573 103 53 1 1 103 1 102 1.26e-27 97.4
MS.gene23008.t1 AT1G06830 49.451 91 45 1 1 91 1 90 1.49e-27 97.1
MS.gene23008.t1 AT3G02000 45.283 106 53 1 3 103 31 136 7.85e-24 88.6
MS.gene23008.t1 AT1G28480 30.476 105 70 1 2 103 33 137 2.51e-17 72.0
MS.gene23008.t1 AT4G33040 35.238 105 63 2 3 103 41 144 5.56e-17 71.2
MS.gene23008.t1 AT5G40370 35.644 101 64 1 1 101 3 102 3.17e-16 68.6
MS.gene23008.t1 AT5G63030 36.634 101 63 1 1 101 19 118 9.43e-15 65.1
MS.gene23008.t1 AT5G11930 31.683 101 58 2 3 102 57 147 1.83e-13 62.4
MS.gene23008.t1 AT5G20500 39.362 94 56 1 2 95 33 125 5.71e-13 60.8
MS.gene23008.t1 AT2G20270 33.981 103 60 3 2 100 76 174 1.26e-12 60.8
MS.gene23008.t1 AT4G28730 32.653 98 64 2 2 98 71 167 2.76e-12 59.7
MS.gene23008.t1 AT5G40370 37.931 87 53 1 15 101 42 127 2.29e-11 56.6

Find 21 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGGCTTTGACGGGTAATTT+TGG 0.192614 7.2:+6744106 MS.gene23008:CDS
TCAGTTCCTGCAGTGTTCAT+AGG 0.308523 7.2:+6744139 MS.gene23008:CDS
ATCACTCAAACAAATGCTTA+TGG 0.336727 7.2:+6744213 MS.gene23008:CDS
GTGATATCTCTTCATGTTGA+TGG 0.394359 7.2:+6744190 MS.gene23008:CDS
AATGGATAGAGTAAAGGATT+TGG 0.416673 7.2:+6743946 None:intergenic
TTATGGATGCAAAGGCCATT+TGG 0.421738 7.2:+6744230 MS.gene23008:CDS
TTCATAGGTGGAAAATTTGT+AGG 0.443244 7.2:+6744154 MS.gene23008:CDS
AGAAATGGAATGGGCTTTGA+CGG 0.459893 7.2:+6744096 MS.gene23008:CDS
TGATTCATATGGTAGAGAAA+TGG 0.467021 7.2:+6744081 MS.gene23008:CDS
AAACTATAACTAAAACCAAA+TGG 0.480199 7.2:-6744245 None:intergenic
GAACTAGACAATGATTCATA+TGG 0.494073 7.2:+6744070 MS.gene23008:CDS
ATGAACACTGCAGGAACTGA+AGG 0.515693 7.2:-6744136 None:intergenic
ATTAGTAATGGATAGAGTAA+AGG 0.519263 7.2:+6743940 None:intergenic
CATATGGTAGAGAAATGGAA+TGG 0.521337 7.2:+6744086 MS.gene23008:CDS
TTTCCACCTATGAACACTGC+AGG 0.533950 7.2:-6744145 None:intergenic
TTGTCTAGTTCATATACTGC+AGG 0.547581 7.2:-6744058 None:intergenic
ACAAATGCTTATGGATGCAA+AGG 0.548540 7.2:+6744222 MS.gene23008:CDS
GAAATGGAATGGGCTTTGAC+GGG 0.551934 7.2:+6744097 MS.gene23008:CDS
ATATGGTAGAGAAATGGAAT+GGG 0.575278 7.2:+6744087 MS.gene23008:CDS
GTTCCTGCAGTGTTCATAGG+TGG 0.598185 7.2:+6744142 MS.gene23008:CDS
TGAACACTGCAGGAACTGAA+GGG 0.651523 7.2:-6744135 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATATGGTAGAGAAATGGAAT+GGG + chr7.2:6744087-6744106 MS.gene23008:CDS 30.0%
ATCACTCAAACAAATGCTTA+TGG + chr7.2:6744213-6744232 MS.gene23008:CDS 30.0%
GAACTAGACAATGATTCATA+TGG + chr7.2:6744070-6744089 MS.gene23008:CDS 30.0%
TGATTCATATGGTAGAGAAA+TGG + chr7.2:6744081-6744100 MS.gene23008:CDS 30.0%
TTCATAGGTGGAAAATTTGT+AGG + chr7.2:6744154-6744173 MS.gene23008:CDS 30.0%
! AAGAGATATCACATCTTTTG+AGG - chr7.2:6744182-6744201 None:intergenic 30.0%
! AAGCAACTATTTTATGAGCT+TGG + chr7.2:6744028-6744047 MS.gene23008:CDS 30.0%
ACAAATGCTTATGGATGCAA+AGG + chr7.2:6744222-6744241 MS.gene23008:CDS 35.0%
CATATGGTAGAGAAATGGAA+TGG + chr7.2:6744086-6744105 MS.gene23008:CDS 35.0%
GTGATATCTCTTCATGTTGA+TGG + chr7.2:6744190-6744209 MS.gene23008:CDS 35.0%
! TTGTCTAGTTCATATACTGC+AGG - chr7.2:6744061-6744080 None:intergenic 35.0%
TTATGGATGCAAAGGCCATT+TGG + chr7.2:6744230-6744249 MS.gene23008:CDS 40.0%
! AGAAATGGAATGGGCTTTGA+CGG + chr7.2:6744096-6744115 MS.gene23008:CDS 40.0%
ATGAACACTGCAGGAACTGA+AGG - chr7.2:6744139-6744158 None:intergenic 45.0%
TCAGTTCCTGCAGTGTTCAT+AGG + chr7.2:6744139-6744158 MS.gene23008:CDS 45.0%
TGAACACTGCAGGAACTGAA+GGG - chr7.2:6744138-6744157 None:intergenic 45.0%
TTTCCACCTATGAACACTGC+AGG - chr7.2:6744148-6744167 None:intergenic 45.0%
! GAAATGGAATGGGCTTTGAC+GGG + chr7.2:6744097-6744116 MS.gene23008:CDS 45.0%
!! TGGGCTTTGACGGGTAATTT+TGG + chr7.2:6744106-6744125 MS.gene23008:CDS 45.0%
GTTCCTGCAGTGTTCATAGG+TGG + chr7.2:6744142-6744161 MS.gene23008:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 6743947 6744258 6743947 ID=MS.gene23008
chr7.2 mRNA 6743947 6744258 6743947 ID=MS.gene23008.t1;Parent=MS.gene23008
chr7.2 exon 6743947 6744258 6743947 ID=MS.gene23008.t1.exon1;Parent=MS.gene23008.t1
chr7.2 CDS 6743947 6744258 6743947 ID=cds.MS.gene23008.t1;Parent=MS.gene23008.t1
Gene Sequence

>MS.gene23008

ATGGATAGAGTAAAGGATTTGGCATCAAAGAAAGCTGCAGTTATATTTACAAAGAGTTCATGTTACATGTGTCATAGCATCAAGCAACTATTTTATGAGCTTGGAGCAAGTCCTGCAGTATATGAACTAGACAATGATTCATATGGTAGAGAAATGGAATGGGCTTTGACGGGTAATTTTGGATGCAACCCTTCAGTTCCTGCAGTGTTCATAGGTGGAAAATTTGTAGGATCCTCAAAAGATGTGATATCTCTTCATGTTGATGGATCACTCAAACAAATGCTTATGGATGCAAAGGCCATTTGGTTTTAG
Protein sequence

>MS.gene23008.t1

MDRVKDLASKKAAVIFTKSSCYMCHSIKQLFYELGASPAVYELDNDSYGREMEWALTGNFGCNPSVPAVFIGGKFVGSSKDVISLHVDGSLKQMLMDAKAIWF