AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene50019

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50019.t1 MTR_7g106510 93.865 163 10 0 1 163 1 163 1.82e-107 316
MS.gene50019.t1 MTR_4g019670 90.798 163 15 0 1 163 1 163 6.11e-107 315
MS.gene50019.t1 MTR_3g093900 60.843 166 65 0 1 166 1 166 2.90e-66 212
MS.gene50019.t1 MTR_8g467500 61.486 148 53 1 13 160 13 156 2.48e-52 168
MS.gene50019.t1 MTR_3g466980 31.515 165 109 2 1 164 1 162 1.56e-23 92.4
MS.gene50019.t1 MTR_8g036130 35.878 131 82 1 4 132 1 131 3.53e-22 89.7
MS.gene50019.t1 MTR_5g075380 33.758 157 102 2 7 162 4 159 4.68e-22 87.4
MS.gene50019.t1 MTR_4g032620 33.607 122 81 0 6 127 3 124 3.51e-21 86.7
MS.gene50019.t1 MTR_4g031910 40.152 132 76 1 1 132 1 129 1.00e-20 85.5
MS.gene50019.t1 MTR_3g466830 32.000 150 101 1 6 154 2 151 4.90e-19 79.3
MS.gene50019.t1 MTR_1g090710 32.174 115 77 1 6 120 3 116 2.14e-18 77.8
MS.gene50019.t1 MTR_2g016210 28.966 145 102 1 7 150 4 148 8.86e-18 77.8
MS.gene50019.t1 MTR_3g065100 36.752 117 74 0 6 122 3 119 1.86e-17 77.0
MS.gene50019.t1 MTR_4g032260 38.947 95 58 0 38 132 35 129 3.00e-17 74.7
MS.gene50019.t1 MTR_3g466890 28.758 153 108 1 6 157 2 154 7.32e-17 73.6
MS.gene50019.t1 MTR_2g035610 35.000 120 78 0 6 125 3 122 1.11e-16 72.4
MS.gene50019.t1 MTR_3g031240 28.696 115 82 0 6 120 3 117 1.27e-16 73.6
MS.gene50019.t1 MTR_1g077390 31.304 115 78 1 6 120 3 116 6.48e-16 71.2
MS.gene50019.t1 MTR_5g047580 33.333 120 76 2 1 120 1 116 9.38e-16 70.9
MS.gene50019.t1 MTR_3g031100 28.814 118 84 0 6 123 3 120 1.10e-15 72.4
MS.gene50019.t1 MTR_4g028800 41.429 70 39 1 7 76 4 71 1.28e-15 68.2
MS.gene50019.t1 MTR_3g466930 31.452 124 84 1 35 157 2 125 4.12e-15 68.6
MS.gene50019.t1 MTR_1g090697 31.967 122 75 3 1 120 1 116 5.20e-15 68.9
MS.gene50019.t1 MTR_4g032290 36.842 95 60 0 38 132 35 129 6.87e-15 70.1
MS.gene50019.t1 MTR_4g063790 27.500 160 105 4 1 155 1 154 1.41e-14 67.8
MS.gene50019.t1 MTR_3g466900 29.839 124 86 1 35 157 2 125 2.93e-14 66.2
MS.gene50019.t1 MTR_1g084950 35.833 120 73 2 1 120 1 116 4.66e-14 66.2
MS.gene50019.t1 MTR_1g077320 33.333 120 76 2 1 120 1 116 2.20e-13 64.7
MS.gene50019.t1 MTR_4g028720 34.646 127 82 1 6 132 3 128 3.41e-13 63.9
MS.gene50019.t1 MTR_7g011950 32.576 132 85 2 1 132 1 128 7.88e-13 63.2
MS.gene50019.t1 MTR_1g090783 25.641 117 86 1 6 122 2 117 1.52e-12 62.4
MS.gene50019.t1 MTR_1g077300 33.043 115 76 1 6 120 3 116 2.01e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene50019.t1 AT1G65300 36.697 109 69 0 6 114 2 110 1.40e-19 83.2
MS.gene50019.t1 AT2G40210 31.169 154 102 2 1 154 1 150 1.04e-16 76.6
MS.gene50019.t1 AT3G05860 29.927 137 92 2 1 136 1 134 1.72e-16 73.9
MS.gene50019.t1 AT3G05860 30.303 132 88 2 1 131 1 129 6.00e-16 73.2
MS.gene50019.t1 AT3G05860 30.303 132 88 2 1 131 1 129 8.39e-16 72.8
MS.gene50019.t1 AT5G06500 30.137 146 101 1 4 149 1 145 1.61e-15 72.0
MS.gene50019.t1 AT1G65330 32.110 109 74 0 6 114 2 110 3.49e-14 68.6
MS.gene50019.t1 AT1G31630 32.174 115 77 1 6 120 2 115 4.20e-14 68.9
MS.gene50019.t1 AT5G48670 34.188 117 77 0 6 122 3 119 6.26e-14 68.6
MS.gene50019.t1 AT2G15660 29.870 154 91 5 5 154 3 143 7.53e-14 67.4
MS.gene50019.t1 AT2G28700 28.986 138 96 1 4 141 1 136 1.47e-13 67.4
MS.gene50019.t1 AT5G26650 29.825 114 80 0 7 120 2 115 1.78e-13 67.4
MS.gene50019.t1 AT5G27960 29.825 114 80 0 7 120 2 115 2.44e-13 66.6
MS.gene50019.t1 AT5G26630 36.207 116 71 1 1 116 1 113 2.96e-13 65.5
MS.gene50019.t1 AT1G31640 32.407 108 72 1 13 120 9 115 3.59e-13 66.6
MS.gene50019.t1 AT1G22590 25.664 113 84 0 6 118 3 115 4.33e-13 63.9

Find 27 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTATTATTCTCAATCAATT+TGG 0.203967 6.2:-77203738 None:intergenic
TTGACTCAAACTTGGTTATT+AGG 0.223954 6.2:-77203913 None:intergenic
GATTGTCACATGCTCCATTT+TGG 0.244676 6.2:-77203804 None:intergenic
GAAAGGGTTGTTCACCAAAA+TGG 0.296295 6.2:+77203790 MS.gene50019:CDS
GAGGCTTGTGTGGTTGTGTT+TGG 0.314095 6.2:+77203839 MS.gene50019:CDS
AGAAAACGAAGAGACTTTAA+TGG 0.340960 6.2:+77204033 MS.gene50019:CDS
CAAGTTTGAGTCAATATCAT+TGG 0.370768 6.2:+77203922 MS.gene50019:CDS
AGGCTTGTGTGGTTGTGTTT+GGG 0.371274 6.2:+77203840 MS.gene50019:CDS
GTGATACAAAACCATCAATA+TGG 0.392745 6.2:+77203867 MS.gene50019:CDS
ATAGGAGATGGCCATATTGA+TGG 0.402716 6.2:-77203878 None:intergenic
ATCAATATGGCCATCTCCTA+TGG 0.431669 6.2:+77203880 MS.gene50019:CDS
CAATGATATTGACTCAAACT+TGG 0.446872 6.2:-77203921 None:intergenic
GAAAACGAAGAGACTTTAAT+GGG 0.451096 6.2:+77204034 MS.gene50019:CDS
TGTGTGGTTGTGTTTGGGCC+AGG 0.454451 6.2:+77203845 MS.gene50019:CDS
GATGTCTAGGCATTTAGAAA+AGG 0.501336 6.2:+77204168 MS.gene50019:CDS
GACAATCTTATGCGGTATTG+AGG 0.507885 6.2:+77203820 MS.gene50019:CDS
TGAGAATAATACTCGAAGAA+AGG 0.533789 6.2:+77203748 MS.gene50019:CDS
ATTAGGTCTTCAGCCACCAT+AGG 0.553253 6.2:-77203896 None:intergenic
TGCTATAAGAGAAGATTGAA+AGG 0.560605 6.2:+77203773 MS.gene50019:CDS
AGATCACTAGGAAGATGTCT+AGG 0.577538 6.2:+77204155 MS.gene50019:CDS
TCAAGCGATTCTGCACATCA+TGG 0.589121 6.2:-77204108 None:intergenic
GCTATAAGAGAAGATTGAAA+GGG 0.594807 6.2:+77203774 MS.gene50019:CDS
TCTTCAGCCACCATAGGAGA+TGG 0.595566 6.2:-77203890 None:intergenic
ATGCGGTATTGAGGCTTGTG+TGG 0.625075 6.2:+77203829 MS.gene50019:CDS
ATGCATCAAATTGAAAACGA+AGG 0.641960 6.2:+77204064 MS.gene50019:CDS
AATATGGCCATCTCCTATGG+TGG 0.643804 6.2:+77203883 MS.gene50019:CDS
GAGCATGTGACAATCTTATG+CGG 0.708478 6.2:+77203812 MS.gene50019:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGTATTATTCTCAATCAATT+TGG - chr6.2:77203741-77203760 None:intergenic 20.0%
!! TTGAAAAAATTAAGATCACT+AGG + chr6.2:77204143-77204162 MS.gene50019:CDS 20.0%
!!! TTTCTTTTTTGATCTTTTCA+AGG - chr6.2:77204018-77204037 None:intergenic 20.0%
AGAAAACGAAGAGACTTTAA+TGG + chr6.2:77204033-77204052 MS.gene50019:CDS 30.0%
ATGCATCAAATTGAAAACGA+AGG + chr6.2:77204064-77204083 MS.gene50019:CDS 30.0%
CAAGTTTGAGTCAATATCAT+TGG + chr6.2:77203922-77203941 MS.gene50019:CDS 30.0%
GAAAACGAAGAGACTTTAAT+GGG + chr6.2:77204034-77204053 MS.gene50019:CDS 30.0%
GCTATAAGAGAAGATTGAAA+GGG + chr6.2:77203774-77203793 MS.gene50019:CDS 30.0%
GTGATACAAAACCATCAATA+TGG + chr6.2:77203867-77203886 MS.gene50019:CDS 30.0%
TATCCTCCAAAAAAGTCAAT+TGG - chr6.2:77203973-77203992 None:intergenic 30.0%
TGAGAATAATACTCGAAGAA+AGG + chr6.2:77203748-77203767 MS.gene50019:CDS 30.0%
TGCTATAAGAGAAGATTGAA+AGG + chr6.2:77203773-77203792 MS.gene50019:CDS 30.0%
TTGACTCAAACTTGGTTATT+AGG - chr6.2:77203916-77203935 None:intergenic 30.0%
!! CAATGATATTGACTCAAACT+TGG - chr6.2:77203924-77203943 None:intergenic 30.0%
!!! ATTGACTTTTTTGGAGGATA+AGG + chr6.2:77203973-77203992 MS.gene50019:CDS 30.0%
!!! TTGACTTTTTTGGAGGATAA+GGG + chr6.2:77203974-77203993 MS.gene50019:CDS 30.0%
GATGTCTAGGCATTTAGAAA+AGG + chr6.2:77204168-77204187 MS.gene50019:CDS 35.0%
!!! ATTGATGGTTTTGTATCACC+TGG - chr6.2:77203866-77203885 None:intergenic 35.0%
!!! GACTGACCAATTGACTTTTT+TGG + chr6.2:77203964-77203983 MS.gene50019:CDS 35.0%
!!! TGACCAATTGACTTTTTTGG+AGG + chr6.2:77203967-77203986 MS.gene50019:CDS 35.0%
AGATCACTAGGAAGATGTCT+AGG + chr6.2:77204155-77204174 MS.gene50019:CDS 40.0%
ATAGGAGATGGCCATATTGA+TGG - chr6.2:77203881-77203900 None:intergenic 40.0%
ATCAATATGGCCATCTCCTA+TGG + chr6.2:77203880-77203899 MS.gene50019:CDS 40.0%
GAAAGGGTTGTTCACCAAAA+TGG + chr6.2:77203790-77203809 MS.gene50019:CDS 40.0%
GACAATCTTATGCGGTATTG+AGG + chr6.2:77203820-77203839 MS.gene50019:CDS 40.0%
GAGCATGTGACAATCTTATG+CGG + chr6.2:77203812-77203831 MS.gene50019:CDS 40.0%
! GATTGTCACATGCTCCATTT+TGG - chr6.2:77203807-77203826 None:intergenic 40.0%
AATATGGCCATCTCCTATGG+TGG + chr6.2:77203883-77203902 MS.gene50019:CDS 45.0%
AGGCTTGTGTGGTTGTGTTT+GGG + chr6.2:77203840-77203859 MS.gene50019:CDS 45.0%
ATTAGGTCTTCAGCCACCAT+AGG - chr6.2:77203899-77203918 None:intergenic 45.0%
TCAAGCGATTCTGCACATCA+TGG - chr6.2:77204111-77204130 None:intergenic 45.0%
GAGGCTTGTGTGGTTGTGTT+TGG + chr6.2:77203839-77203858 MS.gene50019:CDS 50.0%
TCTTCAGCCACCATAGGAGA+TGG - chr6.2:77203893-77203912 None:intergenic 50.0%
! ATGCGGTATTGAGGCTTGTG+TGG + chr6.2:77203829-77203848 MS.gene50019:CDS 50.0%
TGTGTGGTTGTGTTTGGGCC+AGG + chr6.2:77203845-77203864 MS.gene50019:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.2 gene 77203707 77204213 77203707 ID=MS.gene50019
chr6.2 mRNA 77203707 77204213 77203707 ID=MS.gene50019.t1;Parent=MS.gene50019
chr6.2 exon 77203707 77204213 77203707 ID=MS.gene50019.t1.exon1;Parent=MS.gene50019.t1
chr6.2 CDS 77203707 77204213 77203707 ID=cds.MS.gene50019.t1;Parent=MS.gene50019.t1
Gene Sequence

>MS.gene50019

ATGACAAGAATCAGAAAAAAGAAGATCACATCCAAATTGATTGAGAATAATACTCGAAGAAAGGCGTGCTATAAGAGAAGATTGAAAGGGTTGTTCACCAAAATGGAGCATGTGACAATCTTATGCGGTATTGAGGCTTGTGTGGTTGTGTTTGGGCCAGGTGATACAAAACCATCAATATGGCCATCTCCTATGGTGGCTGAAGACCTAATAACCAAGTTTGAGTCAATATCATTGGATGTGCAGTCGAAAAATAAGACTGACCAATTGACTTTTTTGGAGGATAAGGGCAAAAAACTTGAAGCAAGCCTTGAAAAGATCAAAAAAGAAAACGAAGAGACTTTAATGGGAGTTTATATGCATCAAATTGAAAACGAAGGTAAATCTTTAGATGATTTTGACCATGATGTGCAGAATCGCTTGATTGCTTTTACTCTTGAAAAAATTAAGATCACTAGGAAGATGTCTAGGCATTTAGAAAAGGAGATTTTGCCTCTTGAAAATTAA
Protein sequence

>MS.gene50019.t1

MTRIRKKKITSKLIENNTRRKACYKRRLKGLFTKMEHVTILCGIEACVVVFGPGDTKPSIWPSPMVAEDLITKFESISLDVQSKNKTDQLTFLEDKGKKLEASLEKIKKENEETLMGVYMHQIENEGKSLDDFDHDVQNRLIAFTLEKIKITRKMSRHLEKEILPLEN