AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene017231

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017231.t1 MTR_5g075380 90.741 162 15 0 1 162 1 162 1.66e-111 313
MS.gene017231.t1 MTR_3g466980 40.625 160 95 0 1 160 1 160 1.29e-43 144
MS.gene017231.t1 MTR_4g032620 43.506 154 86 1 1 153 1 154 1.68e-41 139
MS.gene017231.t1 MTR_3g467080 43.506 154 86 1 1 153 1 154 1.64e-40 134
MS.gene017231.t1 MTR_4g031910 45.455 154 83 1 1 153 1 154 1.79e-39 133
MS.gene017231.t1 MTR_3g065100 40.881 159 94 0 1 159 1 159 1.62e-37 129
MS.gene017231.t1 MTR_3g466830 42.208 154 89 0 4 157 3 156 9.12e-37 124
MS.gene017231.t1 MTR_3g466890 42.308 156 90 0 5 160 4 159 2.08e-35 121
MS.gene017231.t1 MTR_8g036130 39.506 162 95 2 1 159 1 162 2.23e-35 123
MS.gene017231.t1 MTR_4g063790 38.125 160 92 2 1 156 1 157 9.73e-35 119
MS.gene017231.t1 MTR_2g016210 35.443 158 101 1 1 157 1 158 2.13e-34 120
MS.gene017231.t1 MTR_4g032260 45.455 154 83 1 1 153 1 154 1.24e-33 116
MS.gene017231.t1 MTR_1g077300 39.744 156 91 2 1 156 1 153 4.70e-32 112
MS.gene017231.t1 MTR_1g077390 35.897 156 99 1 1 156 1 155 6.17e-32 112
MS.gene017231.t1 MTR_4g032290 44.156 154 85 1 1 153 1 154 6.20e-32 114
MS.gene017231.t1 MTR_1g077320 37.821 156 96 1 1 156 1 155 8.55e-32 112
MS.gene017231.t1 MTR_3g465410 40.152 132 72 2 29 156 1 129 9.47e-31 108
MS.gene017231.t1 MTR_3g031100 35.065 154 99 1 1 153 1 154 1.59e-30 111
MS.gene017231.t1 MTR_5g047580 33.333 156 103 1 1 156 1 155 8.30e-30 106
MS.gene017231.t1 MTR_1g090697 35.032 157 101 1 1 157 1 156 9.25e-30 106
MS.gene017231.t1 MTR_7g011950 37.179 156 97 1 1 156 1 155 3.34e-29 105
MS.gene017231.t1 MTR_4g028720 35.897 156 99 1 1 156 1 155 1.50e-28 103
MS.gene017231.t1 MTR_2g035610 46.087 115 62 0 1 115 1 115 2.46e-28 102
MS.gene017231.t1 MTR_1g084950 35.897 156 99 1 1 156 1 155 1.14e-27 101
MS.gene017231.t1 MTR_3g031240 32.468 154 103 1 1 153 1 154 4.52e-27 100
MS.gene017231.t1 MTR_1g090710 35.443 158 100 2 1 157 1 157 2.95e-26 97.8
MS.gene017231.t1 MTR_1g090783 31.818 154 104 1 4 157 3 155 1.23e-25 96.3
MS.gene017231.t1 MTR_3g466900 36.641 131 83 0 32 162 2 132 1.90e-24 92.4
MS.gene017231.t1 MTR_2g035580 34.899 149 97 0 1 149 1 149 2.26e-24 92.8
MS.gene017231.t1 MTR_3g466930 37.209 129 81 0 32 160 2 130 4.36e-24 91.3
MS.gene017231.t1 MTR_4g028800 54.795 73 31 1 1 73 1 71 1.61e-22 85.5
MS.gene017231.t1 MTR_3g093900 30.968 155 107 0 4 158 7 161 3.82e-21 89.4
MS.gene017231.t1 MTR_7g106510 33.121 157 103 2 4 159 7 162 8.86e-21 88.2
MS.gene017231.t1 MTR_4g019670 31.410 156 107 0 4 159 7 162 4.39e-20 86.3
MS.gene017231.t1 MTR_5g047560 29.371 143 84 2 1 143 1 126 2.03e-17 74.3
MS.gene017231.t1 MTR_6g018920 28.313 166 103 6 1 159 1 157 1.99e-14 69.7
MS.gene017231.t1 MTR_1g114730 32.773 119 72 4 1 112 1 118 3.36e-14 68.9
MS.gene017231.t1 MTR_7g055790 33.962 106 52 1 4 109 62 149 1.68e-11 59.3
MS.gene017231.t1 MTR_6g005450 27.381 168 108 5 1 162 1 160 2.29e-11 60.8
MS.gene017231.t1 MTR_7g055800 34.177 79 37 1 31 109 18 81 6.00e-11 56.2
MS.gene017231.t1 MTR_6g005440 27.108 166 106 6 1 160 1 157 6.27e-11 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene017231.t1 AT5G48670 39.610 154 91 2 1 153 1 153 9.93e-30 110
MS.gene017231.t1 AT1G65300 37.143 140 88 0 4 143 3 142 3.19e-27 103
MS.gene017231.t1 AT3G05860 32.215 149 101 0 1 149 1 149 3.88e-27 101
MS.gene017231.t1 AT3G05860 32.215 149 101 0 1 149 1 149 3.29e-26 100
MS.gene017231.t1 AT1G65330 43.810 105 59 0 5 109 4 108 3.46e-26 100
MS.gene017231.t1 AT3G05860 32.215 149 101 0 1 149 1 149 5.12e-26 99.8
MS.gene017231.t1 AT1G31630 32.692 156 104 1 4 159 3 157 3.94e-25 99.0
MS.gene017231.t1 AT5G26650 45.283 106 58 0 4 109 2 107 4.17e-25 99.4
MS.gene017231.t1 AT5G27960 44.340 106 59 0 4 109 2 107 7.69e-25 97.8
MS.gene017231.t1 AT5G26630 32.704 159 107 0 1 159 1 159 2.11e-24 94.7
MS.gene017231.t1 AT1G31640 34.211 152 91 4 5 152 4 150 3.81e-24 97.4
MS.gene017231.t1 AT5G27810 38.372 86 53 0 29 114 1 86 2.09e-19 79.0
MS.gene017231.t1 AT2G28700 30.667 150 102 2 1 149 1 149 3.04e-18 80.1
MS.gene017231.t1 AT2G40210 39.604 101 61 0 1 101 1 101 2.40e-17 78.2
MS.gene017231.t1 AT5G26580 38.532 109 53 1 1 109 1 95 3.89e-17 77.4
MS.gene017231.t1 AT5G06500 29.487 156 103 2 1 153 1 152 1.31e-16 74.7
MS.gene017231.t1 AT1G22590 28.289 152 100 2 1 149 1 146 6.63e-16 71.2
MS.gene017231.t1 AT2G15660 34.653 101 65 1 38 138 31 130 4.87e-12 62.4
MS.gene017231.t1 AT5G55690 36.937 111 56 4 1 103 1 105 5.94e-12 62.4
MS.gene017231.t1 AT5G55690 36.937 111 56 4 1 103 1 105 5.94e-12 62.4
MS.gene017231.t1 AT5G58890 37.273 110 62 2 1 104 1 109 2.96e-11 60.5

Find 42 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCAACTTCTCATTCAACTTT+TGG 0.190821 5.2:+63363009 None:intergenic
ATGATCTTGAACCACAAATT+TGG 0.211992 5.2:-63363139 MS.gene017231:CDS
GATGAGAAAATGAGGGAAAT+TGG 0.282864 5.2:-63362864 MS.gene017231:CDS
TGCTCTCCTTGCTGTGTGAT+TGG 0.345198 5.2:+63363256 None:intergenic
CTTCACTTTCTTTCCTGCCA+TGG 0.385906 5.2:+63363292 None:intergenic
ATTTGTGGTTCAAGATCATC+AGG 0.402521 5.2:+63363143 None:intergenic
GGAGAGCAACGTACAAGAAA+AGG 0.412101 5.2:-63363241 MS.gene017231:CDS
TCTCATGGTGGAACATCTTT+CGG 0.416598 5.2:+63363051 None:intergenic
TGAATCGAACCAGCACACTA+TGG 0.431382 5.2:+63363099 None:intergenic
TGAACGGATGGCCAAATTTG+TGG 0.436771 5.2:+63363128 None:intergenic
CCACCATGAGACTTACTTGA+AGG 0.438020 5.2:-63363039 MS.gene017231:CDS
GGAGAAGGATGAGAGGGCTT+AGG 0.440373 5.2:-63362823 None:intergenic
TGGTATGAAGATGGTGCAAT+TGG 0.455791 5.2:-63362844 MS.gene017231:CDS
CAAATTTGGCCATCCGTTCA+AGG 0.457472 5.2:-63363125 MS.gene017231:CDS
TTTCTCAATACCACCATGGC+AGG 0.467282 5.2:-63363305 None:intergenic
GAGAAGGATGAGAGGGCTTA+GGG 0.469907 5.2:-63362822 None:intergenic
TTACCTCACTATCTTGAGGC+AGG 0.500293 5.2:-63362942 MS.gene017231:CDS
TCTGAAGTGCTTAAATCCTC+AGG 0.504006 5.2:+63362912 None:intergenic
GAGAGCAACGTACAAGAAAA+GGG 0.528840 5.2:-63363240 MS.gene017231:CDS
ACATGCTTGAACTCCACATA+GGG 0.545908 5.2:+63363181 None:intergenic
TGCAATTGGAGAAGGATGAG+AGG 0.552324 5.2:-63362830 MS.gene017231:CDS
CTATGGACTCCTTGAACGGA+TGG 0.558436 5.2:+63363116 None:intergenic
AATGAAATCACAACCCTATG+TGG 0.562718 5.2:-63363194 MS.gene017231:CDS
CACACTATGGACTCCTTGAA+CGG 0.564303 5.2:+63363112 None:intergenic
TCAAGGAGTCCATAGTGTGC+TGG 0.565483 5.2:-63363108 MS.gene017231:CDS
ATGTGATTGATGAGAAAATG+AGG 0.567807 5.2:-63362872 MS.gene017231:CDS
ATGAGACTTACTTGAAGGAA+AGG 0.574335 5.2:-63363034 MS.gene017231:CDS
TTTCCTTCAAGTAAGTCTCA+TGG 0.575088 5.2:+63363036 None:intergenic
GAAGATGGTGCAATTGGAGA+AGG 0.575400 5.2:-63362838 MS.gene017231:CDS
TACCTCACTATCTTGAGGCA+GGG 0.578476 5.2:-63362941 MS.gene017231:CDS
TGAAGGAGAATAGGATGATG+TGG 0.588946 5.2:-63362977 MS.gene017231:CDS
TCAATTACCTCACTATCTTG+AGG 0.600686 5.2:-63362946 MS.gene017231:CDS
GAGGGAAATTGGTATGAAGA+TGG 0.616379 5.2:-63362853 MS.gene017231:CDS
GCAATTGGAGAAGGATGAGA+GGG 0.619379 5.2:-63362829 MS.gene017231:CDS
CACATGCTTGAACTCCACAT+AGG 0.630810 5.2:+63363180 None:intergenic
TTCCCTGCCTCAAGATAGTG+AGG 0.632603 5.2:+63362939 None:intergenic
TGTGATTGATGAGAAAATGA+GGG 0.635288 5.2:-63362871 MS.gene017231:CDS
TCATAACCAATCACACAGCA+AGG 0.650603 5.2:-63363262 MS.gene017231:CDS
CTATGTGGAGTTCAAGCATG+TGG 0.662987 5.2:-63363179 MS.gene017231:CDS
CCTTCAAGTAAGTCTCATGG+TGG 0.674326 5.2:+63363039 None:intergenic
TGAGGCAGGGAATATTCCTG+AGG 0.675847 5.2:-63362928 MS.gene017231:CDS
GGTTCGATTCATGCATACTG+CGG 0.703185 5.2:-63363087 MS.gene017231:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAAAAAAATGAAGGAGAAT+AGG - chr5.2:63363128-63363147 MS.gene017231:CDS 25.0%
! GAAGTTGAAGAAAAAAATGA+AGG - chr5.2:63363120-63363139 MS.gene017231:CDS 25.0%
ATGATCTTGAACCACAAATT+TGG - chr5.2:63362975-63362994 MS.gene017231:CDS 30.0%
ATGTGATTGATGAGAAAATG+AGG - chr5.2:63363242-63363261 MS.gene017231:CDS 30.0%
TGTGATTGATGAGAAAATGA+GGG - chr5.2:63363243-63363262 MS.gene017231:CDS 30.0%
! TCAACTTCTCATTCAACTTT+TGG + chr5.2:63363108-63363127 None:intergenic 30.0%
AATGAAATCACAACCCTATG+TGG - chr5.2:63362920-63362939 MS.gene017231:CDS 35.0%
ATGAGACTTACTTGAAGGAA+AGG - chr5.2:63363080-63363099 MS.gene017231:CDS 35.0%
ATTTGTGGTTCAAGATCATC+AGG + chr5.2:63362974-63362993 None:intergenic 35.0%
GATGAGAAAATGAGGGAAAT+TGG - chr5.2:63363250-63363269 MS.gene017231:CDS 35.0%
TCAATTACCTCACTATCTTG+AGG - chr5.2:63363168-63363187 MS.gene017231:CDS 35.0%
TTTCCTTCAAGTAAGTCTCA+TGG + chr5.2:63363081-63363100 None:intergenic 35.0%
ACATGCTTGAACTCCACATA+GGG + chr5.2:63362936-63362955 None:intergenic 40.0%
GAGAGCAACGTACAAGAAAA+GGG - chr5.2:63362874-63362893 MS.gene017231:CDS 40.0%
GAGGGAAATTGGTATGAAGA+TGG - chr5.2:63363261-63363280 MS.gene017231:CDS 40.0%
TCATAACCAATCACACAGCA+AGG - chr5.2:63362852-63362871 MS.gene017231:CDS 40.0%
TGAAGGAGAATAGGATGATG+TGG - chr5.2:63363137-63363156 MS.gene017231:CDS 40.0%
TGGTATGAAGATGGTGCAAT+TGG - chr5.2:63363270-63363289 MS.gene017231:CDS 40.0%
! TCTCATGGTGGAACATCTTT+CGG + chr5.2:63363066-63363085 None:intergenic 40.0%
! TCTGAAGTGCTTAAATCCTC+AGG + chr5.2:63363205-63363224 None:intergenic 40.0%
CAAATTTGGCCATCCGTTCA+AGG - chr5.2:63362989-63363008 MS.gene017231:CDS 45.0%
CACACTATGGACTCCTTGAA+CGG + chr5.2:63363005-63363024 None:intergenic 45.0%
CACATGCTTGAACTCCACAT+AGG + chr5.2:63362937-63362956 None:intergenic 45.0%
CCACCATGAGACTTACTTGA+AGG - chr5.2:63363075-63363094 MS.gene017231:CDS 45.0%
CCTTCAAGTAAGTCTCATGG+TGG + chr5.2:63363078-63363097 None:intergenic 45.0%
CTATGTGGAGTTCAAGCATG+TGG - chr5.2:63362935-63362954 MS.gene017231:CDS 45.0%
GAAGATGGTGCAATTGGAGA+AGG - chr5.2:63363276-63363295 MS.gene017231:CDS 45.0%
GCAATTGGAGAAGGATGAGA+GGG - chr5.2:63363285-63363304 MS.gene017231:CDS 45.0%
GGAGAGCAACGTACAAGAAA+AGG - chr5.2:63362873-63362892 MS.gene017231:CDS 45.0%
GGTTCGATTCATGCATACTG+CGG - chr5.2:63363027-63363046 MS.gene017231:CDS 45.0%
TACCTCACTATCTTGAGGCA+GGG - chr5.2:63363173-63363192 MS.gene017231:CDS 45.0%
TGAACGGATGGCCAAATTTG+TGG + chr5.2:63362989-63363008 None:intergenic 45.0%
TGAATCGAACCAGCACACTA+TGG + chr5.2:63363018-63363037 None:intergenic 45.0%
TGCAATTGGAGAAGGATGAG+AGG - chr5.2:63363284-63363303 MS.gene017231:CDS 45.0%
TTACCTCACTATCTTGAGGC+AGG - chr5.2:63363172-63363191 MS.gene017231:CDS 45.0%
CTATGGACTCCTTGAACGGA+TGG + chr5.2:63363001-63363020 None:intergenic 50.0%
TCAAGGAGTCCATAGTGTGC+TGG - chr5.2:63363006-63363025 MS.gene017231:CDS 50.0%
TGAGGCAGGGAATATTCCTG+AGG - chr5.2:63363186-63363205 MS.gene017231:CDS 50.0%
TTCCCTGCCTCAAGATAGTG+AGG + chr5.2:63363178-63363197 None:intergenic 50.0%
! TGCTCTCCTTGCTGTGTGAT+TGG + chr5.2:63362861-63362880 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr5.2 gene 63362824 63363312 63362824 ID=MS.gene017231
chr5.2 mRNA 63362824 63363312 63362824 ID=MS.gene017231.t1;Parent=MS.gene017231
chr5.2 exon 63362824 63363312 63362824 ID=MS.gene017231.t1.exon1;Parent=MS.gene017231.t1
chr5.2 CDS 63362824 63363312 63362824 ID=cds.MS.gene017231.t1;Parent=MS.gene017231.t1
Gene Sequence

>MS.gene017231

ATGGCAGGAAAGAAAGTGAAGCTTGCATTCATAACCAATCACACAGCAAGGAGAGCAACGTACAAGAAAAGGGTACAAAGTTTGATGAAGAAGCTCAATGAAATCACAACCCTATGTGGAGTTCAAGCATGTGGTATAGTTTTCAAGCCTGATGATCTTGAACCACAAATTTGGCCATCCGTTCAAGGAGTCCATAGTGTGCTGGTTCGATTCATGCATACTGCGGACTTCGATCGAGACCGAAAGATGTTCCACCATGAGACTTACTTGAAGGAAAGGATCCAAAAGTTGAATGAGAAGTTGAAGAAAAAAATGAAGGAGAATAGGATGATGTGGATGAGTCTTCAATTACCTCACTATCTTGAGGCAGGGAATATTCCTGAGGATTTAAGCACTTCAGATATGAATGATCTCACATATGTGATTGATGAGAAAATGAGGGAAATTGGTATGAAGATGGTGCAATTGGAGAAGGATGAGAGGGCTTAG
Protein sequence

>MS.gene017231.t1

MAGKKVKLAFITNHTARRATYKKRVQSLMKKLNEITTLCGVQACGIVFKPDDLEPQIWPSVQGVHSVLVRFMHTADFDRDRKMFHHETYLKERIQKLNEKLKKKMKENRMMWMSLQLPHYLEAGNIPEDLSTSDMNDLTYVIDEKMREIGMKMVQLEKDERA