AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene62743


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62743.t1 MTR_7g033800 96.512 172 6 0 1 172 1 172 5.97e-126 351
MS.gene62743.t1 MTR_6g005070 87.273 110 14 0 4 113 2 111 1.19e-68 205
MS.gene62743.t1 MTR_3g077240 85.217 115 16 1 1 115 1 114 1.33e-68 207
MS.gene62743.t1 MTR_4g105170 63.953 172 47 3 1 157 1 172 5.68e-68 205
MS.gene62743.t1 MTR_6g005080 84.821 112 17 0 4 115 3 114 1.29e-67 202
MS.gene62743.t1 MTR_5g083230 53.020 149 66 1 9 157 4 148 2.97e-50 159
MS.gene62743.t1 MTR_8g040900 71.560 109 31 0 6 114 2 110 4.39e-50 161
MS.gene62743.t1 MTR_5g017950 66.364 110 37 0 5 114 2 111 2.52e-49 162
MS.gene62743.t1 MTR_3g073690 66.667 111 37 0 5 115 3 113 1.66e-48 156
MS.gene62743.t1 MTR_5g083010 50.000 150 69 1 8 157 8 151 6.01e-48 154
MS.gene62743.t1 MTR_4g083680 64.078 103 37 0 10 112 14 116 3.77e-47 152
MS.gene62743.t1 MTR_2g068760 63.107 103 38 0 10 112 12 114 8.20e-47 150
MS.gene62743.t1 MTR_3g452660 67.290 107 35 0 8 114 4 110 1.60e-46 154
MS.gene62743.t1 MTR_3g071590 59.829 117 43 1 8 124 5 117 6.94e-46 148
MS.gene62743.t1 MTR_3g031660 55.000 120 50 1 9 128 5 120 2.32e-45 147
MS.gene62743.t1 MTR_3g071420 67.010 97 32 0 8 104 11 107 3.91e-45 147
MS.gene62743.t1 MTR_5g083960 59.821 112 45 0 3 114 31 142 2.70e-44 145
MS.gene62743.t1 MTR_3g094690 61.905 105 40 0 10 114 46 150 4.73e-44 145
MS.gene62743.t1 MTR_2g093310 59.223 103 42 0 10 112 32 134 1.03e-41 139
MS.gene62743.t1 MTR_3g094690 60.952 105 40 1 10 114 46 149 1.75e-41 139
MS.gene62743.t1 MTR_7g096530 60.000 115 42 2 1 111 1 115 1.66e-40 136
MS.gene62743.t1 MTR_4g060950 54.464 112 50 1 2 112 15 126 1.91e-40 135
MS.gene62743.t1 MTR_5g075020 63.810 105 38 0 10 114 42 146 1.46e-39 134
MS.gene62743.t1 MTR_5g075020 63.810 105 38 0 10 114 46 150 2.29e-39 134
MS.gene62743.t1 MTR_8g036085 59.048 105 42 1 11 114 23 127 9.12e-39 132
MS.gene62743.t1 MTR_1g095850 49.219 128 51 2 12 125 73 200 1.49e-38 131
MS.gene62743.t1 MTR_1g070220 57.265 117 45 2 1 112 1 117 2.97e-38 130
MS.gene62743.t1 MTR_8g036105 59.804 102 40 1 11 111 18 119 1.22e-35 124
MS.gene62743.t1 MTR_7g074990 61.053 95 36 1 11 104 20 114 2.77e-35 123
MS.gene62743.t1 MTR_7g028905 50.980 102 50 0 10 111 4 105 1.44e-34 118
MS.gene62743.t1 MTR_5g080470 55.670 97 42 1 10 105 6 102 1.06e-33 118
MS.gene62743.t1 MTR_8g079660 50.000 104 52 0 11 114 8 111 2.64e-33 119
MS.gene62743.t1 MTR_7g096610 57.143 98 41 1 8 104 5 102 4.83e-33 117
MS.gene62743.t1 MTR_6g027710 51.923 104 49 1 10 112 39 142 5.20e-33 117
MS.gene62743.t1 MTR_7g075230 53.043 115 51 2 11 122 12 126 1.09e-32 115
MS.gene62743.t1 MTR_1g070205 39.877 163 89 2 11 172 12 166 1.83e-32 116
MS.gene62743.t1 MTR_5g093010 46.552 116 58 1 12 127 6 117 3.17e-32 112
MS.gene62743.t1 MTR_8g079620 46.154 104 56 0 11 114 8 111 1.94e-29 108
MS.gene62743.t1 MTR_4g107450 37.580 157 86 4 12 161 11 162 6.88e-29 108
MS.gene62743.t1 MTR_6g011200 43.878 98 54 1 9 105 7 104 5.16e-28 105
MS.gene62743.t1 MTR_6g027700 48.515 101 51 1 11 110 7 107 5.24e-28 103
MS.gene62743.t1 MTR_6g011230 43.000 100 57 0 8 107 8 107 3.78e-27 101
MS.gene62743.t1 MTR_8g079580 39.716 141 79 2 11 145 8 148 1.41e-26 100
MS.gene62743.t1 MTR_6g011250 48.454 97 45 2 8 103 6 98 4.51e-26 98.2
MS.gene62743.t1 MTR_8g017090 40.385 104 62 0 8 111 9 112 1.85e-24 97.1
MS.gene62743.t1 MTR_4g099230 38.462 104 62 2 12 114 3 105 5.38e-23 89.7
MS.gene62743.t1 MTR_2g100020 41.667 96 56 0 12 107 20 115 1.57e-21 88.6
MS.gene62743.t1 MTR_5g085390 39.423 104 62 1 9 111 7 110 3.91e-20 84.0
MS.gene62743.t1 MTR_4g088035 35.556 90 58 0 10 99 5 94 1.32e-18 80.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene62743.t1 AT3G27650 84.071 113 18 0 5 117 33 145 5.96e-69 206
MS.gene62743.t1 AT5G63090 82.203 118 21 0 1 118 1 118 4.71e-67 202
MS.gene62743.t1 AT5G63090 82.203 118 21 0 1 118 1 118 4.71e-67 202
MS.gene62743.t1 AT5G63090 82.203 118 21 0 1 118 1 118 4.71e-67 202
MS.gene62743.t1 AT5G63090 82.203 118 21 0 1 118 1 118 4.71e-67 202
MS.gene62743.t1 AT1G65620 68.966 116 34 1 1 116 1 114 7.55e-50 159
MS.gene62743.t1 AT1G65620 68.966 116 34 1 1 116 1 114 7.55e-50 159
MS.gene62743.t1 AT1G65620 68.966 116 34 1 1 116 1 114 7.55e-50 159
MS.gene62743.t1 AT1G65620 68.966 116 34 1 1 116 1 114 7.55e-50 159
MS.gene62743.t1 AT1G65620 68.966 116 34 1 1 116 1 114 7.55e-50 159
MS.gene62743.t1 AT5G66870 65.217 115 36 1 1 115 1 111 9.21e-50 162
MS.gene62743.t1 AT2G30130 62.281 114 39 1 9 122 6 115 4.45e-48 155
MS.gene62743.t1 AT2G23660 59.813 107 43 0 8 114 2 108 3.06e-44 148
MS.gene62743.t1 AT2G23660 59.813 107 43 0 8 114 2 108 3.06e-44 148
MS.gene62743.t1 AT2G23660 59.813 107 43 0 8 114 2 108 3.06e-44 148
MS.gene62743.t1 AT1G16530 61.607 112 42 1 10 120 13 124 3.32e-44 144
MS.gene62743.t1 AT1G31320 59.322 118 46 1 10 125 12 129 3.44e-44 144
MS.gene62743.t1 AT2G30340 55.932 118 47 1 10 122 51 168 4.08e-43 144
MS.gene62743.t1 AT2G30340 55.932 118 47 1 10 122 52 169 4.19e-43 144
MS.gene62743.t1 AT3G11090 58.333 108 45 0 8 115 8 115 1.08e-42 140
MS.gene62743.t1 AT1G07900 59.223 103 42 0 10 112 32 134 1.11e-41 138
MS.gene62743.t1 AT2G28500 59.223 103 42 0 10 112 54 156 3.21e-41 138
MS.gene62743.t1 AT2G40470 61.905 105 40 0 10 114 19 123 6.26e-40 134
MS.gene62743.t1 AT2G40470 61.905 105 40 0 10 114 44 148 1.84e-39 134
MS.gene62743.t1 AT3G26660 51.304 115 55 1 12 125 6 120 2.54e-39 130
MS.gene62743.t1 AT3G26620 56.000 100 44 0 12 111 6 105 4.78e-39 129
MS.gene62743.t1 AT2G42430 55.372 121 49 2 1 116 1 121 6.81e-38 130
MS.gene62743.t1 AT3G03760 57.692 104 43 1 10 112 50 153 2.50e-37 129
MS.gene62743.t1 AT4G00220 60.606 99 38 1 14 111 20 118 1.15e-36 127
MS.gene62743.t1 AT2G45420 60.606 99 38 1 14 111 40 138 2.24e-36 127
MS.gene62743.t1 AT4G00210 55.357 112 49 1 1 111 1 112 2.85e-36 125
MS.gene62743.t1 AT5G06080 51.402 107 51 1 10 115 6 112 2.53e-34 119
MS.gene62743.t1 AT2G45410 44.937 158 79 4 14 170 19 169 2.95e-33 117
MS.gene62743.t1 AT2G31310 55.208 96 42 1 10 104 6 101 3.34e-33 116
MS.gene62743.t1 AT3G58190 55.660 106 46 1 1 105 1 106 4.04e-33 117
MS.gene62743.t1 AT2G42440 52.525 99 46 1 8 105 4 102 6.92e-33 117
MS.gene62743.t1 AT3G50510 47.170 106 56 0 9 114 10 115 8.05e-30 108
MS.gene62743.t1 AT3G50510 47.170 106 56 0 9 114 10 115 8.05e-30 108
MS.gene62743.t1 AT5G35900 41.071 112 66 0 12 123 6 117 1.02e-26 100
MS.gene62743.t1 AT3G13850 40.777 103 61 0 12 114 37 139 1.34e-25 99.4
MS.gene62743.t1 AT3G47870 37.615 109 68 0 8 116 33 141 1.67e-25 100
MS.gene62743.t1 AT1G72980 40.541 111 66 0 1 111 3 113 5.68e-24 93.6
MS.gene62743.t1 AT1G06280 46.753 77 41 0 12 88 25 101 4.58e-20 83.2
MS.gene62743.t1 AT4G22700 36.937 111 68 2 12 121 6 115 6.99e-18 77.4
MS.gene62743.t1 AT2G19820 37.363 91 56 1 8 97 9 99 5.41e-16 70.5
MS.gene62743.t1 AT5G15060 43.243 74 38 2 12 82 18 90 2.00e-14 67.0

Find 39 sgRNAs with CRISPR-Local

Find 45 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCAAATGTTCACAAAATATT+TGG 0.149406 7.3:-65442264 MS.gene62743:CDS
GCAAATTTCTGTGGCTCTTC+TGG 0.194109 7.3:+65442285 None:intergenic
AGGATTAAAGATCCAGTTTA+TGG 0.225345 7.3:-65442153 MS.gene62743:CDS
GGCTCTTCTGGTGGGAAATA+TGG 0.297872 7.3:+65442297 None:intergenic
AATCCTTGCCTCGGCTTCAT+AGG 0.305194 7.3:+65442170 None:intergenic
GGAGCCTAATAACTTGTCTT+TGG 0.306861 7.3:+65442106 None:intergenic
GCACCAACACAACCATAAAC+TGG 0.396732 7.3:+65442141 None:intergenic
TCCTCCAAAGACAAGTTATT+AGG 0.401520 7.3:-65442110 MS.gene62743:CDS
TAGTAGAATCAAGTTCCCTT+TGG 0.453354 7.3:+65442085 None:intergenic
TATGGAGCAAATATGCAATC+TGG 0.454516 7.3:+65442315 None:intergenic
AATTTCTGTGGCTCTTCTGG+TGG 0.462397 7.3:+65442288 None:intergenic
TTGTCTTTGGAGGACTGAAA+TGG 0.466727 7.3:+65442119 None:intergenic
ACAAGGATCGGTGGTGAAGA+TGG 0.475213 7.3:-65442003 MS.gene62743:CDS
GCCTAATAACTTGTCTTTGG+AGG 0.488921 7.3:+65442109 None:intergenic
GATGGAAGCGGTTCTTCTCT+CGG 0.503012 7.3:-65441985 MS.gene62743:CDS
GACAAGTTATTAGGCTCCAA+AGG 0.508039 7.3:-65442101 MS.gene62743:CDS
TCTCGGTCAATCTCCTCCTC+CGG 0.512178 7.3:-65441968 MS.gene62743:CDS
TGGATCTTTAATCCTTGCCT+CGG 0.516855 7.3:+65442161 None:intergenic
GTAGCTGTGATATCATGATT+CGG 0.523254 7.3:+65442024 None:intergenic
TCATTATTGTTCCAAGGAGA+AGG 0.524865 7.3:+65441934 None:intergenic
TGAAGTGCAACAACATCAAA+GGG 0.528377 7.3:-65442214 MS.gene62743:CDS
ACAAGTTATTAGGCTCCAAA+GGG 0.549638 7.3:-65442100 MS.gene62743:CDS
GATCCAGTTTATGGTTGTGT+TGG 0.554848 7.3:-65442144 MS.gene62743:CDS
ATGAAGTGCAACAACATCAA+AGG 0.561125 7.3:-65442215 MS.gene62743:CDS
ATTTCTGTGGCTCTTCTGGT+GGG 0.562695 7.3:+65442289 None:intergenic
GATGGTTATCACACAGGAGG+AGG 0.570284 7.3:-65441901 MS.gene62743:CDS
CTCTCTTGCCTATGAAGCCG+AGG 0.570500 7.3:-65442178 MS.gene62743:CDS
AGTGGATCATTATTGTTCCA+AGG 0.579950 7.3:+65441928 None:intergenic
TGAACATTTGCAAATTTCTG+TGG 0.582165 7.3:+65442276 None:intergenic
TTGCCTATGAAGCCGAGGCA+AGG 0.591021 7.3:-65442173 MS.gene62743:CDS
AATAATGATCCACTTGGCGA+TGG 0.592711 7.3:-65441919 MS.gene62743:CDS
TGGAACAATAATGATCCACT+TGG 0.604864 7.3:-65441925 MS.gene62743:CDS
ATCATGATATCACAGCTACA+AGG 0.605340 7.3:-65442020 MS.gene62743:CDS
ATCGGTGGTGAAGATGGAAG+CGG 0.616830 7.3:-65441997 MS.gene62743:CDS
GATATCACAGCTACAAGGAT+CGG 0.621778 7.3:-65442015 MS.gene62743:CDS
ATCACAGCTACAAGGATCGG+TGG 0.651340 7.3:-65442012 MS.gene62743:CDS
GTGTGATAACCATCGCCAAG+TGG 0.657231 7.3:+65441910 None:intergenic
GGCGATGGTTATCACACAGG+AGG 0.663949 7.3:-65441904 MS.gene62743:CDS
CTTGGCGATGGTTATCACAC+AGG 0.665211 7.3:-65441907 MS.gene62743:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GCAAATGTTCACAAAATATT+TGG - chr7.3:65442008-65442027 MS.gene62743:CDS 25.0%
AGGATTAAAGATCCAGTTTA+TGG - chr7.3:65442119-65442138 MS.gene62743:CDS 30.0%
TGAACATTTGCAAATTTCTG+TGG + chr7.3:65441999-65442018 None:intergenic 30.0%
ACAAGTTATTAGGCTCCAAA+GGG - chr7.3:65442172-65442191 MS.gene62743:CDS 35.0%
AGTGGATCATTATTGTTCCA+AGG + chr7.3:65442347-65442366 None:intergenic 35.0%
ATCATGATATCACAGCTACA+AGG - chr7.3:65442252-65442271 MS.gene62743:CDS 35.0%
ATGAAGTGCAACAACATCAA+AGG - chr7.3:65442057-65442076 MS.gene62743:CDS 35.0%
GTAGCTGTGATATCATGATT+CGG + chr7.3:65442251-65442270 None:intergenic 35.0%
TAGTAGAATCAAGTTCCCTT+TGG + chr7.3:65442190-65442209 None:intergenic 35.0%
TATGGAGCAAATATGCAATC+TGG + chr7.3:65441960-65441979 None:intergenic 35.0%
TCATTATTGTTCCAAGGAGA+AGG + chr7.3:65442341-65442360 None:intergenic 35.0%
TCCTCCAAAGACAAGTTATT+AGG - chr7.3:65442162-65442181 MS.gene62743:CDS 35.0%
TGAAGTGCAACAACATCAAA+GGG - chr7.3:65442058-65442077 MS.gene62743:CDS 35.0%
TGGAACAATAATGATCCACT+TGG - chr7.3:65442347-65442366 MS.gene62743:CDS 35.0%
! CTTTTTACTATCCTTCTCCT+TGG - chr7.3:65442327-65442346 MS.gene62743:CDS 35.0%
AATAATGATCCACTTGGCGA+TGG - chr7.3:65442353-65442372 MS.gene62743:CDS 40.0%
GACAAGTTATTAGGCTCCAA+AGG - chr7.3:65442171-65442190 MS.gene62743:CDS 40.0%
GATATCACAGCTACAAGGAT+CGG - chr7.3:65442257-65442276 MS.gene62743:CDS 40.0%
GATCCAGTTTATGGTTGTGT+TGG - chr7.3:65442128-65442147 MS.gene62743:CDS 40.0%
GGAGAAGGATAGTAAAAAGC+CGG + chr7.3:65442326-65442345 None:intergenic 40.0%
TGGATCTTTAATCCTTGCCT+CGG + chr7.3:65442114-65442133 None:intergenic 40.0%
! GCCTAATAACTTGTCTTTGG+AGG + chr7.3:65442166-65442185 None:intergenic 40.0%
! GGAGCCTAATAACTTGTCTT+TGG + chr7.3:65442169-65442188 None:intergenic 40.0%
! TTGTCTTTGGAGGACTGAAA+TGG + chr7.3:65442156-65442175 None:intergenic 40.0%
AAAAACTTGCACGCAGCACA+TGG + chr7.3:65441921-65441940 None:intergenic 45.0%
AATTTCTGTGGCTCTTCTGG+TGG + chr7.3:65441987-65442006 None:intergenic 45.0%
ATTTCTGTGGCTCTTCTGGT+GGG + chr7.3:65441986-65442005 None:intergenic 45.0%
GAAGGATAGTAAAAAGCCGG+AGG + chr7.3:65442323-65442342 None:intergenic 45.0%
GCAAATTTCTGTGGCTCTTC+TGG + chr7.3:65441990-65442009 None:intergenic 45.0%
GCACCAACACAACCATAAAC+TGG + chr7.3:65442134-65442153 None:intergenic 45.0%
!! CTGCGTGCAAGTTTTTGAGA+AGG - chr7.3:65441925-65441944 MS.gene62743:CDS 45.0%
AATCCTTGCCTCGGCTTCAT+AGG + chr7.3:65442105-65442124 None:intergenic 50.0%
ACAAGGATCGGTGGTGAAGA+TGG - chr7.3:65442269-65442288 MS.gene62743:CDS 50.0%
ATCACAGCTACAAGGATCGG+TGG - chr7.3:65442260-65442279 MS.gene62743:CDS 50.0%
ATCGGTGGTGAAGATGGAAG+CGG - chr7.3:65442275-65442294 MS.gene62743:CDS 50.0%
CTTGGCGATGGTTATCACAC+AGG - chr7.3:65442365-65442384 MS.gene62743:CDS 50.0%
GATGGAAGCGGTTCTTCTCT+CGG - chr7.3:65442287-65442306 MS.gene62743:CDS 50.0%
GATGGTTATCACACAGGAGG+AGG - chr7.3:65442371-65442390 MS.gene62743:CDS 50.0%
GGATAGTAAAAAGCCGGAGG+AGG + chr7.3:65442320-65442339 None:intergenic 50.0%
GGCTCTTCTGGTGGGAAATA+TGG + chr7.3:65441978-65441997 None:intergenic 50.0%
GTGTGATAACCATCGCCAAG+TGG + chr7.3:65442365-65442384 None:intergenic 50.0%
CTCTCTTGCCTATGAAGCCG+AGG - chr7.3:65442094-65442113 MS.gene62743:CDS 55.0%
GGCGATGGTTATCACACAGG+AGG - chr7.3:65442368-65442387 MS.gene62743:CDS 55.0%
TCTCGGTCAATCTCCTCCTC+CGG - chr7.3:65442304-65442323 MS.gene62743:CDS 55.0%
TTGCCTATGAAGCCGAGGCA+AGG - chr7.3:65442099-65442118 MS.gene62743:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 65441888 65442406 65441888 ID=MS.gene62743
chr7.3 mRNA 65441888 65442406 65441888 ID=MS.gene62743.t1;Parent=MS.gene62743
chr7.3 exon 65441888 65442406 65441888 ID=MS.gene62743.t1.exon1;Parent=MS.gene62743.t1
chr7.3 CDS 65441888 65442406 65441888 ID=cds.MS.gene62743.t1;Parent=MS.gene62743.t1
Gene Sequence

>MS.gene62743

ATGGCATCTTCAAGCGCTTACTCAAATTCACCATGTGCTGCGTGCAAGTTTTTGAGAAGGAAGTGCATGCCAGATTGCATATTTGCTCCATATTTCCCACCAGAAGAGCCACAGAAATTTGCAAATGTTCACAAAATATTTGGTGCAAGCAATGTGAGTAAACTTCTGAATGAAGTGCAACAACATCAAAGGGAAGATGCAGTAAACTCTCTTGCCTATGAAGCCGAGGCAAGGATTAAAGATCCAGTTTATGGTTGTGTTGGTGCCATTTCAGTCCTCCAAAGACAAGTTATTAGGCTCCAAAGGGAACTTGATTCTACTAACGCTGATTTGATTCGCTATACTACTTGCACTGAAATTCCGAATCATGATATCACAGCTACAAGGATCGGTGGTGAAGATGGAAGCGGTTCTTCTCTCGGTCAATCTCCTCCTCCGGCTTTTTACTATCCTTCTCCTTGGAACAATAATGATCCACTTGGCGATGGTTATCACACAGGAGGAGGTGACAATATATAA

Protein sequence

>MS.gene62743.t1

MASSSAYSNSPCAACKFLRRKCMPDCIFAPYFPPEEPQKFANVHKIFGASNVSKLLNEVQQHQREDAVNSLAYEAEARIKDPVYGCVGAISVLQRQVIRLQRELDSTNADLIRYTTCTEIPNHDITATRIGGEDGSGSSLGQSPPPAFYYPSPWNNNDPLGDGYHTGGGDNI