AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene29672

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene29672.t1 MTR_5g083010 99.435 177 1 0 1 177 1 177 7.92e-131 363
MS.gene29672.t1 MTR_3g071420 74.725 182 41 1 1 177 4 185 3.60e-89 259
MS.gene29672.t1 MTR_7g033800 50.667 150 68 1 8 151 8 157 4.36e-48 154
MS.gene29672.t1 MTR_4g105170 46.108 167 80 1 9 175 9 165 2.67e-47 152
MS.gene29672.t1 MTR_6g005070 64.151 106 38 0 8 113 6 111 1.55e-44 144
MS.gene29672.t1 MTR_3g077240 63.551 107 39 0 9 115 8 114 2.63e-44 145
MS.gene29672.t1 MTR_5g083230 63.366 101 37 0 8 108 3 103 3.26e-42 139
MS.gene29672.t1 MTR_3g031660 60.577 104 41 0 8 111 4 107 4.19e-42 139
MS.gene29672.t1 MTR_6g005080 61.321 106 41 0 8 113 7 112 7.07e-42 137
MS.gene29672.t1 MTR_4g083680 60.396 101 40 0 8 108 12 112 1.35e-41 137
MS.gene29672.t1 MTR_3g071590 46.711 152 80 1 8 159 5 155 1.43e-41 137
MS.gene29672.t1 MTR_2g068760 58.491 106 44 0 3 108 5 110 6.22e-41 135
MS.gene29672.t1 MTR_3g073690 60.952 105 41 0 8 112 6 110 5.18e-40 134
MS.gene29672.t1 MTR_5g017950 52.713 129 58 1 8 133 5 133 5.92e-40 137
MS.gene29672.t1 MTR_8g040900 54.545 132 56 1 8 135 4 135 4.73e-39 133
MS.gene29672.t1 MTR_5g083960 51.145 131 61 2 8 138 36 163 7.17e-39 131
MS.gene29672.t1 MTR_3g452660 56.190 105 46 0 8 112 4 108 4.08e-38 132
MS.gene29672.t1 MTR_3g094690 56.863 102 44 0 12 113 48 149 4.93e-36 125
MS.gene29672.t1 MTR_2g093310 44.231 156 69 3 10 153 32 181 5.83e-36 124
MS.gene29672.t1 MTR_7g096530 51.327 113 54 1 2 113 5 117 1.06e-35 124
MS.gene29672.t1 MTR_5g075020 61.290 93 30 1 4 90 30 122 4.27e-35 123
MS.gene29672.t1 MTR_8g036085 54.902 102 45 1 12 112 24 125 4.35e-35 123
MS.gene29672.t1 MTR_8g036105 50.442 113 55 1 1 112 8 120 6.56e-35 122
MS.gene29672.t1 MTR_5g075020 61.290 93 30 1 4 90 34 126 7.19e-35 122
MS.gene29672.t1 MTR_1g095850 55.446 101 45 0 12 112 73 173 1.01e-34 122
MS.gene29672.t1 MTR_7g074990 51.485 101 48 1 12 111 21 121 2.94e-34 121
MS.gene29672.t1 MTR_3g094690 55.882 102 44 1 12 113 48 148 1.70e-33 119
MS.gene29672.t1 MTR_1g070220 52.778 108 49 2 3 108 6 113 3.29e-33 117
MS.gene29672.t1 MTR_4g060950 56.701 97 41 1 10 105 23 119 4.20e-33 116
MS.gene29672.t1 MTR_7g096610 50.893 112 53 2 8 117 5 116 4.70e-33 117
MS.gene29672.t1 MTR_6g027710 50.495 101 49 1 12 111 41 141 5.46e-33 117
MS.gene29672.t1 MTR_1g070205 39.412 170 87 6 12 168 13 179 9.33e-33 117
MS.gene29672.t1 MTR_7g075230 50.000 108 51 2 8 112 9 116 1.91e-30 110
MS.gene29672.t1 MTR_5g080470 41.593 113 65 1 9 120 5 117 3.57e-30 109
MS.gene29672.t1 MTR_7g028905 43.689 103 58 0 10 112 4 106 1.41e-29 105
MS.gene29672.t1 MTR_8g079660 49.020 102 52 0 12 113 9 110 8.82e-29 107
MS.gene29672.t1 MTR_5g093010 42.574 101 58 0 12 112 6 106 5.51e-28 102
MS.gene29672.t1 MTR_8g079620 47.059 102 54 0 12 113 9 110 3.89e-27 102
MS.gene29672.t1 MTR_6g027700 44.898 98 53 1 12 108 8 105 4.15e-26 99.4
MS.gene29672.t1 MTR_4g099230 36.090 133 72 4 12 135 3 131 2.09e-23 90.9
MS.gene29672.t1 MTR_4g107450 31.875 160 104 2 8 167 7 161 4.38e-23 93.2
MS.gene29672.t1 MTR_8g079580 43.689 103 57 1 12 113 9 111 1.09e-22 90.9
MS.gene29672.t1 MTR_6g011230 34.722 144 93 1 8 151 8 150 1.76e-22 89.7
MS.gene29672.t1 MTR_2g100020 35.455 110 71 0 8 117 16 125 2.34e-22 90.9
MS.gene29672.t1 MTR_6g011200 34.109 129 75 3 7 125 5 133 8.88e-22 89.0
MS.gene29672.t1 MTR_8g017090 35.238 105 68 0 8 112 9 113 9.13e-21 87.0
MS.gene29672.t1 MTR_6g011250 36.697 109 68 1 7 114 5 113 5.01e-20 82.8
MS.gene29672.t1 MTR_5g085390 36.283 113 63 3 7 114 5 113 4.62e-18 79.0
MS.gene29672.t1 MTR_4g088035 31.111 90 62 0 8 97 3 92 2.21e-14 69.3
MS.gene29672.t1 MTR_2g094730 31.776 107 62 4 12 109 3 107 7.09e-11 58.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene29672.t1 AT3G11090 80.180 111 22 0 1 111 1 111 1.59e-63 193
MS.gene29672.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.57e-44 145
MS.gene29672.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.57e-44 145
MS.gene29672.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.57e-44 145
MS.gene29672.t1 AT5G63090 58.475 118 46 1 9 123 9 126 3.57e-44 145
MS.gene29672.t1 AT3G27650 58.120 117 49 0 8 124 36 152 4.25e-44 144
MS.gene29672.t1 AT5G66870 54.074 135 55 2 8 141 4 132 5.15e-43 145
MS.gene29672.t1 AT2G30130 57.391 115 48 1 8 122 5 118 2.89e-41 137
MS.gene29672.t1 AT2G23660 56.731 104 45 0 8 111 2 105 2.11e-39 136
MS.gene29672.t1 AT2G23660 56.731 104 45 0 8 111 2 105 2.11e-39 136
MS.gene29672.t1 AT2G23660 56.731 104 45 0 8 111 2 105 2.11e-39 136
MS.gene29672.t1 AT1G65620 63.208 106 39 0 8 113 6 111 2.74e-39 132
MS.gene29672.t1 AT1G65620 63.208 106 39 0 8 113 6 111 2.74e-39 132
MS.gene29672.t1 AT1G65620 63.208 106 39 0 8 113 6 111 2.74e-39 132
MS.gene29672.t1 AT1G65620 63.208 106 39 0 8 113 6 111 2.74e-39 132
MS.gene29672.t1 AT1G65620 63.208 106 39 0 8 113 6 111 2.74e-39 132
MS.gene29672.t1 AT2G30340 53.846 117 54 0 12 128 54 170 3.48e-39 134
MS.gene29672.t1 AT2G30340 53.846 117 54 0 12 128 53 169 4.04e-39 134
MS.gene29672.t1 AT1G31320 60.000 90 36 0 8 97 10 99 1.21e-36 125
MS.gene29672.t1 AT1G07900 58.586 99 41 0 10 108 32 130 4.17e-36 124
MS.gene29672.t1 AT1G16530 51.786 112 52 2 2 111 4 115 1.15e-35 122
MS.gene29672.t1 AT2G28500 56.863 102 44 0 10 111 54 155 1.95e-35 124
MS.gene29672.t1 AT3G03760 52.427 103 48 1 10 111 50 152 3.41e-35 124
MS.gene29672.t1 AT2G40470 68.750 80 25 0 12 91 21 100 5.10e-35 122
MS.gene29672.t1 AT4G00210 50.442 113 55 1 1 112 1 113 6.62e-35 122
MS.gene29672.t1 AT2G40470 67.073 82 27 0 10 91 44 125 1.24e-34 121
MS.gene29672.t1 AT4G00220 56.000 100 43 1 14 112 20 119 1.74e-34 121
MS.gene29672.t1 AT2G42430 49.580 119 59 1 2 119 6 124 2.95e-34 121
MS.gene29672.t1 AT2G45420 53.000 100 46 1 14 112 40 139 6.84e-34 120
MS.gene29672.t1 AT3G58190 44.882 127 69 1 12 137 12 138 2.13e-33 118
MS.gene29672.t1 AT2G42440 46.552 116 61 1 8 122 4 119 4.16e-33 118
MS.gene29672.t1 AT3G26660 48.515 101 52 0 12 112 6 106 1.58e-32 113
MS.gene29672.t1 AT3G26620 48.515 101 52 0 12 112 6 106 1.98e-32 112
MS.gene29672.t1 AT5G06080 47.115 104 54 1 9 111 5 108 2.92e-31 111
MS.gene29672.t1 AT2G45410 51.000 100 48 1 14 112 19 118 5.54e-31 111
MS.gene29672.t1 AT2G31310 44.340 106 58 1 9 113 5 110 3.97e-30 108
MS.gene29672.t1 AT3G50510 40.602 133 78 1 7 138 8 140 3.91e-29 107
MS.gene29672.t1 AT3G50510 40.602 133 78 1 7 138 8 140 3.91e-29 107
MS.gene29672.t1 AT5G35900 38.686 137 81 1 8 141 2 138 1.84e-27 102
MS.gene29672.t1 AT3G13850 38.235 102 63 0 11 112 36 137 9.24e-24 94.7
MS.gene29672.t1 AT1G72980 38.739 111 68 0 8 118 10 120 4.91e-22 89.0
MS.gene29672.t1 AT3G47870 41.379 87 51 0 8 94 33 119 5.88e-20 85.5
MS.gene29672.t1 AT1G06280 46.154 78 42 0 11 88 24 101 3.31e-18 78.6
MS.gene29672.t1 AT4G22700 35.036 137 82 4 8 139 2 136 1.06e-17 77.0
MS.gene29672.t1 AT2G19820 35.165 91 57 2 12 101 13 102 2.99e-12 60.8
MS.gene29672.t1 AT5G15060 38.158 76 43 2 10 82 16 90 5.59e-12 60.8

Find 23 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCGAAAGTGCACAAAGTATT+TGG 0.201773 5.1:-65195155 MS.gene29672:CDS
GGAAGAAACTGTGAATTCTT+TGG 0.269255 5.1:-65195084 MS.gene29672:CDS
TATGGCGCAAATATACAATT+TGG 0.301099 5.1:+65195206 None:intergenic
ATTTGAATTCATCATATCAT+TGG 0.327427 5.1:+65194899 None:intergenic
CACTCATCGGAGCGAAAGTA+TGG 0.344487 5.1:+65195188 None:intergenic
CGCGAATTTCTTGCACTCAT+CGG 0.347852 5.1:+65195175 None:intergenic
GTTTCTTCCCTTTGTTCCTC+TGG 0.351316 5.1:+65195098 None:intergenic
TAACATCATTAAAATATATA+AGG 0.381477 5.1:+65194756 None:intergenic
AGGCTTAGAGACCCTGTCTA+TGG 0.406831 5.1:-65195044 MS.gene29672:CDS
TGCCATTGCTAAGGATCGTC+TGG 0.450338 5.1:-65194964 MS.gene29672:CDS
GCACCTATGCATCCATAGAC+AGG 0.467906 5.1:+65195032 None:intergenic
CGAAGTTCCAGAGGAACAAA+GGG 0.517072 5.1:-65195105 MS.gene29672:CDS
ACATGATCTTGCCATTGCTA+AGG 0.539338 5.1:-65194973 MS.gene29672:CDS
AAATTTGCAGGCTGCACAAG+AGG 0.547840 5.1:+65195247 None:intergenic
GCACAAGAGGAACTTGACCT+TGG 0.570179 5.1:+65195260 None:intergenic
TCGAAGTTCCAGAGGAACAA+AGG 0.580233 5.1:-65195106 MS.gene29672:CDS
TGGCTTATGAAGCTGATGCA+AGG 0.584407 5.1:-65195064 MS.gene29672:CDS
GACCCTGTCTATGGATGCAT+AGG 0.597161 5.1:-65195035 MS.gene29672:CDS
CACCTATGCATCCATAGACA+GGG 0.630323 5.1:+65195033 None:intergenic
AGCCAGACGATCCTTAGCAA+TGG 0.638509 5.1:+65194962 None:intergenic
TCATGAAGGGTTATGAACCA+AGG 0.646061 5.1:-65195277 MS.gene29672:CDS
GATTCTGATCGAAGTTCCAG+AGG 0.676488 5.1:-65195114 MS.gene29672:CDS
TCGTCTGGCTCGTTGCGCTG+CGG 0.690033 5.1:-65194949 MS.gene29672:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTTGAATTCATCATATCAT+TGG + chr5.1:65195143-65195162 None:intergenic 20.0%
TATGGCGCAAATATACAATT+TGG + chr5.1:65194836-65194855 None:intergenic 30.0%
TCATTGGAAAAAGAAGAAGT+AGG + chr5.1:65195127-65195146 None:intergenic 30.0%
! TCTTCTTTTCAGAAATTTGC+AGG + chr5.1:65194807-65194826 None:intergenic 30.0%
CAAGTGAAAAACTCAGGAAA+AGG + chr5.1:65195178-65195197 None:intergenic 35.0%
GGAAGAAACTGTGAATTCTT+TGG - chr5.1:65194955-65194974 MS.gene29672:CDS 35.0%
ACATGATCTTGCCATTGCTA+AGG - chr5.1:65195066-65195085 MS.gene29672:CDS 40.0%
GTGAAAAACTCAGGAAAAGG+TGG + chr5.1:65195175-65195194 None:intergenic 40.0%
TCACTGCAAGTGAAAAACTC+AGG + chr5.1:65195184-65195203 None:intergenic 40.0%
! AGCACTTTTGCAAAGGAAGA+TGG - chr5.1:65195033-65195052 MS.gene29672:CDS 40.0%
! GCGAAAGTGCACAAAGTATT+TGG - chr5.1:65194884-65194903 MS.gene29672:CDS 40.0%
! GTGCTATAGCACTTTTGCAA+AGG - chr5.1:65195026-65195045 MS.gene29672:CDS 40.0%
AAATTTGCAGGCTGCACAAG+AGG + chr5.1:65194795-65194814 None:intergenic 45.0%
CACCTATGCATCCATAGACA+GGG + chr5.1:65195009-65195028 None:intergenic 45.0%
CGAAGTTCCAGAGGAACAAA+GGG - chr5.1:65194934-65194953 MS.gene29672:CDS 45.0%
CGCGAATTTCTTGCACTCAT+CGG + chr5.1:65194867-65194886 None:intergenic 45.0%
GATTCTGATCGAAGTTCCAG+AGG - chr5.1:65194925-65194944 MS.gene29672:CDS 45.0%
GTTTCTTCCCTTTGTTCCTC+TGG + chr5.1:65194944-65194963 None:intergenic 45.0%
TCGAAGTTCCAGAGGAACAA+AGG - chr5.1:65194933-65194952 MS.gene29672:CDS 45.0%
TGGCTTATGAAGCTGATGCA+AGG - chr5.1:65194975-65194994 MS.gene29672:CDS 45.0%
AGCCAGACGATCCTTAGCAA+TGG + chr5.1:65195080-65195099 None:intergenic 50.0%
AGGCTTAGAGACCCTGTCTA+TGG - chr5.1:65194995-65195014 MS.gene29672:CDS 50.0%
CACTCATCGGAGCGAAAGTA+TGG + chr5.1:65194854-65194873 None:intergenic 50.0%
GACCCTGTCTATGGATGCAT+AGG - chr5.1:65195004-65195023 MS.gene29672:CDS 50.0%
GCACAAGAGGAACTTGACCT+TGG + chr5.1:65194782-65194801 None:intergenic 50.0%
GCACCTATGCATCCATAGAC+AGG + chr5.1:65195010-65195029 None:intergenic 50.0%
TGCCATTGCTAAGGATCGTC+TGG - chr5.1:65195075-65195094 MS.gene29672:CDS 50.0%
! TCGTCTGGCTCGTTGCGCTG+CGG - chr5.1:65195090-65195109 MS.gene29672:CDS 65.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 65194764 65195297 65194764 ID=MS.gene29672
chr5.1 mRNA 65194764 65195297 65194764 ID=MS.gene29672.t1;Parent=MS.gene29672
chr5.1 exon 65194764 65195297 65194764 ID=MS.gene29672.t1.exon1;Parent=MS.gene29672.t1
chr5.1 CDS 65194764 65195297 65194764 ID=cds.MS.gene29672.t1;Parent=MS.gene29672.t1
Gene Sequence

>MS.gene29672

ATGAAGGGTTATGAACCAAGGTCAAGTTCCTCTTGTGCAGCCTGCAAATTTCTGAAAAGAAGATGCATACCAAATTGTATATTTGCGCCATACTTTCGCTCCGATGAGTGCAAGAAATTCGCGAAAGTGCACAAAGTATTTGGAGCAAGCAATGTGAGCAAGATTCTGATCGAAGTTCCAGAGGAACAAAGGGAAGAAACTGTGAATTCTTTGGCTTATGAAGCTGATGCAAGGCTTAGAGACCCTGTCTATGGATGCATAGGTGCTATAGCACTTTTGCAAAGGAAGATGGTTGAACTTCAACATGATCTTGCCATTGCTAAGGATCGTCTGGCTCGTTGCGCTGCGGCTGCTGCTACTCCTACTTCTTCTTTTTCCAATGATATGATGAATTCAAATGTTAGTTTGCCACCTTTTCCTGAGTTTTTCACTTGCAGTGACTTCAGTGATAATTTAAGTCACAGTTCTTCGTCTCAATCGTTTAGTCGAAATGAAACTGTCGATGATTTCGTTCAAATTCCTTATATATTTTAA
Protein sequence

>MS.gene29672.t1

MKGYEPRSSSSCAACKFLKRRCIPNCIFAPYFRSDECKKFAKVHKVFGASNVSKILIEVPEEQREETVNSLAYEADARLRDPVYGCIGAIALLQRKMVELQHDLAIAKDRLARCAAAAATPTSSFSNDMMNSNVSLPPFPEFFTCSDFSDNLSHSSSSQSFSRNETVDDFVQIPYIF