AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene055944

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055944.t1 MTR_7g021400 92.308 156 12 0 1 156 1 156 1.15e-100 286
MS.gene055944.t1 MTR_7g094150 91.667 156 13 0 1 156 1 156 2.40e-99 282
MS.gene055944.t1 MTR_7g094170 91.667 156 13 0 1 156 1 156 5.24e-98 279
MS.gene055944.t1 MTR_7g021380 88.462 156 18 0 1 156 1 156 7.56e-94 268
MS.gene055944.t1 MTR_5g022710 82.468 154 27 0 3 156 2 155 8.45e-90 258
MS.gene055944.t1 MTR_7g094120 78.981 157 31 1 2 156 3 159 1.47e-89 258
MS.gene055944.t1 MTR_5g022730 82.468 154 27 0 3 156 2 155 2.08e-89 257
MS.gene055944.t1 MTR_4g032400 77.564 156 34 1 2 156 8 163 1.22e-85 248
MS.gene055944.t1 MTR_4g032450 75.159 157 38 1 1 156 19 175 2.25e-84 245
MS.gene055944.t1 MTR_7g094280 76.582 158 35 2 1 156 1 158 8.02e-83 241
MS.gene055944.t1 MTR_3g110048 73.418 158 40 1 1 156 1 158 1.16e-81 238
MS.gene055944.t1 MTR_8g056060 70.701 157 45 1 1 156 1 157 2.69e-76 224
MS.gene055944.t1 MTR_7g094310 71.519 158 33 3 1 156 1 148 3.56e-73 216
MS.gene055944.t1 MTR_8g468480 67.097 155 50 1 3 156 2 156 1.20e-71 213
MS.gene055944.t1 MTR_5g085030 64.935 154 53 1 3 155 2 155 4.85e-69 206
MS.gene055944.t1 MTR_4g033455 64.286 154 55 0 3 156 7 160 1.63e-67 202
MS.gene055944.t1 MTR_4g032460 68.387 155 42 2 3 156 2 150 3.63e-67 201
MS.gene055944.t1 MTR_4g032510 66.879 157 44 3 2 156 3 153 4.28e-67 201
MS.gene055944.t1 MTR_4g032500 64.744 156 48 2 2 156 3 152 6.85e-67 200
MS.gene055944.t1 MTR_4g017860 55.385 195 44 3 5 156 26 220 1.90e-64 196
MS.gene055944.t1 MTR_4g033460 64.085 142 51 0 1 142 5 146 2.87e-62 192
MS.gene055944.t1 MTR_4g033460 64.516 93 25 1 41 133 161 245 9.00e-33 116
MS.gene055944.t1 MTR_5g082340 61.290 155 48 2 3 156 2 145 2.39e-59 181
MS.gene055944.t1 MTR_1g099870 85.294 102 13 1 57 156 2 103 2.69e-59 179
MS.gene055944.t1 MTR_4g021390 57.419 155 63 1 2 156 4 155 2.77e-56 174
MS.gene055944.t1 MTR_7g094320 57.962 157 25 2 1 156 1 117 4.23e-52 162
MS.gene055944.t1 MTR_8g089730 67.480 123 23 1 34 156 1 106 1.94e-50 157
MS.gene055944.t1 MTR_4g032420 59.843 127 36 3 31 156 38 150 5.03e-46 147
MS.gene055944.t1 MTR_7g006370 57.447 141 51 2 2 142 4 135 9.07e-45 144
MS.gene055944.t1 MTR_4g032470 52.055 146 26 2 12 156 32 134 7.16e-44 141
MS.gene055944.t1 MTR_7g094410 53.846 156 30 3 1 114 1 156 3.76e-43 140
MS.gene055944.t1 MTR_4g131980 64.706 119 36 3 3 119 2 116 2.12e-41 135
MS.gene055944.t1 MTR_4g127240 66.667 102 28 3 41 140 27 124 1.52e-40 132
MS.gene055944.t1 MTR_8g056090 51.923 156 42 6 1 154 1 125 7.64e-39 128
MS.gene055944.t1 MTR_7g094360 43.085 188 54 3 1 135 1 188 3.21e-38 129
MS.gene055944.t1 MTR_4g119422 49.655 145 66 2 2 144 227 366 3.92e-35 125
MS.gene055944.t1 MTR_7g071200 72.464 69 18 1 89 156 4 72 4.72e-29 102
MS.gene055944.t1 MTR_1g112590 35.948 153 82 2 8 144 1 153 4.72e-29 104
MS.gene055944.t1 MTR_7g094350 40.000 190 56 5 1 135 1 187 6.95e-28 102
MS.gene055944.t1 MTR_2g066010 39.073 151 80 4 8 155 20 161 1.69e-26 99.4
MS.gene055944.t1 MTR_2g065720 37.342 158 87 4 1 155 30 178 1.47e-25 97.1
MS.gene055944.t1 MTR_4g032540 68.254 63 19 1 90 151 70 132 7.21e-24 90.5
MS.gene055944.t1 MTR_4g032520 40.278 144 44 3 29 154 1 120 2.67e-23 89.4
MS.gene055944.t1 MTR_2g018980 35.099 151 83 4 8 156 3 140 1.13e-21 85.5
MS.gene055944.t1 MTR_5g096950 36.538 156 84 5 1 155 1 142 3.09e-21 84.3
MS.gene055944.t1 MTR_1g112570 36.691 139 63 4 8 128 1 132 1.93e-20 85.1
MS.gene055944.t1 MTR_1g042510 33.766 154 64 4 8 144 1 133 7.73e-20 83.6
MS.gene055944.t1 MTR_5g078680 33.858 127 62 2 8 117 1 122 6.46e-19 80.9
MS.gene055944.t1 MTR_6g053620 37.255 102 58 2 43 143 56 152 1.93e-16 75.1
MS.gene055944.t1 MTR_6g053620 37.255 102 58 2 43 143 56 152 2.39e-16 74.7
MS.gene055944.t1 MTR_8g007195 33.571 140 81 4 10 143 13 146 3.40e-16 74.3
MS.gene055944.t1 MTR_7g077810 33.803 142 82 4 8 143 18 153 2.27e-15 72.0
MS.gene055944.t1 MTR_8g007205 36.000 100 57 2 49 147 58 151 7.85e-15 70.1
MS.gene055944.t1 MTR_8g007185 36.000 100 57 2 49 147 58 151 7.93e-15 70.1
MS.gene055944.t1 MTR_4g131910 40.179 112 57 2 5 112 133 238 1.82e-14 68.6
MS.gene055944.t1 MTR_2g100830 29.577 142 86 4 10 144 13 147 1.31e-13 67.0
MS.gene055944.t1 MTR_8g030670 36.458 96 54 2 49 143 64 153 2.55e-13 66.2
MS.gene055944.t1 MTR_2g100825 28.000 150 93 4 1 143 4 145 1.78e-12 63.9
MS.gene055944.t1 MTR_3g061700 34.783 92 53 2 53 143 1 86 3.99e-12 61.6
MS.gene055944.t1 MTR_7g036780 29.787 141 88 4 1 135 1 136 7.67e-12 61.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene055944.t1 AT1G20140 69.325 163 43 1 1 156 1 163 2.66e-81 237
MS.gene055944.t1 AT5G42190 71.176 170 33 1 3 156 2 171 7.41e-81 236
MS.gene055944.t1 AT1G75950 73.585 159 36 1 4 156 2 160 4.35e-80 234
MS.gene055944.t1 AT2G25700 66.667 165 44 2 1 156 1 163 9.76e-77 226
MS.gene055944.t1 AT4G34210 68.182 154 45 2 4 156 2 152 5.48e-74 218
MS.gene055944.t1 AT4G34470 66.883 154 47 2 4 156 2 152 1.99e-72 214
MS.gene055944.t1 AT3G21850 67.742 155 45 3 4 156 2 153 3.78e-69 206
MS.gene055944.t1 AT3G21860 64.935 154 50 2 4 156 2 152 3.97e-67 201
MS.gene055944.t1 AT3G60010 65.584 154 50 2 5 156 2 154 4.38e-67 201
MS.gene055944.t1 AT2G03170 61.039 154 53 2 4 156 2 149 9.81e-62 187
MS.gene055944.t1 AT3G21830 61.039 154 56 2 4 156 2 152 9.15e-59 180
MS.gene055944.t1 AT2G03190 54.217 166 63 3 4 156 2 167 2.58e-57 177
MS.gene055944.t1 AT3G60020 55.128 156 58 3 7 156 4 153 1.68e-55 171
MS.gene055944.t1 AT2G03160 47.619 189 63 3 4 156 2 190 1.43e-53 168
MS.gene055944.t1 AT3G25650 57.229 166 58 4 4 156 2 167 1.98e-53 167
MS.gene055944.t1 AT1G10230 54.194 155 68 2 4 155 2 156 4.47e-51 160
MS.gene055944.t1 AT2G20160 51.634 153 68 2 4 155 2 149 2.02e-50 159
MS.gene055944.t1 AT3G21840 59.664 119 44 2 4 121 2 117 1.27e-38 128
MS.gene055944.t1 AT3G53060 60.465 86 27 2 29 113 1 80 6.25e-30 104
MS.gene055944.t1 AT3G61415 32.394 142 84 5 8 143 18 153 6.94e-14 68.2
MS.gene055944.t1 AT3G61415 32.394 142 84 5 8 143 18 153 7.57e-14 67.8
MS.gene055944.t1 AT2G45950 29.577 142 90 4 8 144 18 154 1.91e-13 66.6
MS.gene055944.t1 AT2G45950 29.577 142 90 4 8 144 18 154 1.91e-13 66.6
MS.gene055944.t1 AT2G45950 29.787 141 89 4 8 143 18 153 1.92e-13 66.6
MS.gene055944.t1 AT2G45950 29.787 141 89 4 8 143 18 153 1.92e-13 66.6
MS.gene055944.t1 AT2G45950 29.787 141 89 4 8 143 18 153 1.92e-13 66.6

Find 35 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAACGTGACCGGTCAGATAT+TGG 0.310767 7.4:+14987232 MS.gene055944:CDS
CAGAAGACGATCTTAAGAAT+TGG 0.313785 7.4:+14987315 MS.gene055944:CDS
TGACCGGTCACGTTAGGAAC+TGG 0.377814 7.4:-14987224 None:intergenic
CTTGAATATCAAAAGTCTAC+TGG 0.408664 7.4:+14987400 MS.gene055944:CDS
AGAAGACGATCTTAAGAATT+GGG 0.420571 7.4:+14987316 MS.gene055944:CDS
ACTCTTGAGAGTGATCTTCT+TGG 0.430026 7.4:-14987105 None:intergenic
AATATCTGACCGGTCACGTT+AGG 0.431469 7.4:-14987230 None:intergenic
TGATCATGTCTGCCACAGTC+TGG 0.435485 7.4:-14987433 None:intergenic
CTTGAGAGTGATCTTCTTGG+TGG 0.435670 7.4:-14987102 None:intergenic
AACCTCAAAGGTTTCGTTGT+CGG 0.443158 7.4:-14987129 None:intergenic
AGGAACTGGGATTCCGTTGT+CGG 0.448853 7.4:-14987210 None:intergenic
GATTCAAGTGCCACAGCCTC+GGG 0.453635 7.4:-14987152 None:intergenic
TTCCGACAACGAAACCTTTG+AGG 0.470820 7.4:+14987127 MS.gene055944:CDS
CGATTCAAGTGCCACAGCCT+CGG 0.485929 7.4:-14987153 None:intergenic
CATGTCTGCCACAGTCTGGC+AGG 0.496105 7.4:-14987429 None:intergenic
CTTTGAGGTTCCCGAGGCTG+TGG 0.504428 7.4:+14987142 MS.gene055944:CDS
GACCGGTCACGTTAGGAACT+GGG 0.517391 7.4:-14987223 None:intergenic
TTCTTAAGATCGTCTTCTGA+AGG 0.528136 7.4:-14987311 None:intergenic
CTGTGGCAGACATGATCAAA+GGG 0.535149 7.4:+14987438 MS.gene055944:CDS
TGAATTCGTGAATGTTGATC+AGG 0.537071 7.4:+14987343 MS.gene055944:CDS
AATTCGTAAGGAAAACCAAT+GGG 0.537673 7.4:+14987529 MS.gene055944:CDS
AATTTCTGACGAATTTGCTC+CGG 0.551209 7.4:-14987467 None:intergenic
ATCCCAGTTCCTAACGTGAC+CGG 0.555556 7.4:+14987221 MS.gene055944:CDS
TGATTCATTCAAAAGCCCAT+TGG 0.556289 7.4:-14987544 None:intergenic
CACAGCCTCGGGAACCTCAA+AGG 0.556606 7.4:-14987141 None:intergenic
CACCTTCGCCAATATCTGAC+CGG 0.557441 7.4:-14987240 None:intergenic
GAGGACAATTGCACCGACAA+CGG 0.563633 7.4:+14987197 MS.gene055944:CDS
GACGATCAAGCACATGATCG+AGG 0.578464 7.4:+14987178 MS.gene055944:CDS
ACTGTGGCAGACATGATCAA+AGG 0.589851 7.4:+14987437 MS.gene055944:CDS
AAATTCGTAAGGAAAACCAA+TGG 0.592142 7.4:+14987528 MS.gene055944:CDS
CGAAACCTTTGAGGTTCCCG+AGG 0.621372 7.4:+14987136 MS.gene055944:CDS
GACCGGTCAGATATTGGCGA+AGG 0.633811 7.4:+14987238 MS.gene055944:CDS
CAAGAATGATTTCACTCCAG+AGG 0.644538 7.4:+14987496 MS.gene055944:CDS
GGATCTTACCTGCCAGACTG+TGG 0.651686 7.4:+14987421 MS.gene055944:CDS
CATGATCAAAGGGAAGACAC+CGG 0.704151 7.4:+14987448 MS.gene055944:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATTCGTAAGGAAAACCAA+TGG + chr7.4:14987528-14987547 MS.gene055944:CDS 30.0%
AATTCGTAAGGAAAACCAAT+GGG + chr7.4:14987529-14987548 MS.gene055944:CDS 30.0%
AGAAGACGATCTTAAGAATT+GGG + chr7.4:14987316-14987335 MS.gene055944:CDS 30.0%
CTTGAATATCAAAAGTCTAC+TGG + chr7.4:14987400-14987419 MS.gene055944:CDS 30.0%
CAGAAGACGATCTTAAGAAT+TGG + chr7.4:14987315-14987334 MS.gene055944:CDS 35.0%
GGAAGAAGCAAAAATTCGTA+AGG + chr7.4:14987517-14987536 MS.gene055944:CDS 35.0%
TGAATTCGTGAATGTTGATC+AGG + chr7.4:14987343-14987362 MS.gene055944:CDS 35.0%
TTCTTAAGATCGTCTTCTGA+AGG - chr7.4:14987314-14987333 None:intergenic 35.0%
! AATTTCTGACGAATTTGCTC+CGG - chr7.4:14987470-14987489 None:intergenic 35.0%
!! GTCTTCTGAAGGTTTTTCAT+CGG - chr7.4:14987303-14987322 None:intergenic 35.0%
AACCTCAAAGGTTTCGTTGT+CGG - chr7.4:14987132-14987151 None:intergenic 40.0%
ACTCTTGAGAGTGATCTTCT+TGG - chr7.4:14987108-14987127 None:intergenic 40.0%
CAAGAATGATTTCACTCCAG+AGG + chr7.4:14987496-14987515 MS.gene055944:CDS 40.0%
! CGAATTTTTGCTTCTTCCTC+TGG - chr7.4:14987515-14987534 None:intergenic 40.0%
AATATCTGACCGGTCACGTT+AGG - chr7.4:14987233-14987252 None:intergenic 45.0%
ACTGTGGCAGACATGATCAA+AGG + chr7.4:14987437-14987456 MS.gene055944:CDS 45.0%
CATGATCAAAGGGAAGACAC+CGG + chr7.4:14987448-14987467 MS.gene055944:CDS 45.0%
CTGTGGCAGACATGATCAAA+GGG + chr7.4:14987438-14987457 MS.gene055944:CDS 45.0%
CTTGAGAGTGATCTTCTTGG+TGG - chr7.4:14987105-14987124 None:intergenic 45.0%
TAACGTGACCGGTCAGATAT+TGG + chr7.4:14987232-14987251 MS.gene055944:CDS 45.0%
TTCCGACAACGAAACCTTTG+AGG + chr7.4:14987127-14987146 MS.gene055944:CDS 45.0%
! AGGTTTTTCATCGGAACTCG+CGG - chr7.4:14987294-14987313 None:intergenic 45.0%
AGGAACTGGGATTCCGTTGT+CGG - chr7.4:14987213-14987232 None:intergenic 50.0%
ATCCCAGTTCCTAACGTGAC+CGG + chr7.4:14987221-14987240 MS.gene055944:CDS 50.0%
CACCTTCGCCAATATCTGAC+CGG - chr7.4:14987243-14987262 None:intergenic 50.0%
GACGATCAAGCACATGATCG+AGG + chr7.4:14987178-14987197 MS.gene055944:CDS 50.0%
TGATCATGTCTGCCACAGTC+TGG - chr7.4:14987436-14987455 None:intergenic 50.0%
! GAGGACAATTGCACCGACAA+CGG + chr7.4:14987197-14987216 MS.gene055944:CDS 50.0%
CGATTCAAGTGCCACAGCCT+CGG - chr7.4:14987156-14987175 None:intergenic 55.0%
GACCGGTCACGTTAGGAACT+GGG - chr7.4:14987226-14987245 None:intergenic 55.0%
GACCGGTCAGATATTGGCGA+AGG + chr7.4:14987238-14987257 MS.gene055944:CDS 55.0%
GATTCAAGTGCCACAGCCTC+GGG - chr7.4:14987155-14987174 None:intergenic 55.0%
GGATCTTACCTGCCAGACTG+TGG + chr7.4:14987421-14987440 MS.gene055944:CDS 55.0%
TGACCGGTCACGTTAGGAAC+TGG - chr7.4:14987227-14987246 None:intergenic 55.0%
!! CGAAACCTTTGAGGTTCCCG+AGG + chr7.4:14987136-14987155 MS.gene055944:CDS 55.0%
CACAGCCTCGGGAACCTCAA+AGG - chr7.4:14987144-14987163 None:intergenic 60.0%
CATGTCTGCCACAGTCTGGC+AGG - chr7.4:14987432-14987451 None:intergenic 60.0%
!! CTTTGAGGTTCCCGAGGCTG+TGG + chr7.4:14987142-14987161 MS.gene055944:CDS 60.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 14987092 14987562 14987092 ID=MS.gene055944
chr7.4 mRNA 14987092 14987562 14987092 ID=MS.gene055944.t1;Parent=MS.gene055944
chr7.4 exon 14987092 14987562 14987092 ID=MS.gene055944.t1.exon1;Parent=MS.gene055944.t1
chr7.4 CDS 14987092 14987562 14987092 ID=cds.MS.gene055944.t1;Parent=MS.gene055944.t1
Gene Sequence

>MS.gene055944

ATGTCTTCAACCACCAAGAAGATCACTCTCAAGAGTTCCGACAACGAAACCTTTGAGGTTCCCGAGGCTGTGGCACTTGAATCGCAGACGATCAAGCACATGATCGAGGACAATTGCACCGACAACGGAATCCCAGTTCCTAACGTGACCGGTCAGATATTGGCGAAGGTGATTGAATACTGTAAGAAACATGTTGATGCCGCGAGTTCCGATGAAAAACCTTCAGAAGACGATCTTAAGAATTGGGATGCTGAATTCGTGAATGTTGATCAGGCTACGCTTTTCGATCTCATTCTTGCTGCAAATTACTTGAATATCAAAAGTCTACTGGATCTTACCTGCCAGACTGTGGCAGACATGATCAAAGGGAAGACACCGGAGCAAATTCGTCAGAAATTTAACATCAAGAATGATTTCACTCCAGAGGAAGAAGCAAAAATTCGTAAGGAAAACCAATGGGCTTTTGAATGA
Protein sequence

>MS.gene055944.t1

MSSTTKKITLKSSDNETFEVPEAVALESQTIKHMIEDNCTDNGIPVPNVTGQILAKVIEYCKKHVDAASSDEKPSEDDLKNWDAEFVNVDQATLFDLILAANYLNIKSLLDLTCQTVADMIKGKTPEQIRQKFNIKNDFTPEEEAKIRKENQWAFE