AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene48712

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48712.t1 MTR_4g031910 89.888 178 18 0 4 181 3 180 6.28e-113 321
MS.gene48712.t1 MTR_4g032290 85.185 189 28 0 4 192 3 191 2.44e-108 310
MS.gene48712.t1 MTR_4g032260 81.169 154 29 0 4 157 3 156 4.44e-82 240
MS.gene48712.t1 MTR_8g036130 67.380 187 54 3 4 186 3 186 4.60e-80 238
MS.gene48712.t1 MTR_4g032620 59.896 192 63 4 1 192 1 178 3.81e-72 218
MS.gene48712.t1 MTR_3g065100 62.025 158 59 1 4 161 3 159 4.46e-60 187
MS.gene48712.t1 MTR_3g466980 54.248 153 69 1 4 156 3 154 2.13e-58 182
MS.gene48712.t1 MTR_2g035610 72.500 120 33 0 4 123 3 122 3.55e-50 158
MS.gene48712.t1 MTR_3g466830 45.342 161 87 1 4 164 2 161 8.76e-46 149
MS.gene48712.t1 MTR_5g075380 45.333 150 81 1 6 155 5 153 1.14e-43 143
MS.gene48712.t1 MTR_4g063790 40.491 163 97 0 4 166 3 165 2.12e-41 137
MS.gene48712.t1 MTR_3g466890 42.767 159 90 1 4 162 2 159 2.93e-41 137
MS.gene48712.t1 MTR_5g047580 45.455 154 82 2 4 157 3 154 1.67e-40 135
MS.gene48712.t1 MTR_3g031100 42.038 157 90 1 1 157 1 156 1.56e-39 135
MS.gene48712.t1 MTR_2g016210 41.447 152 89 0 6 157 5 156 3.42e-39 134
MS.gene48712.t1 MTR_3g467080 39.610 154 93 0 4 157 3 156 1.25e-37 128
MS.gene48712.t1 MTR_1g077390 40.909 154 89 2 4 157 3 154 3.45e-36 124
MS.gene48712.t1 MTR_1g090783 40.260 154 90 2 4 157 2 153 5.01e-36 123
MS.gene48712.t1 MTR_1g090710 40.252 159 93 2 1 159 1 157 1.07e-35 122
MS.gene48712.t1 MTR_1g090697 40.385 156 91 2 4 159 3 156 2.99e-35 121
MS.gene48712.t1 MTR_7g011950 43.506 154 85 2 4 157 3 154 1.15e-33 117
MS.gene48712.t1 MTR_1g077320 43.506 154 85 2 4 157 3 154 1.24e-33 117
MS.gene48712.t1 MTR_1g084950 44.156 154 84 2 4 157 3 154 1.32e-33 117
MS.gene48712.t1 MTR_3g465410 39.416 137 83 0 30 166 1 137 4.08e-32 113
MS.gene48712.t1 MTR_4g028720 42.208 154 87 2 4 157 3 154 4.89e-32 113
MS.gene48712.t1 MTR_4g028800 77.273 66 13 1 6 71 5 68 1.25e-30 107
MS.gene48712.t1 MTR_1g077300 42.767 159 87 2 4 162 3 157 1.32e-30 109
MS.gene48712.t1 MTR_3g466900 39.231 130 78 1 33 162 2 130 2.23e-30 108
MS.gene48712.t1 MTR_3g031240 33.333 159 105 1 1 159 1 158 8.03e-30 108
MS.gene48712.t1 MTR_3g466930 36.923 130 81 1 33 162 2 130 3.66e-28 102
MS.gene48712.t1 MTR_7g055800 49.573 117 31 2 4 120 3 91 9.24e-28 100
MS.gene48712.t1 MTR_7g106510 38.462 156 80 2 3 158 5 144 2.97e-27 107
MS.gene48712.t1 MTR_4g019670 39.103 156 79 2 3 158 5 144 5.40e-27 107
MS.gene48712.t1 MTR_3g093900 30.645 186 118 2 3 188 5 179 6.38e-26 103
MS.gene48712.t1 MTR_2g035590 59.794 97 38 1 75 170 1 97 1.79e-25 94.7
MS.gene48712.t1 MTR_7g055790 53.211 109 33 1 4 112 61 151 6.50e-25 95.1
MS.gene48712.t1 MTR_2g035580 35.099 151 97 1 7 157 6 155 7.97e-25 95.1
MS.gene48712.t1 MTR_7g055940 48.077 104 26 2 4 107 3 78 3.90e-22 85.9
MS.gene48712.t1 MTR_5g047560 35.714 154 81 3 4 157 3 138 5.82e-22 87.0
MS.gene48712.t1 MTR_4g032270 39.796 98 38 2 95 192 2 78 2.47e-15 69.7
MS.gene48712.t1 MTR_6g018920 35.965 114 65 5 1 108 1 112 2.96e-12 64.3
MS.gene48712.t1 MTR_6g005450 35.965 114 65 5 1 108 1 112 3.27e-12 64.3
MS.gene48712.t1 MTR_1g114730 33.333 114 68 4 1 108 1 112 6.07e-12 63.5
MS.gene48712.t1 MTR_4g084780 57.692 52 22 0 75 126 1 52 6.94e-12 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene48712.t1 AT5G48670 53.797 158 72 1 4 161 3 159 4.46e-47 157
MS.gene48712.t1 AT1G65300 41.304 184 94 3 4 187 2 171 6.83e-43 145
MS.gene48712.t1 AT1G65330 41.622 185 94 2 4 188 2 172 5.88e-42 142
MS.gene48712.t1 AT5G26630 47.500 160 83 1 4 163 3 161 5.53e-38 130
MS.gene48712.t1 AT5G26650 40.244 164 97 1 6 169 3 165 5.05e-36 129
MS.gene48712.t1 AT5G27960 39.634 164 98 1 6 169 3 165 3.05e-35 126
MS.gene48712.t1 AT1G31630 35.165 182 103 3 4 185 2 168 4.94e-35 126
MS.gene48712.t1 AT1G31640 39.073 151 90 2 4 154 2 150 5.54e-32 120
MS.gene48712.t1 AT5G27810 54.839 93 42 0 30 122 1 93 9.23e-32 111
MS.gene48712.t1 AT3G05860 39.865 148 88 1 4 151 3 149 2.93e-31 113
MS.gene48712.t1 AT3G05860 39.865 148 88 1 4 151 3 149 1.41e-30 112
MS.gene48712.t1 AT3G05860 39.865 148 88 1 4 151 3 149 1.69e-30 112
MS.gene48712.t1 AT2G28700 34.826 201 115 4 4 191 3 200 9.63e-29 109
MS.gene48712.t1 AT5G26580 36.538 156 83 4 1 156 1 140 9.57e-26 101
MS.gene48712.t1 AT1G22590 31.847 157 102 2 1 157 1 152 1.35e-25 97.4
MS.gene48712.t1 AT5G06500 34.868 152 97 2 4 155 3 152 1.71e-19 83.2
MS.gene48712.t1 AT2G40210 39.098 133 79 2 4 135 3 134 6.89e-18 80.5
MS.gene48712.t1 AT5G58890 39.370 127 66 5 7 124 6 130 9.47e-17 76.6
MS.gene48712.t1 AT5G55690 43.750 80 35 4 1 72 1 78 9.58e-13 65.5
MS.gene48712.t1 AT5G55690 43.750 80 35 4 1 72 1 78 9.58e-13 65.5
MS.gene48712.t1 AT2G15660 26.115 157 91 4 1 151 1 138 6.11e-11 60.1

Find 42 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAACAAAGAAAAGAAAAT+AGG 0.231520 4.4:-72032311 MS.gene48712:CDS
TCAATTTCTCTTCAGCCTTC+AGG 0.259829 4.4:+72032334 None:intergenic
AACGAAGGGTCTATTGAAAA+AGG 0.335070 4.4:-72032544 MS.gene48712:CDS
ATGAGTCTCAACCTGAGATT+TGG 0.343685 4.4:-72032464 MS.gene48712:CDS
TTGCCATTTCGAGTTGGACT+TGG 0.402057 4.4:+72032106 None:intergenic
GAAACAAAGAAAAGAAAATA+GGG 0.419680 4.4:-72032310 MS.gene48712:CDS
AAACCAAGTCCAACTCGAAA+TGG 0.452175 4.4:-72032109 MS.gene48712:CDS
AACCTTACTTCTTCTACCCA+TGG 0.464315 4.4:+72032620 None:intergenic
CTCATAAGGTCCATACACTA+TGG 0.471362 4.4:+72032482 None:intergenic
GTTGATTGACCACAATTTGA+AGG 0.487410 4.4:-72032193 MS.gene48712:CDS
TCTGGTAAAGGCCAAATCTC+AGG 0.493519 4.4:+72032453 None:intergenic
AACCATGGGTAGAAGAAGTA+AGG 0.501192 4.4:-72032622 None:intergenic
TGGATATGAGTTATCTTGCT+TGG 0.509186 4.4:-72032215 MS.gene48712:CDS
TGCAACATCATTGACAATGA+AGG 0.517037 4.4:+72032590 None:intergenic
ATGAGTCAATGTCTTAATGA+AGG 0.517500 4.4:-72032267 MS.gene48712:CDS
CAATGATCAAAATCAAATCA+TGG 0.521352 4.4:-72032139 MS.gene48712:CDS
CACCACTTCTAGCAGCATCT+AGG 0.525777 4.4:-72032071 MS.gene48712:CDS
TTTGTGTCAAGAAAGTCTCT+TGG 0.525855 4.4:+72032361 None:intergenic
AGAGACTTTCTTGACACAAA+GGG 0.533444 4.4:-72032358 MS.gene48712:CDS
GAAGCCTGTGCCATAGTGTA+TGG 0.533456 4.4:-72032492 MS.gene48712:CDS
TTAGTAGACGTTTAGAAGCA+TGG 0.538822 4.4:-72032167 MS.gene48712:CDS
GATTTGGCCTTTACCAGAGG+GGG 0.545213 4.4:-72032448 MS.gene48712:CDS
TACTAACATCCTTCAAATTG+TGG 0.547844 4.4:+72032184 None:intergenic
TAGTAGACGTTTAGAAGCAT+GGG 0.548876 4.4:-72032166 MS.gene48712:CDS
ATCTCAGGTTGAGACTCATA+AGG 0.549357 4.4:+72032468 None:intergenic
GAGATTTGGCCTTTACCAGA+GGG 0.564008 4.4:-72032450 MS.gene48712:CDS
CTTGACACAAAGGGTCCTGA+AGG 0.570745 4.4:-72032349 MS.gene48712:CDS
CTCCTAGATGCTGCTAGAAG+TGG 0.571630 4.4:+72032069 None:intergenic
TTGTTGTTGCCATTTCGAGT+TGG 0.582395 4.4:+72032100 None:intergenic
TCATTGTCAATGATGTTGCA+AGG 0.595963 4.4:-72032587 MS.gene48712:CDS
ACAGGCTTCAATGCCACAGA+GGG 0.601811 4.4:+72032506 None:intergenic
CTAGATGCTGCTAGAAGTGG+TGG 0.605478 4.4:+72032072 None:intergenic
ATCATACAAGAAAAGAACGA+AGG 0.618898 4.4:-72032559 MS.gene48712:CDS
TCATACAAGAAAAGAACGAA+GGG 0.620354 4.4:-72032558 MS.gene48712:CDS
AAGAGACTTTCTTGACACAA+AGG 0.620991 4.4:-72032359 MS.gene48712:CDS
TGAGATTTGGCCTTTACCAG+AGG 0.627166 4.4:-72032451 MS.gene48712:CDS
GATGCTGCTAGAAGTGGTGG+TGG 0.633563 4.4:+72032075 None:intergenic
AGGTCCATACACTATGGCAC+AGG 0.635258 4.4:+72032488 None:intergenic
AGATTTGGCCTTTACCAGAG+GGG 0.656413 4.4:-72032449 MS.gene48712:CDS
GCATGACAATATGTCAACAA+TGG 0.671130 4.4:-72032235 MS.gene48712:CDS
GCTGAACTTAGCACCCTCTG+TGG 0.677042 4.4:-72032519 MS.gene48712:CDS
CACAGGCTTCAATGCCACAG+AGG 0.696692 4.4:+72032505 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAACAAAGAAAAGAAAAT+AGG - chr4.4:72032369-72032388 MS.gene48712:CDS 20.0%
!! GAAACAAAGAAAAGAAAATA+GGG - chr4.4:72032370-72032389 MS.gene48712:CDS 20.0%
! CAATGATCAAAATCAAATCA+TGG - chr4.4:72032541-72032560 MS.gene48712:CDS 25.0%
ATCATACAAGAAAAGAACGA+AGG - chr4.4:72032121-72032140 MS.gene48712:CDS 30.0%
ATGAGTCAATGTCTTAATGA+AGG - chr4.4:72032413-72032432 MS.gene48712:CDS 30.0%
TACTAACATCCTTCAAATTG+TGG + chr4.4:72032499-72032518 None:intergenic 30.0%
TCATACAAGAAAAGAACGAA+GGG - chr4.4:72032122-72032141 MS.gene48712:CDS 30.0%
AACGAAGGGTCTATTGAAAA+AGG - chr4.4:72032136-72032155 MS.gene48712:CDS 35.0%
AAGAGACTTTCTTGACACAA+AGG - chr4.4:72032321-72032340 MS.gene48712:CDS 35.0%
AGAGACTTTCTTGACACAAA+GGG - chr4.4:72032322-72032341 MS.gene48712:CDS 35.0%
GCATGACAATATGTCAACAA+TGG - chr4.4:72032445-72032464 MS.gene48712:CDS 35.0%
GTTGATTGACCACAATTTGA+AGG - chr4.4:72032487-72032506 MS.gene48712:CDS 35.0%
TCATTGTCAATGATGTTGCA+AGG - chr4.4:72032093-72032112 MS.gene48712:CDS 35.0%
TGCAACATCATTGACAATGA+AGG + chr4.4:72032093-72032112 None:intergenic 35.0%
TGGATATGAGTTATCTTGCT+TGG - chr4.4:72032465-72032484 MS.gene48712:CDS 35.0%
TTAGTAGACGTTTAGAAGCA+TGG - chr4.4:72032513-72032532 MS.gene48712:CDS 35.0%
TTTGTGTCAAGAAAGTCTCT+TGG + chr4.4:72032322-72032341 None:intergenic 35.0%
! TAGTAGACGTTTAGAAGCAT+GGG - chr4.4:72032514-72032533 MS.gene48712:CDS 35.0%
!! TGAATTTTGAGAGCACAGAT+TGG + chr4.4:72032259-72032278 None:intergenic 35.0%
AAACCAAGTCCAACTCGAAA+TGG - chr4.4:72032571-72032590 MS.gene48712:CDS 40.0%
ATGAGTCTCAACCTGAGATT+TGG - chr4.4:72032216-72032235 MS.gene48712:CDS 40.0%
CTCATAAGGTCCATACACTA+TGG + chr4.4:72032201-72032220 None:intergenic 40.0%
TCAATTTCTCTTCAGCCTTC+AGG + chr4.4:72032349-72032368 None:intergenic 40.0%
! TTGTTGTTGCCATTTCGAGT+TGG + chr4.4:72032583-72032602 None:intergenic 40.0%
!! ATCTCAGGTTGAGACTCATA+AGG + chr4.4:72032215-72032234 None:intergenic 40.0%
TCTGGTAAAGGCCAAATCTC+AGG + chr4.4:72032230-72032249 None:intergenic 45.0%
! AGATTTGGCCTTTACCAGAG+GGG - chr4.4:72032231-72032250 MS.gene48712:CDS 45.0%
! GAGATTTGGCCTTTACCAGA+GGG - chr4.4:72032230-72032249 MS.gene48712:CDS 45.0%
! TGAGATTTGGCCTTTACCAG+AGG - chr4.4:72032229-72032248 MS.gene48712:CDS 45.0%
!! TTGCCATTTCGAGTTGGACT+TGG + chr4.4:72032577-72032596 None:intergenic 45.0%
ACAGGCTTCAATGCCACAGA+GGG + chr4.4:72032177-72032196 None:intergenic 50.0%
AGGTCCATACACTATGGCAC+AGG + chr4.4:72032195-72032214 None:intergenic 50.0%
CACCACTTCTAGCAGCATCT+AGG - chr4.4:72032609-72032628 MS.gene48712:CDS 50.0%
CTAGATGCTGCTAGAAGTGG+TGG + chr4.4:72032611-72032630 None:intergenic 50.0%
CTCCTAGATGCTGCTAGAAG+TGG + chr4.4:72032614-72032633 None:intergenic 50.0%
CTTGACACAAAGGGTCCTGA+AGG - chr4.4:72032331-72032350 MS.gene48712:CDS 50.0%
GAAGCCTGTGCCATAGTGTA+TGG - chr4.4:72032188-72032207 MS.gene48712:CDS 50.0%
! GATTTGGCCTTTACCAGAGG+GGG - chr4.4:72032232-72032251 MS.gene48712:CDS 50.0%
CACAGGCTTCAATGCCACAG+AGG + chr4.4:72032178-72032197 None:intergenic 55.0%
GATGCTGCTAGAAGTGGTGG+TGG + chr4.4:72032608-72032627 None:intergenic 55.0%
GATTGGACCCCCTCTGGTAA+AGG + chr4.4:72032242-72032261 None:intergenic 55.0%
GCTGAACTTAGCACCCTCTG+TGG - chr4.4:72032161-72032180 MS.gene48712:CDS 55.0%
AGCACAGATTGGACCCCCTC+TGG + chr4.4:72032248-72032267 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 72032062 72032640 72032062 ID=MS.gene48712
chr4.4 mRNA 72032062 72032640 72032062 ID=MS.gene48712.t1;Parent=MS.gene48712
chr4.4 exon 72032062 72032640 72032062 ID=MS.gene48712.t1.exon1;Parent=MS.gene48712.t1
chr4.4 CDS 72032062 72032640 72032062 ID=cds.MS.gene48712.t1;Parent=MS.gene48712.t1
Gene Sequence

>MS.gene48712

ATGGGTAGAAGAAGTAAGGTTAAACTTGCCTTCATTGTCAATGATGTTGCAAGGAAAGCATCATACAAGAAAAGAACGAAGGGTCTATTGAAAAAGGTTGCTGAACTTAGCACCCTCTGTGGCATTGAAGCCTGTGCCATAGTGTATGGACCTTATGAGTCTCAACCTGAGATTTGGCCTTTACCAGAGGGGGTCCAATCTGTGCTCTCAAAATTCATGACGATGCACGAGTTTCAAAAGTGCAAGAAAATGATGAACCAAGAGACTTTCTTGACACAAAGGGTCCTGAAGGCTGAAGAGAAATTGAAGAAACAAAGAAAAGAAAATAGGGAGCAAGAGATGACAATACTCATGAGTCAATGTCTTAATGAAGGTAAAGTTGTGCATGACAATATGTCAACAATGGATATGAGTTATCTTGCTTGGTTGATTGACCACAATTTGAAGGATGTTAGTAGACGTTTAGAAGCATGGGATAACAATGATCAAAATCAAATCATGGCTATTCAAAACCAAGTCCAACTCGAAATGGCAACAACAATACCACCACCACTTCTAGCAGCATCTAGGAGTGAATAA
Protein sequence

>MS.gene48712.t1

MGRRSKVKLAFIVNDVARKASYKKRTKGLLKKVAELSTLCGIEACAIVYGPYESQPEIWPLPEGVQSVLSKFMTMHEFQKCKKMMNQETFLTQRVLKAEEKLKKQRKENREQEMTILMSQCLNEGKVVHDNMSTMDMSYLAWLIDHNLKDVSRRLEAWDNNDQNQIMAIQNQVQLEMATTIPPPLLAASRSE