AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46434


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46434.t1 MTR_1g056370 91.398 186 16 0 1 186 1 186 1.85e-125 351
MS.gene46434.t1 MTR_4g013330 48.052 154 76 2 36 186 47 199 1.87e-48 156
MS.gene46434.t1 MTR_4g078885 46.703 182 89 5 4 185 11 184 3.64e-48 155
MS.gene46434.t1 MTR_4g013320 45.238 168 84 4 22 186 37 199 2.41e-47 154
MS.gene46434.t1 MTR_3g034030 45.902 183 91 4 6 185 7 184 7.41e-47 152
MS.gene46434.t1 MTR_4g013350 47.059 153 77 3 36 186 47 197 5.72e-46 150
MS.gene46434.t1 MTR_4g013345 45.752 153 79 3 36 186 46 196 1.70e-45 149
MS.gene46434.t1 MTR_7g093830 43.850 187 91 5 2 186 19 193 5.20e-45 147
MS.gene46434.t1 MTR_7g093790 39.894 188 100 4 1 186 15 191 7.49e-45 147
MS.gene46434.t1 MTR_7g093820 46.203 158 82 3 31 186 38 194 1.12e-44 146
MS.gene46434.t1 MTR_4g013325 45.205 146 78 2 42 186 55 199 1.28e-44 146
MS.gene46434.t1 MTR_7g093850 43.316 187 92 5 2 186 20 194 1.32e-44 146
MS.gene46434.t1 MTR_1g054525 46.053 152 78 3 36 186 44 192 8.49e-43 142
MS.gene46434.t1 MTR_4g013385 40.642 187 98 5 7 186 10 190 2.26e-42 140
MS.gene46434.t1 MTR_0433s0040 40.642 187 98 5 7 186 10 190 2.26e-42 140
MS.gene46434.t1 MTR_4g013335 43.046 151 84 2 36 186 48 196 3.90e-42 140
MS.gene46434.t1 MTR_4g013770 45.860 157 79 5 32 185 37 190 7.85e-42 139
MS.gene46434.t1 MTR_4g073950 40.645 155 89 2 34 186 39 192 9.04e-42 139
MS.gene46434.t1 MTR_7g070390 41.711 187 100 4 7 186 8 192 1.68e-41 138
MS.gene46434.t1 MTR_3g105640 39.572 187 104 3 6 186 5 188 7.02e-40 134
MS.gene46434.t1 MTR_4g013310 42.667 150 82 3 38 186 51 197 4.55e-39 132
MS.gene46434.t1 MTR_3g105630 41.053 190 101 4 3 186 5 189 1.33e-38 131
MS.gene46434.t1 MTR_7g093870 41.615 161 89 2 31 186 33 193 3.25e-37 128
MS.gene46434.t1 MTR_5g096120 36.667 150 91 1 41 186 40 189 1.88e-33 117
MS.gene46434.t1 MTR_4g013355 37.908 153 83 3 35 186 38 179 2.55e-29 107
MS.gene46434.t1 MTR_4g122110 36.242 149 89 3 41 186 35 180 2.05e-24 94.4
MS.gene46434.t1 MTR_4g122130 35.811 148 91 3 41 186 35 180 2.99e-22 89.0
MS.gene46434.t1 MTR_4g049550 29.032 155 108 2 30 183 22 175 2.32e-19 81.3
MS.gene46434.t1 MTR_4g049570 33.566 143 91 3 43 183 35 175 1.22e-18 79.3
MS.gene46434.t1 MTR_8g099115 34.848 132 75 5 43 165 39 168 6.17e-14 67.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46434.t1 AT1G65870 50.000 152 72 3 36 185 40 189 3.40e-48 155
MS.gene46434.t1 AT3G13650 41.711 187 97 6 4 186 8 186 2.22e-47 153
MS.gene46434.t1 AT5G42510 48.344 151 74 3 36 185 35 182 3.60e-46 150
MS.gene46434.t1 AT5G42500 49.007 151 73 3 36 185 38 185 4.59e-45 147
MS.gene46434.t1 AT1G58170 43.671 158 85 3 31 186 30 185 3.39e-44 145
MS.gene46434.t1 AT1G22900 49.007 151 73 3 36 185 46 193 4.20e-44 145
MS.gene46434.t1 AT1G55210 46.405 153 75 4 36 186 40 187 2.86e-43 143
MS.gene46434.t1 AT1G55210 46.405 153 75 4 36 186 40 187 2.86e-43 143
MS.gene46434.t1 AT2G21100 42.466 146 82 2 41 185 43 187 2.75e-40 135
MS.gene46434.t1 AT2G21100 42.466 146 82 2 41 185 43 187 2.75e-40 135
MS.gene46434.t1 AT5G49040 39.634 164 95 3 24 186 31 191 1.32e-39 134
MS.gene46434.t1 AT3G13662 43.165 139 74 3 36 173 38 172 9.59e-36 123
MS.gene46434.t1 AT3G58090 47.101 138 63 3 53 185 139 271 4.88e-33 119
MS.gene46434.t1 AT2G21110 37.805 164 96 2 28 186 24 186 1.13e-32 115
MS.gene46434.t1 AT5G49030 43.511 131 72 2 36 165 41 170 2.65e-31 119
MS.gene46434.t1 AT3G13660 42.105 114 65 1 73 186 13 125 6.40e-31 109
MS.gene46434.t1 AT4G38700 35.897 156 92 4 38 186 36 190 1.78e-26 100
MS.gene46434.t1 AT4G23690 35.878 131 77 5 35 161 35 162 5.89e-17 75.1
MS.gene46434.t1 AT1G64160 33.898 118 71 4 46 159 41 155 1.56e-14 68.6
MS.gene46434.t1 AT4G11190 33.884 121 73 5 45 161 41 158 1.78e-13 65.9
MS.gene46434.t1 AT4G11210 30.488 164 108 5 2 165 5 162 2.92e-13 65.5

Find 43 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATAAGCTCTGAACTTAAATT+TGG 0.164549 1.2:+44401224 None:intergenic
GAATCATTTCATGGTCCTTT+TGG 0.201390 1.2:-44401284 MS.gene46434:CDS
AAATTTGGTTCTTTAGTTAA+AGG 0.202826 1.2:+44401239 None:intergenic
ATGCTTTGGCTAAGACTATT+TGG 0.206020 1.2:-44401004 MS.gene46434:CDS
TTTCTGAGAGTAAACTTATA+TGG 0.219169 1.2:+44401399 None:intergenic
GGTGAGGCTGCTCCCTTTGT+AGG 0.246807 1.2:+44401112 None:intergenic
GCTTGGGAGGAATGTTATTA+TGG 0.306263 1.2:-44401087 MS.gene46434:CDS
AAGAAGCAAGAGGCTGAAAA+TGG 0.322317 1.2:+44401475 None:intergenic
AATTTAAGTTCAGAGCTTAT+TGG 0.325685 1.2:-44401221 MS.gene46434:CDS
AGCCCAAGGAACCTATTCTT+TGG 0.331068 1.2:-44401195 MS.gene46434:CDS
AATTTGGTTCTTTAGTTAAA+GGG 0.362691 1.2:+44401240 None:intergenic
ATTTGGTATAATTCTACATC+TGG 0.367460 1.2:-44400987 MS.gene46434:CDS
TTCTGAGAGTAAACTTATAT+GGG 0.374193 1.2:+44401400 None:intergenic
CCACCCAATGAATCATTTCA+TGG 0.398006 1.2:-44401293 MS.gene46434:CDS
AGGACCATGAAATGATTCAT+TGG 0.400816 1.2:+44401289 None:intergenic
ATTTGCAAGGGGTTATGCTT+TGG 0.411059 1.2:-44401018 MS.gene46434:CDS
ATGCCTATTGTTGGAGGAAC+TGG 0.412156 1.2:-44401050 MS.gene46434:CDS
AATTACTTCATGAGTGTTCA+AGG 0.435174 1.2:-44401446 MS.gene46434:CDS
GGGAGCAGCCTCACCATGCT+TGG 0.438720 1.2:-44401104 MS.gene46434:CDS
GCACCAGTTCCTCCAACAAT+AGG 0.444460 1.2:+44401047 None:intergenic
GTTAGAGAAATGCCTATTGT+TGG 0.446792 1.2:-44401059 MS.gene46434:CDS
AAGCCAAAGAATAGGTTCCT+TGG 0.451718 1.2:+44401192 None:intergenic
CATGAAAATAAAAGTGTAAG+TGG 0.459702 1.2:+44401360 None:intergenic
AGCCAAAGAATAGGTTCCTT+GGG 0.475806 1.2:+44401193 None:intergenic
GGACCATGAAATGATTCATT+GGG 0.484202 1.2:+44401290 None:intergenic
TTGTTGAGAAGCCAAAGAAT+AGG 0.495361 1.2:+44401184 None:intergenic
GGAGCAGCCTCACCATGCTT+GGG 0.516739 1.2:-44401103 MS.gene46434:CDS
TTTACAGCTGGAACCTACAA+AGG 0.527260 1.2:-44401125 MS.gene46434:CDS
AGAGAAATGCCTATTGTTGG+AGG 0.533145 1.2:-44401056 MS.gene46434:CDS
TTACAGCTGGAACCTACAAA+GGG 0.548749 1.2:-44401124 MS.gene46434:CDS
CTGGTGCTTTCAGATTTGCA+AGG 0.550900 1.2:-44401031 MS.gene46434:CDS
AGTATGTAAGTGGCTCCAAA+AGG 0.553653 1.2:+44401269 None:intergenic
TGGTGCTTTCAGATTTGCAA+GGG 0.553765 1.2:-44401030 MS.gene46434:CDS
CCATGAAATGATTCATTGGG+TGG 0.554764 1.2:+44401293 None:intergenic
AGGGTTGTCTAGTATGTAAG+TGG 0.563851 1.2:+44401259 None:intergenic
TATTCTTTGGCTTCTCAACA+AGG 0.573141 1.2:-44401182 MS.gene46434:CDS
ATGAAAATAAAAGTGTAAGT+GGG 0.573723 1.2:+44401361 None:intergenic
GAGCTTATTGGAAGAGCCCA+AGG 0.578477 1.2:-44401209 MS.gene46434:CDS
GCAGCCTCACCATGCTTGGG+AGG 0.595405 1.2:-44401100 MS.gene46434:CDS
AATAACATTCCTCCCAAGCA+TGG 0.596205 1.2:+44401091 None:intergenic
AATTACTGAAAAGAAGCAAG+AGG 0.621735 1.2:+44401465 None:intergenic
CATTCCTCCCAAGCATGGTG+AGG 0.641930 1.2:+44401096 None:intergenic
GGTGCTTTCAGATTTGCAAG+GGG 0.678373 1.2:-44401029 MS.gene46434:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAATTTGGTTCTTTAGTTAA+AGG + chr1.2:44401190-44401209 None:intergenic 20.0%
!!! AATTTGGTTCTTTAGTTAAA+GGG + chr1.2:44401189-44401208 None:intergenic 20.0%
!!! ATGAAAATAAAAGTGTAAGT+GGG + chr1.2:44401068-44401087 None:intergenic 20.0%
!!! ATTAATTTTGTTTTTACAGC+TGG - chr1.2:44401289-44401308 MS.gene46434:CDS 20.0%
! ATTTGGTATAATTCTACATC+TGG - chr1.2:44401439-44401458 MS.gene46434:CDS 25.0%
!! AATTTAAGTTCAGAGCTTAT+TGG - chr1.2:44401205-44401224 MS.gene46434:CDS 25.0%
!! CATGAAAATAAAAGTGTAAG+TGG + chr1.2:44401069-44401088 None:intergenic 25.0%
!! TTCTGAGAGTAAACTTATAT+GGG + chr1.2:44401029-44401048 None:intergenic 25.0%
!! TTTCTGAGAGTAAACTTATA+TGG + chr1.2:44401030-44401049 None:intergenic 25.0%
!!! ATAAGCTCTGAACTTAAATT+TGG + chr1.2:44401205-44401224 None:intergenic 25.0%
!!! TTGATAATTTTGAGTGTAGT+TGG + chr1.2:44401112-44401131 None:intergenic 25.0%
AATTACTGAAAAGAAGCAAG+AGG + chr1.2:44400964-44400983 None:intergenic 30.0%
AATTACTTCATGAGTGTTCA+AGG - chr1.2:44400980-44400999 MS.gene46434:CDS 30.0%
! TATTTTCATGACATCCTAGA+TGG - chr1.2:44401079-44401098 MS.gene46434:CDS 30.0%
AGGACCATGAAATGATTCAT+TGG + chr1.2:44401140-44401159 None:intergenic 35.0%
ATGCTTTGGCTAAGACTATT+TGG - chr1.2:44401422-44401441 MS.gene46434:CDS 35.0%
GGACCATGAAATGATTCATT+GGG + chr1.2:44401139-44401158 None:intergenic 35.0%
GTTAGAGAAATGCCTATTGT+TGG - chr1.2:44401367-44401386 MS.gene46434:CDS 35.0%
TTGTTGAGAAGCCAAAGAAT+AGG + chr1.2:44401245-44401264 None:intergenic 35.0%
! GAATCATTTCATGGTCCTTT+TGG - chr1.2:44401142-44401161 MS.gene46434:CDS 35.0%
! TATTCTTTGGCTTCTCAACA+AGG - chr1.2:44401244-44401263 MS.gene46434:CDS 35.0%
!!! TAGTTGGTTTTTCACCATCT+AGG + chr1.2:44401096-44401115 None:intergenic 35.0%
AAGAAGCAAGAGGCTGAAAA+TGG + chr1.2:44400954-44400973 None:intergenic 40.0%
AAGCCAAAGAATAGGTTCCT+TGG + chr1.2:44401237-44401256 None:intergenic 40.0%
AATAACATTCCTCCCAAGCA+TGG + chr1.2:44401338-44401357 None:intergenic 40.0%
AGAGAAATGCCTATTGTTGG+AGG - chr1.2:44401370-44401389 MS.gene46434:CDS 40.0%
AGCCAAAGAATAGGTTCCTT+GGG + chr1.2:44401236-44401255 None:intergenic 40.0%
AGGGTTGTCTAGTATGTAAG+TGG + chr1.2:44401170-44401189 None:intergenic 40.0%
AGTATGTAAGTGGCTCCAAA+AGG + chr1.2:44401160-44401179 None:intergenic 40.0%
ATTTGCAAGGGGTTATGCTT+TGG - chr1.2:44401408-44401427 MS.gene46434:CDS 40.0%
CCACCCAATGAATCATTTCA+TGG - chr1.2:44401133-44401152 MS.gene46434:CDS 40.0%
CCATGAAATGATTCATTGGG+TGG + chr1.2:44401136-44401155 None:intergenic 40.0%
GCTTGGGAGGAATGTTATTA+TGG - chr1.2:44401339-44401358 MS.gene46434:CDS 40.0%
TGGTGCTTTCAGATTTGCAA+GGG - chr1.2:44401396-44401415 MS.gene46434:CDS 40.0%
TTACAGCTGGAACCTACAAA+GGG - chr1.2:44401302-44401321 MS.gene46434:CDS 40.0%
TTTACAGCTGGAACCTACAA+AGG - chr1.2:44401301-44401320 MS.gene46434:CDS 40.0%
AGCCCAAGGAACCTATTCTT+TGG - chr1.2:44401231-44401250 MS.gene46434:CDS 45.0%
ATGCCTATTGTTGGAGGAAC+TGG - chr1.2:44401376-44401395 MS.gene46434:CDS 45.0%
CTGGTGCTTTCAGATTTGCA+AGG - chr1.2:44401395-44401414 MS.gene46434:CDS 45.0%
GGTGCTTTCAGATTTGCAAG+GGG - chr1.2:44401397-44401416 MS.gene46434:CDS 45.0%
GAGCTTATTGGAAGAGCCCA+AGG - chr1.2:44401217-44401236 MS.gene46434:CDS 50.0%
GCACCAGTTCCTCCAACAAT+AGG + chr1.2:44401382-44401401 None:intergenic 50.0%
CATTCCTCCCAAGCATGGTG+AGG + chr1.2:44401333-44401352 None:intergenic 55.0%
GGAGCAGCCTCACCATGCTT+GGG - chr1.2:44401323-44401342 MS.gene46434:CDS 60.0%
GGTGAGGCTGCTCCCTTTGT+AGG + chr1.2:44401317-44401336 None:intergenic 60.0%
GCAGCCTCACCATGCTTGGG+AGG - chr1.2:44401326-44401345 MS.gene46434:CDS 65.0%
GGGAGCAGCCTCACCATGCT+TGG - chr1.2:44401322-44401341 MS.gene46434:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 44400944 44401504 44400944 ID=MS.gene46434
chr1.2 mRNA 44400944 44401504 44400944 ID=MS.gene46434.t1;Parent=MS.gene46434
chr1.2 exon 44400944 44401504 44400944 ID=MS.gene46434.t1.exon1;Parent=MS.gene46434.t1
chr1.2 CDS 44400944 44401504 44400944 ID=cds.MS.gene46434.t1;Parent=MS.gene46434.t1
Gene Sequence

>MS.gene46434

ATGGTTTCCATTTTCAGCCTCTTGCTTCTTTTCAGTAATTACTTCATGAGTGTTCAAGGAAGAGTAGCGTCTTTAGAAGAATCCCATATAAGTTTACTCTCAGAAAAACTACAAAGTTTTACCCACTTACACTTTTATTTTCATGACATCCTAGATGGTGAAAAACCAACTACACTCAAAATTATCAATCCACCCAATGAATCATTTCATGGTCCTTTTGGAGCCACTTACATACTAGACAACCCTTTAACTAAAGAACCAAATTTAAGTTCAGAGCTTATTGGAAGAGCCCAAGGAACCTATTCTTTGGCTTCTCAACAAGGTGATTTTGCATTTAAGATCGATATTAATTTTGTTTTTACAGCTGGAACCTACAAAGGGAGCAGCCTCACCATGCTTGGGAGGAATGTTATTATGGATGAAGTTAGAGAAATGCCTATTGTTGGAGGAACTGGTGCTTTCAGATTTGCAAGGGGTTATGCTTTGGCTAAGACTATTTGGTATAATTCTACATCTGGAAATGCTATTGAAGAGTTTGATATTATAATTTTACATTTCTAA

Protein sequence

>MS.gene46434.t1

MVSIFSLLLLFSNYFMSVQGRVASLEESHISLLSEKLQSFTHLHFYFHDILDGEKPTTLKIINPPNESFHGPFGATYILDNPLTKEPNLSSELIGRAQGTYSLASQQGDFAFKIDINFVFTAGTYKGSSLTMLGRNVIMDEVREMPIVGGTGAFRFARGYALAKTIWYNSTSGNAIEEFDIIILHF