AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006983

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006983 MtrunA17_Chr2g0287761 98.462 195 3 0 1 195 1 195 9.69e-141 390
MsaG006983 MtrunA17_Chr1g0158941 48.544 206 85 2 1 185 87 292 1.14e-58 186
MsaG006983 MtrunA17_Chr0c01g0489461 45.596 193 95 2 1 183 195 387 1.31e-48 162
MsaG006983 MtrunA17_Chr3g0126381 43.500 200 70 5 30 186 1 200 2.18e-43 144
MsaG006983 MtrunA17_Chr3g0132471 38.660 194 102 5 1 181 116 305 1.06e-37 132
MsaG006983 MtrunA17_Chr1g0191571 39.791 191 108 3 1 184 136 326 4.33e-37 131
MsaG006983 MtrunA17_Chr7g0273081 39.572 187 108 3 1 183 116 301 1.98e-36 129
MsaG006983 MtrunA17_Chr8g0366551 37.931 174 105 2 1 172 124 296 5.33e-35 125
MsaG006983 MtrunA17_Chr8g0345871 43.548 186 96 2 1 185 181 358 2.32e-34 124
MsaG006983 MtrunA17_Chr5g0426851 36.170 188 115 3 1 183 100 287 4.70e-33 120
MsaG006983 MtrunA17_Chr8g0346161 29.518 166 105 3 1 166 290 443 5.67e-18 80.9
MsaG006983 MtrunA17_Chr8g0346151 26.506 166 109 4 1 164 278 432 2.90e-13 67.4
MsaG006983 MtrunA17_Chr3g0126361 81.250 32 6 0 1 32 101 132 3.44e-13 64.3
MsaG006983 MtrunA17_Chr7g0275821 25.140 179 109 3 1 177 251 406 3.01e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006983 AT3G06120.1 66.667 195 58 2 1 188 1 195 3.27e-83 245
MsaG006983 AT3G24140.2 45.545 202 90 3 1 186 197 394 8.06e-50 166
MsaG006983 AT3G24140.1 45.545 202 90 3 1 186 197 394 9.88e-50 166
MsaG006983 AT4G01460.1 42.553 188 103 3 1 185 115 300 5.31e-37 130
MsaG006983 AT4G01460.2 42.553 188 103 3 1 185 115 300 5.31e-37 130
MsaG006983 AT1G72210.1 37.368 190 106 4 1 183 125 308 1.44e-35 127
MsaG006983 AT2G46810.2 42.932 191 93 5 1 187 121 299 3.81e-35 125
MsaG006983 AT2G46810.3 42.932 191 93 5 1 187 181 359 1.26e-34 125
MsaG006983 AT2G46810.1 42.932 191 93 5 1 187 193 371 1.49e-34 125
MsaG006983 AT1G22490.1 36.216 185 114 3 1 184 115 296 9.81e-34 122
MsaG006983 AT2G46810.4 43.787 169 80 4 1 166 121 277 1.89e-31 116
MsaG006983 AT1G72210.2 36.628 172 97 3 1 166 125 290 2.17e-31 116
MsaG006983 AT3G61950.2 40.426 188 97 6 1 185 127 302 8.68e-31 114
MsaG006983 AT5G53210.2 74.242 66 17 0 1 66 102 167 1.58e-30 114
MsaG006983 AT5G53210.2 52.174 69 33 0 98 166 276 344 1.94e-17 79.3
MsaG006983 AT5G53210.1 74.242 66 17 0 1 66 102 167 1.94e-30 114
MsaG006983 AT5G53210.1 55.056 89 40 0 98 186 276 364 2.98e-27 106
MsaG006983 AT3G61950.1 40.426 188 97 6 1 185 178 353 4.42e-30 113
MsaG006983 AT1G22490.2 37.952 166 100 2 1 166 115 277 4.82e-30 112
MsaG006983 AT3G61950.6 42.208 154 76 4 1 153 127 268 2.40e-29 110
MsaG006983 AT3G61950.3 42.208 154 76 4 1 153 178 319 1.13e-28 109
MsaG006983 AT5G65320.1 35.057 174 112 1 1 173 102 275 3.90e-26 102
MsaG006983 AT5G46690.1 34.978 223 111 6 1 190 88 309 1.60e-25 100
MsaG006983 AT5G65320.2 34.132 167 109 1 1 166 102 268 7.42e-23 92.8
MsaG006983 AT5G46690.2 34.359 195 93 4 1 166 88 276 1.06e-21 90.1
MsaG006983 AT5G46760.1 28.652 178 104 5 1 172 414 574 6.72e-13 67.0

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCCCTTGTTTCTATATTAAA+AGG 0.106112 2:-12229174 MsaT006983.1:CDS
TTAAACTCTTCCTTCTCTTT+TGG 0.165473 2:+12228673 None:intergenic
GGAGACCAAGCATCAATAAT+AGG 0.279505 2:-12228750 MsaT006983.1:CDS
GATATCTCTTCCGGTGGAAT+TGG 0.287634 2:-12228597 MsaT006983.1:CDS
GATGTAGAAGTGAAAATTTC+GGG 0.305312 2:-12228522 MsaT006983.1:CDS
CATCAATTTGATATCTCTTC+CGG 0.314307 2:-12228606 MsaT006983.1:CDS
TTTGGACTCGGACCTGGGCT+AGG 0.337861 2:+12228648 None:intergenic
AGATGTAGAAGTGAAAATTT+CGG 0.352906 2:-12228523 MsaT006983.1:CDS
GAGACCAAGCATCAATAATA+GGG 0.364080 2:-12228749 MsaT006983.1:CDS
GCTGGGATGTCAACTAAGTT+TGG 0.372864 2:-12226945 MsaT006983.1:CDS
GTGGTTTCTCAAAGAATTCC+AGG 0.381915 2:-12228480 MsaT006983.1:CDS
ATATCTCTTCCGGTGGAATT+GGG 0.386333 2:-12228596 MsaT006983.1:CDS
TGGGACTAATAATGCTTTCA+AGG 0.390600 2:-12228577 MsaT006983.1:CDS
ACATAGCTGTTGAGAGGAAC+AGG 0.425460 2:-12229240 MsaT006983.1:CDS
ACCACTCTCAAAATCACGTT+TGG 0.426156 2:+12228498 None:intergenic
GAATTCCAGGTCAAGTTTCA+AGG 0.446514 2:-12228467 MsaT006983.1:CDS
CCCTTGTTTCTATATTAAAA+GGG 0.462565 2:-12229173 MsaT006983.1:intron
GACCGTTCTATACCAATTTG+TGG 0.465718 2:-12228379 MsaT006983.1:CDS
ATTCTAAAGCTTGAAGAACT+TGG 0.481599 2:+12228697 None:intergenic
TTTGTTACTACAGATAGAGC+TGG 0.503412 2:-12226963 MsaT006983.1:intron
TTGGACTCGGACCTGGGCTA+GGG 0.504016 2:+12228649 None:intergenic
AAGTTTGGAGGAACTAGCTA+TGG 0.513586 2:-12226930 MsaT006983.1:CDS
TCTATACCAATTTGTGGTCA+AGG 0.525881 2:-12228373 MsaT006983.1:intron
TCATCTTAACATCAGTAGCA+TGG 0.547962 2:-12228406 MsaT006983.1:CDS
ATAATCCTTGAAACTTGACC+TGG 0.556421 2:+12228462 None:intergenic
CAATTTGATATCTCTTCCGG+TGG 0.570441 2:-12228603 MsaT006983.1:CDS
AAGAGTTTAAGCCCTAGCCC+AGG 0.572825 2:-12228660 MsaT006983.1:CDS
GGGATGTCAACTAAGTTTGG+AGG 0.579553 2:-12226942 MsaT006983.1:CDS
TTGTTACTACAGATAGAGCT+GGG 0.580558 2:-12226962 MsaT006983.1:intron
ACAGATGAATGAACATCTCA+AGG 0.583323 2:-12229212 MsaT006983.1:CDS
ATTATTAGTCCCAATTCCAC+CGG 0.583906 2:+12228587 None:intergenic
AATAATGCTTTCAAGGAACT+AGG 0.585664 2:-12228570 MsaT006983.1:CDS
CTTTAGAATCCCAAAAGAGA+AGG 0.588008 2:-12228683 MsaT006983.1:CDS
ATATCAAATTGATGAAGTGT+TGG 0.611378 2:+12228615 None:intergenic
AGACCAAGCATCAATAATAG+GGG 0.616273 2:-12228748 MsaT006983.1:CDS
GACCACAAATTGGTATAGAA+CGG 0.617195 2:+12228377 None:intergenic
TGTCTCACATAGCTGTTGAG+AGG 0.643820 2:-12229246 MsaT006983.1:CDS
GACCAAGCATCAATAATAGG+GGG 0.668211 2:-12228747 MsaT006983.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 12226880 12229269 12226880 ID=MsaG006983
Chr2 mRNA 12226880 12229269 12226880 ID=MsaT006983.1;Parent=MsaG006983
Chr2 exon 12226880 12226972 12226880 ID=MsaT006983.1.exon3;Parent=MsaT006983.1
Chr2 CDS 12226880 12226972 12226880 ID=cds.MsaT006983.1;Parent=MsaT006983.1
Chr2 exon 12228374 12228772 12228374 ID=MsaT006983.1.exon2;Parent=MsaT006983.1
Chr2 CDS 12228374 12228772 12228374 ID=cds.MsaT006983.1;Parent=MsaT006983.1
Chr2 exon 12229174 12229269 12229174 ID=MsaT006983.1.exon1;Parent=MsaT006983.1
Chr2 CDS 12229174 12229269 12229174 ID=cds.MsaT006983.1;Parent=MsaT006983.1
Gene Sequence

>MsaT006983.1

ATGTCTCACATAGCTGTTGAGAGGAACAGGAGAAGACAGATGAATGAACATCTCAAGGTTTTAAGGTCGTTGACCCCTTGTTTCTATATTAAAAGGGGAGACCAAGCATCAATAATAGGGGGAGTTATAGAATTCATCAATGAATTGCACCAAGTTCTTCAAGCTTTAGAATCCCAAAAGAGAAGGAAGAGTTTAAGCCCTAGCCCAGGTCCGAGTCCAAAAACACTGCAGCCAACACTTCATCAATTTGATATCTCTTCCGGTGGAATTGGGACTAATAATGCTTTCAAGGAACTAGGAGCAAGCTGCAACTCTTCAATTGCAGATGTAGAAGTGAAAATTTCGGGTCCAAACGTGATTTTGAGAGTGGTTTCTCAAAGAATTCCAGGTCAAGTTTCAAGGATTATAACTGTTTTAGAAAGTCTTTCATTTGAAGTTCTTCATCTTAACATCAGTAGCATGGAAGAGACCGTTCTATACCAATTTGTGGTCAAGATAGAGCTGGGATGTCAACTAAGTTTGGAGGAACTAGCTATGGAAGTACAACAAAGCTTTTGTTCAGAGGCTATGAAGTTGACTGCTGTTTGA
Protein sequence

>MsaT006983.1

MSHIAVERNRRRQMNEHLKVLRSLTPCFYIKRGDQASIIGGVIEFINELHQVLQALESQKRRKSLSPSPGPSPKTLQPTLHQFDISSGGIGTNNAFKELGASCNSSIADVEVKISGPNVILRVVSQRIPGQVSRIITVLESLSFEVLHLNISSMEETVLYQFVVKIELGCQLSLEELAMEVQQSFCSEAMKLTAV*