AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG046551


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046551 MtrunA17_Chr4g0076821 86.721 369 44 3 1 368 1 365 0.0 536
MsaG046551 MtrunA17_Chr1g0188441 42.500 240 82 5 112 351 5 188 2.69e-61 195
MsaG046551 MtrunA17_Chr5g0404271 41.633 245 102 7 109 351 92 297 3.10e-53 178
MsaG046551 MtrunA17_Chr3g0133181 40.408 245 106 5 107 351 71 275 9.45e-51 171
MsaG046551 MtrunA17_Chr5g0427051 41.463 246 100 7 114 349 56 267 1.65e-50 170
MsaG046551 MtrunA17_Chr2g0315941 38.367 245 111 8 108 349 60 267 1.41e-42 149
MsaG046551 MtrunA17_Chr7g0217231 70.312 64 19 0 287 350 220 283 2.67e-26 107
MsaG046551 MtrunA17_Chr6g0453231 59.211 76 30 1 287 362 222 296 1.17e-24 102
MsaG046551 MtrunA17_Chr6g0453231 57.692 52 20 1 116 165 91 142 1.84e-13 70.5
MsaG046551 MtrunA17_Chr5g0412501 74.510 51 13 0 115 165 77 127 1.12e-22 96.3
MsaG046551 MtrunA17_Chr8g0361671 58.824 68 28 0 287 354 271 338 1.80e-22 97.8
MsaG046551 MtrunA17_Chr8g0361671 63.934 61 20 1 109 167 57 117 6.58e-18 84.3
MsaG046551 MtrunA17_Chr3g0092371 56.757 74 30 1 99 170 1 74 2.86e-20 84.3
MsaG046551 MtrunA17_Chr8g0367691 53.731 67 29 1 101 165 52 118 1.93e-19 87.0
MsaG046551 MtrunA17_Chr6g0479901 55.000 60 26 1 287 345 101 160 7.98e-19 83.2
MsaG046551 MtrunA17_Chr6g0479901 60.000 50 19 1 116 164 19 68 1.28e-14 71.6
MsaG046551 MtrunA17_Chr8g0357741 59.677 62 24 1 288 349 36 96 1.29e-16 74.7
MsaG046551 MtrunA17_Chr6g0453221 61.538 52 16 1 113 164 18 65 3.85e-14 67.4
MsaG046551 MtrunA17_Chr4g0060731 56.250 64 23 2 109 171 18 77 4.36e-14 67.0
MsaG046551 MtrunA17_Chr7g0243651 56.098 41 18 0 114 154 1 41 7.63e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG046551 AT2G02540.2 47.581 248 90 4 104 349 75 284 7.64e-69 219
MsaG046551 AT2G02540.1 47.581 248 90 4 104 349 75 284 7.64e-69 219
MsaG046551 AT1G14440.1 48.571 245 67 7 113 349 87 280 7.14e-62 201
MsaG046551 AT1G14440.2 48.571 245 67 7 113 349 87 280 7.14e-62 201
MsaG046551 AT2G18350.1 36.879 282 102 7 82 351 45 262 5.35e-47 161
MsaG046551 AT1G69600.1 37.143 245 96 7 114 352 29 221 3.39e-43 150
MsaG046551 AT5G60480.1 31.489 235 96 5 112 344 33 204 7.70e-34 125
MsaG046551 AT1G75240.1 78.571 56 12 0 113 168 73 128 3.23e-26 107
MsaG046551 AT4G24660.1 64.516 62 22 0 288 349 158 219 8.03e-24 98.6
MsaG046551 AT4G24660.1 72.222 54 15 0 114 167 47 100 8.25e-23 95.9
MsaG046551 AT4G24660.2 56.164 73 32 0 288 360 158 230 4.57e-23 96.7
MsaG046551 AT4G24660.2 72.222 54 15 0 114 167 47 100 8.37e-23 95.9
MsaG046551 AT5G65410.1 60.317 63 25 0 286 348 190 252 1.00e-22 97.1
MsaG046551 AT5G65410.1 69.811 53 16 0 114 166 73 125 5.28e-21 92.0
MsaG046551 AT5G39760.1 51.220 82 38 1 287 366 200 281 2.46e-21 94.0
MsaG046551 AT5G15210.1 63.158 57 21 0 287 343 179 235 3.75e-21 92.4
MsaG046551 AT5G15210.1 61.818 55 19 1 113 165 53 107 6.41e-16 77.4
MsaG046551 AT1G74660.1 66.667 57 19 0 114 170 37 93 5.50e-21 87.0
MsaG046551 AT1G74660.2 67.857 56 18 0 114 169 37 92 7.42e-21 86.7
MsaG046551 AT3G28917.1 66.667 57 18 1 114 169 31 87 2.59e-20 85.5
MsaG046551 AT3G28920.1 60.000 60 24 0 287 346 192 251 2.59e-20 90.9
MsaG046551 AT3G50890.1 65.455 55 19 0 114 168 58 112 7.85e-20 88.2
MsaG046551 AT3G50890.1 47.368 57 30 0 292 348 186 242 1.92e-14 72.8
MsaG046551 AT1G18835.1 63.158 57 18 1 114 170 24 77 8.30e-17 75.1
MsaG046551 AT5G42780.1 60.784 51 18 1 116 166 64 112 4.20e-13 68.9
MsaG046551 AT5G42780.1 41.176 68 38 1 279 346 173 238 9.89e-13 67.8

Find 84 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCCATTAACTGAAGGGTTT+TGG 0.183475 8:-85751923 None:intergenic
TTATTATTATTGTGGTTTAT+TGG 0.190415 8:-85751729 None:intergenic
TATTATTATTGTGGTTTATT+GGG 0.222211 8:-85751728 None:intergenic
CCCCAAAACCCTTCAGTTAA+TGG 0.254181 8:+85751921 MsaT046551.1:CDS
CCTGATCAGGCTCTTGGTCT+TGG 0.311106 8:+85752299 MsaT046551.1:CDS
CTCTTCTTGTTCATCAGATT+CGG 0.338219 8:-85752462 None:intergenic
AATGGTTCCTTGTTCACCAC+TGG 0.354032 8:-85752114 None:intergenic
TTATTGGGATTTCTCCATCT+TGG 0.359976 8:-85751713 None:intergenic
GTTGCTGCTGATGCTGTATT+AGG 0.369444 8:-85752344 None:intergenic
CCTCTTCCTGATCAGGCTCT+TGG 0.375629 8:+85752293 MsaT046551.1:CDS
CATGTTACCTCTTCCTGATC+AGG 0.387160 8:+85752286 MsaT046551.1:CDS
CCTGCTGAAGTTGAAGTTGA+AGG 0.415307 8:-85752237 None:intergenic
GGTACTACTGCCACTGGTAC+TGG 0.421288 8:-85751900 None:intergenic
TGGTGTAGTGGAGGAGGATG+AGG 0.421641 8:-85751831 None:intergenic
GATTTCTCCATCTTGGCTGT+TGG 0.421739 8:-85751706 None:intergenic
AGAGCAGTTGAGTGCTTCAA+TGG 0.440838 8:-85752132 None:intergenic
AATAATTATGGTACTAGTAA+TGG 0.445222 8:+85751765 MsaT046551.1:CDS
AAAGAAGAGTGCTCAAGGTT+TGG 0.446033 8:+85752687 MsaT046551.1:CDS
GAAGGTATGTTGTAGTTGAA+TGG 0.452483 8:-85752440 None:intergenic
CCTGATCCTCAGTCTCACCT+TGG 0.455452 8:-85752193 None:intergenic
CCAAGACCAAGAGCCTGATC+AGG 0.460517 8:-85752299 None:intergenic
CCAAGGTGAGACTGAGGATC+AGG 0.460530 8:+85752193 MsaT046551.1:CDS
AACTGATGACGATTTCTTGT+AGG 0.461489 8:-85752009 None:intergenic
CCTTCAACTTCAACTTCAGC+AGG 0.461695 8:+85752237 MsaT046551.1:CDS
AGCAGGTAGTGATGAAGAAA+AGG 0.463951 8:+85752540 MsaT046551.1:CDS
TAGTGATGAAGAAAAGGTTC+AGG 0.467781 8:+85752546 MsaT046551.1:CDS
CAACAGTTCTGCCAAGAGAT+TGG 0.479137 8:+85752659 MsaT046551.1:CDS
GGCAGCACCACCACAGCATG+AGG 0.480741 8:+85752258 MsaT046551.1:CDS
TAGGAGTAGAGTGGTGGTGT+TGG 0.483759 8:-85752325 None:intergenic
AATACAGCATCAGCAGCAAC+AGG 0.487107 8:+85752347 MsaT046551.1:CDS
AAGAATCATGCAGCTGCAAT+GGG 0.493612 8:+85752056 MsaT046551.1:CDS
ATGGTTCCTTGTTCACCACT+GGG 0.498200 8:-85752113 None:intergenic
AAAGAATCATGCAGCTGCAA+TGG 0.500219 8:+85752055 MsaT046551.1:CDS
CGCAGTAGTGCCAGTACCAG+TGG 0.506274 8:+85751890 MsaT046551.1:CDS
GAACTTTCCAACAGCCAAGA+TGG 0.514451 8:+85751699 MsaT046551.1:CDS
CAAGCAGCAGCTGTTAGTAC+TGG 0.515000 8:+85751960 MsaT046551.1:CDS
AGAGCTGTAGCGCCACCTCA+TGG 0.521678 8:+85752398 MsaT046551.1:CDS
GGTGTAGTGGAGGAGGATGA+GGG 0.535345 8:-85751830 None:intergenic
GGTGGCGCTACAGCTCTAGA+AGG 0.538474 8:-85752392 None:intergenic
CGAATCTGATGAACAAGAAG+AGG 0.550515 8:+85752463 MsaT046551.1:CDS
ATATAATATTACTGTGATTG+TGG 0.551597 8:-85751851 None:intergenic
GAAGTTTCTGTGACAATGGC+AGG 0.555632 8:-85752156 None:intergenic
CCAAGAGCCTGATCAGGAAG+AGG 0.556475 8:-85752293 None:intergenic
TCTTGTTCATCAGATTCGGA+AGG 0.560538 8:-85752458 None:intergenic
CTAACAGCTGCTGCTTGCAT+AGG 0.566961 8:-85751954 None:intergenic
AAAATTCACACAGGAACAGA+AGG 0.568057 8:+85752571 MsaT046551.1:CDS
GTGGTTGTGCCATTAACTGA+AGG 0.568135 8:-85751930 None:intergenic
TGATTGTGGTGTAGTGGAGG+AGG 0.569506 8:-85751837 None:intergenic
TTCATGCCCAGTGGTGAACA+AGG 0.570431 8:+85752107 MsaT046551.1:CDS
TGTGGAAGTTTCTGTGACAA+TGG 0.570726 8:-85752160 None:intergenic
CAAGAAATCGTCATCAGTTG+TGG 0.580092 8:+85752013 MsaT046551.1:CDS
GATGAACAAGAAGAGGCAGC+AGG 0.580135 8:+85752470 MsaT046551.1:CDS
TGGTTGTGCCATTAACTGAA+GGG 0.581647 8:-85751929 None:intergenic
TGATGACGATTTCTTGTAGG+AGG 0.584121 8:-85752006 None:intergenic
CTGTGATTGTGGTGTAGTGG+AGG 0.591651 8:-85751840 None:intergenic
AATCATGCAGCTGCAATGGG+AGG 0.592565 8:+85752059 MsaT046551.1:CDS
GTAGCGCCACCTCATGGACA+TGG 0.593213 8:+85752404 MsaT046551.1:CDS
TGAATTTCCTCATGCTGTGG+TGG 0.602127 8:-85752265 None:intergenic
TGTGAAAAGAAGAGTGCTCA+AGG 0.602235 8:+85752682 MsaT046551.1:CDS
ATCATGCAGCTGCAATGGGA+GGG 0.602761 8:+85752060 MsaT046551.1:CDS
ATGGAAATTTCAGAAGCAAG+AGG 0.613533 8:+85752625 MsaT046551.1:CDS
GGGAATGCCACAGATGGCTG+TGG 0.614228 8:+85752080 MsaT046551.1:CDS
TTACTGTGATTGTGGTGTAG+TGG 0.616570 8:-85751843 None:intergenic
TGAAGTTGAAGGCTGAGTGA+TGG 0.622721 8:-85752226 None:intergenic
AGTTGAAGGCTGAGTGATGG+TGG 0.623553 8:-85752223 None:intergenic
ATGGGAGGGAATGCCACAGA+TGG 0.625053 8:+85752074 MsaT046551.1:CDS
AGCTGCTGCTTGCATAGGAG+TGG 0.626710 8:-85751949 None:intergenic
AGAAGTCCAAGGTGAGACTG+AGG 0.639644 8:+85752187 MsaT046551.1:CDS
GGTGTTCATGAACATGATGA+TGG 0.640624 8:-85751809 None:intergenic
AGCAGCTGTTAGTACTGGTG+TGG 0.641970 8:+85751965 MsaT046551.1:CDS
CACTGGTACTGGCACTACTG+CGG 0.649774 8:-85751889 None:intergenic
TTCCACAGAAAAGAAGTCCA+AGG 0.650236 8:+85752176 MsaT046551.1:CDS
TCAGAAGCAAGAGGAATCTG+TGG 0.650938 8:+85752634 MsaT046551.1:CDS
AGTTGAATGGCATGATGATG+TGG 0.657862 8:-85752427 None:intergenic
ATGTGGCCATGTCCATGAGG+TGG 0.659218 8:-85752410 None:intergenic
ACATGAATTTCCTCATGCTG+TGG 0.665457 8:-85752268 None:intergenic
AATCGTCATCAGTTGTGGTG+AGG 0.674142 8:+85752018 MsaT046551.1:CDS
CTGTATTAGGAGTAGAGTGG+TGG 0.678813 8:-85752331 None:intergenic
TGTGGTGAGTTCATGCCCAG+TGG 0.682320 8:+85752098 MsaT046551.1:CDS
TATGGTACTAGTAATGGACA+TGG 0.682582 8:+85751771 MsaT046551.1:CDS
GAACTCACCACAGCCATCTG+TGG 0.688684 8:-85752087 None:intergenic
GTTCAGGACAAAATTCACAC+AGG 0.704613 8:+85752562 MsaT046551.1:CDS
ATGCTGTATTAGGAGTAGAG+TGG 0.716681 8:-85752334 None:intergenic
ATGATGTGGCCATGTCCATG+AGG 0.730801 8:-85752413 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 85751696 85752802 85751696 ID=MsaG046551
Chr8 mRNA 85751696 85752802 85751696 ID=MsaT046551.1;Parent=MsaG046551
Chr8 exon 85751696 85752802 85751696 ID=MsaT046551.1.exon1;Parent=MsaT046551.1
Chr8 CDS 85751696 85752802 85751696 ID=cds.MsaT046551.1;Parent=MsaT046551.1
Gene Sequence

>MsaT046551.1

ATGGAACTTTCCAACAGCCAAGATGGAGAAATCCCAATAAACCACAATAATAATAATAATAATAATAATAATAATTATGGTACTAGTAATGGACATGGTCATCACATGATTCACCATCATCATGTTCATGAACACCCTCATCCTCCTCCACTACACCACAATCACAGTAATATTATATCATCATCATCTTCAGCCGCAGTAGTGCCAGTACCAGTGGCAGTAGTACCCCAAAACCCTTCAGTTAATGGCACAACCACTCCTATGCAAGCAGCAGCTGTTAGTACTGGTGTGGAATTAGATCATGATCAGTCCTCCTACAAGAAATCGTCATCAGTTGTGGTGAGGTACAGAGAATGTCTAAAGAATCATGCAGCTGCAATGGGAGGGAATGCCACAGATGGCTGTGGTGAGTTCATGCCCAGTGGTGAACAAGGAACCATTGAAGCACTCAACTGCTCTGCCTGCCATTGTCACAGAAACTTCCACAGAAAAGAAGTCCAAGGTGAGACTGAGGATCAGGAAAACTACCACCATCACTCAGCCTTCAACTTCAACTTCAGCAGGCAGCACCACCACAGCATGAGGAAATTCATGTTACCTCTTCCTGATCAGGCTCTTGGTCTTGGCTACCAACACCACCACTCTACTCCTAATACAGCATCAGCAGCAACAGGTAACAACAACAACAACATTCTTCCTTCTAGAGCTGTAGCGCCACCTCATGGACATGGCCACATCATCATGCCATTCAACTACAACATACCTTCCGAATCTGATGAACAAGAAGAGGCAGCAGGTAGACTACATATTCATCATCATCATCAGCAGCAGCAGCAGCAGCAGCAGCAGGTAGTGATGAAGAAAAGGTTCAGGACAAAATTCACACAGGAACAGAAGGACAAAATGTTCAATTTTGCTGAGAAAGTTGGATGGAAATTTCAGAAGCAAGAGGAATCTGTGGTGCAACAGTTCTGCCAAGAGATTGGTGTGAAAAGAAGAGTGCTCAAGGTTTGGATGCATAACAATAAACACAATCTCGCCAAAAAACAACTTCAACATGAACATATTACTGCTAGTGCTAGTGCTAATCATCTCCCAACTCCATAA

Protein sequence

>MsaT046551.1

MELSNSQDGEIPINHNNNNNNNNNNYGTSNGHGHHMIHHHHVHEHPHPPPLHHNHSNIISSSSSAAVVPVPVAVVPQNPSVNGTTTPMQAAAVSTGVELDHDQSSYKKSSSVVVRYRECLKNHAAAMGGNATDGCGEFMPSGEQGTIEALNCSACHCHRNFHRKEVQGETEDQENYHHHSAFNFNFSRQHHHSMRKFMLPLPDQALGLGYQHHHSTPNTASAATGNNNNNILPSRAVAPPHGHGHIIMPFNYNIPSESDEQEEAAGRLHIHHHHQQQQQQQQQVVMKKRFRTKFTQEQKDKMFNFAEKVGWKFQKQEESVVQQFCQEIGVKRRVLKVWMHNNKHNLAKKQLQHEHITASASANHLPTP*