AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024435

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024435 MtrunA17_Chr8g0389661 98.557 485 7 0 1 485 1 485 0.0 994
MsaG024435 MtrunA17_Chr4g0046431 70.335 209 49 5 30 234 47 246 1.43e-97 296
MsaG024435 MtrunA17_Chr4g0040541 64.378 233 68 5 30 257 26 248 4.56e-95 289
MsaG024435 MtrunA17_Chr2g0282871 57.937 252 86 6 3 244 8 249 2.16e-90 278
MsaG024435 MtrunA17_Chr2g0324961 73.737 198 40 4 30 222 27 217 9.01e-89 273
MsaG024435 MtrunA17_Chr8g0367761 71.739 184 41 4 30 209 47 223 5.26e-87 267
MsaG024435 MtrunA17_Chr1g0198751 58.639 191 69 4 27 215 36 218 9.51e-75 243
MsaG024435 MtrunA17_Chr5g0422431 59.162 191 68 3 27 215 36 218 4.28e-73 238
MsaG024435 MtrunA17_Chr7g0227071 53.646 192 80 4 25 213 30 215 4.72e-62 210
MsaG024435 MtrunA17_Chr1g0198741 49.296 142 66 2 104 245 8 143 7.69e-37 137
MsaG024435 MtrunA17_Chr6g0484441 28.899 218 119 9 47 255 5 195 9.41e-14 72.4
MsaG024435 MtrunA17_Chr8g0359921 32.895 152 76 5 45 194 12 139 2.26e-13 71.2
MsaG024435 MtrunA17_Chr1g0147421 31.176 170 90 6 47 211 27 174 1.20e-12 69.3
MsaG024435 MtrunA17_Chr3g0124761 34.416 154 72 8 45 195 5 132 1.46e-12 68.2
MsaG024435 MtrunA17_Chr2g0318081 32.895 152 76 5 45 194 14 141 1.94e-12 68.6
MsaG024435 MtrunA17_Chr7g0253011 30.851 188 94 8 38 213 8 171 2.12e-12 68.6
MsaG024435 MtrunA17_Chr2g0318101 32.258 155 79 7 47 198 15 146 3.71e-12 67.8
MsaG024435 MtrunA17_Chr4g0047841 34.437 151 73 8 47 194 15 142 5.09e-12 67.0
MsaG024435 MtrunA17_Chr3g0139331 31.579 190 95 9 47 226 11 175 6.58e-12 67.0
MsaG024435 MtrunA17_Chr2g0309891 28.326 233 119 10 45 264 4 201 1.10e-11 66.2
MsaG024435 MtrunA17_Chr4g0060931 30.286 175 90 7 45 211 15 165 1.31e-11 65.9
MsaG024435 MtrunA17_Chr7g0263931 31.788 151 77 6 47 194 11 138 1.58e-11 65.5
MsaG024435 MtrunA17_Chr3g0091921 31.638 177 89 7 43 211 12 164 2.19e-11 64.7
MsaG024435 MtrunA17_Chr7g0217711 32.000 150 76 6 47 194 19 144 2.33e-11 62.8
MsaG024435 MtrunA17_Chr4g0056541 26.364 220 113 10 47 245 7 198 2.60e-11 65.1
MsaG024435 MtrunA17_Chr5g0433781 29.341 167 86 6 45 205 4 144 2.94e-11 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024435 AT4G29230.2 59.961 507 163 15 3 483 4 496 3.57e-180 514
MsaG024435 AT4G29230.1 59.843 508 163 16 3 483 4 497 1.91e-178 510
MsaG024435 AT4G29230.3 60.648 432 142 12 3 420 4 421 4.71e-153 443
MsaG024435 AT5G56620.3 49.375 480 145 15 10 472 4 402 1.13e-135 398
MsaG024435 AT5G56620.2 49.375 480 145 15 10 472 4 402 1.17e-135 397
MsaG024435 AT5G56620.1 51.834 409 117 11 10 399 4 351 2.98e-122 362
MsaG024435 AT4G28500.1 66.514 218 63 3 9 222 17 228 7.09e-97 295
MsaG024435 AT1G28470.1 67.513 197 50 3 30 219 53 242 3.63e-89 275
MsaG024435 AT1G25580.1 58.247 194 65 5 27 218 36 215 1.32e-68 226
MsaG024435 AT5G14490.2 53.299 197 81 7 25 218 30 218 3.10e-58 194
MsaG024435 AT5G14490.1 53.299 197 81 7 25 218 33 221 3.11e-58 196
MsaG024435 AT5G14490.4 53.299 197 81 7 25 218 30 218 3.82e-58 196
MsaG024435 AT5G14490.3 53.299 197 81 7 25 218 33 221 5.49e-58 196
MsaG024435 AT3G01600.1 50.510 196 87 5 23 215 28 216 5.45e-55 188
MsaG024435 AT1G01720.1 35.065 154 71 8 45 195 5 132 6.88e-14 72.8
MsaG024435 AT5G09330.5 35.526 152 70 8 47 194 6 133 1.37e-12 70.1
MsaG024435 AT5G09330.2 35.526 152 70 8 47 194 6 133 1.37e-12 70.1
MsaG024435 AT5G09330.4 35.526 152 70 8 47 194 6 133 1.37e-12 70.1
MsaG024435 AT5G09330.3 35.526 152 70 8 47 194 6 133 1.37e-12 70.1
MsaG024435 AT5G09330.1 35.526 152 70 8 47 194 6 133 1.37e-12 70.1
MsaG024435 AT3G15500.1 31.579 152 78 5 45 194 12 139 3.96e-12 67.8
MsaG024435 AT1G02220.1 30.872 149 76 5 48 193 4 128 4.22e-12 68.2
MsaG024435 AT1G33060.2 28.814 177 92 7 46 213 23 174 6.57e-12 68.6
MsaG024435 AT1G33060.1 28.814 177 92 7 46 213 23 174 6.66e-12 68.2
MsaG024435 AT1G52890.1 30.921 152 79 5 45 194 12 139 1.23e-11 66.2
MsaG024435 AT3G29035.1 30.682 176 88 7 45 211 22 172 2.36e-11 65.5
MsaG024435 AT4G27410.3 27.919 197 95 7 45 218 12 184 2.70e-11 65.1
MsaG024435 AT5G39610.1 29.778 225 117 10 45 259 18 211 3.87e-11 64.3
MsaG024435 AT5G53950.1 28.079 203 114 7 47 240 17 196 5.38e-11 64.7

Find 103 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCCGAAATGATCAGATTTA+AGG 0.202690 4:-99520546 None:intergenic
CTTCCATTGATATTATAATT+AGG 0.223614 4:-99520394 None:intergenic
GCATTTGTGAAGCTTGTTAA+AGG 0.254170 4:-99520508 None:intergenic
ACCAGACCTGTTATGGTTAA+TGG 0.262903 4:+99520127 MsaT024435.1:CDS
CCTGTTGTATATGCCTTTGA+TGG 0.263920 4:-99520016 None:intergenic
GGTTGAAATACTCTTCTTAC+TGG 0.281746 4:+99523550 MsaT024435.1:CDS
TGTTTACCATTAACCATAAC+AGG 0.301271 4:-99520133 None:intergenic
CACCTTAAATCTGATCATTT+CGG 0.305151 4:+99520544 MsaT024435.1:CDS
GATTGGAAGGCCTACTTATA+TGG 0.307907 4:-99521517 None:intergenic
TGGTTTGGAGGAAGTCATTA+TGG 0.313328 4:+99522783 MsaT024435.1:CDS
CATCACCCAATTTGTCTTCT+CGG 0.314134 4:-99520212 None:intergenic
CACAGCCAAGACAGTGTAAT+TGG 0.340413 4:+99520308 MsaT024435.1:CDS
ATGGTTAATGGTAAACAAAA+AGG 0.341742 4:+99520139 MsaT024435.1:CDS
TATATGCCTTTGATGGTCTA+TGG 0.358040 4:-99520009 None:intergenic
GAAAACCCGAGAAGACAAAT+TGG 0.361472 4:+99520206 MsaT024435.1:CDS
TCAACCACTCAGCTTCTTGT+TGG 0.371776 4:-99523533 None:intergenic
TGGAAGGTCTGCGTCTGGTT+TGG 0.383750 4:+99522768 MsaT024435.1:CDS
CATGTTCTTTGACTCAACTT+TGG 0.392039 4:-99519592 None:intergenic
GGTTTGGAGGAAGTCATTAT+GGG 0.397618 4:+99522784 MsaT024435.1:CDS
TCCACAGCGAGGGCAGTGTT+TGG 0.404918 4:-99519233 None:intergenic
TCAATCAATTCTTGATCTGT+TGG 0.405063 4:-99519558 None:intergenic
TGGTAAGACCAGACCTGTTA+TGG 0.407089 4:+99520120 MsaT024435.1:CDS
GGGAGGTGGAGAGATGATAG+TGG 0.407529 4:-99521546 None:intergenic
GTGAAGCTTGTTAAAGGACT+AGG 0.412943 4:-99520502 None:intergenic
ATCACCCAATTTGTCTTCTC+GGG 0.413577 4:-99520211 None:intergenic
CTTCTTCATGTTGTCCAAGA+TGG 0.416813 4:-99520243 None:intergenic
TGGAGAGATGATAGTGGAGA+TGG 0.419657 4:-99521540 None:intergenic
GATGTGTGATGGAGGGGAGG+TGG 0.419705 4:-99521560 None:intergenic
GGAAGAAGAGATAGTGGAAG+TGG 0.419947 4:+99520412 MsaT024435.1:CDS
AATCTGAGTAACAATTTCCT+TGG 0.423878 4:-99520446 None:intergenic
GAATTCATTCTCACTATTGA+AGG 0.424881 4:+99519639 MsaT024435.1:CDS
ATCAATGGAAGAAGAGATAG+TGG 0.430228 4:+99520406 MsaT024435.1:CDS
TCCTTGTAAGTCACACTCTT+CGG 0.430646 4:-99520065 None:intergenic
GAAACAAGATGGCACAAAAC+TGG 0.433929 4:+99520100 MsaT024435.1:CDS
AACAAGCTTCACAAATGCCT+TGG 0.435738 4:+99520513 MsaT024435.1:CDS
GATGATAGTGGAGATGGGAT+TGG 0.442110 4:-99521534 None:intergenic
ATCAGGAGGCTCATGTGATC+AGG 0.445075 4:+99521364 MsaT024435.1:CDS
ATTAGTGCAACAACAACAAC+TGG 0.448672 4:+99520352 MsaT024435.1:CDS
CCATCAAAGGCATATACAAC+AGG 0.455100 4:+99520016 MsaT024435.1:CDS
ACCATTAACCATAACAGGTC+TGG 0.456313 4:-99520128 None:intergenic
CTATCATTATAGGTTGGAAT+AGG 0.457175 4:+99521311 MsaT024435.1:intron
GAACCTAATTATAATATCAA+TGG 0.462340 4:+99520391 MsaT024435.1:CDS
GGATCAAATTTCACTCCTGC+TGG 0.469166 4:-99519537 None:intergenic
TCAGACCAATTACACTGTCT+TGG 0.476749 4:-99520313 None:intergenic
GATGAAATGTCTGCTGTTGT+TGG 0.479390 4:+99520475 MsaT024435.1:CDS
CTCACTATTGAAGGAGAAGA+TGG 0.486078 4:+99519648 MsaT024435.1:CDS
AAGGTCTGCGTCTGGTTTGG+AGG 0.488566 4:+99522771 MsaT024435.1:CDS
CTGCGTTTGCACTAATCTGC+TGG 0.490246 4:-99521490 None:intergenic
ACAAGAGAAATGCAAGCATC+AGG 0.490268 4:+99521347 MsaT024435.1:CDS
GTGGATGTGTGATGGAGGGG+AGG 0.491180 4:-99521563 None:intergenic
TGATGGTGGATGTGTGATGG+AGG 0.493985 4:-99521568 None:intergenic
CTTGTTCTCTACACCAACTT+CGG 0.499621 4:+99520175 MsaT024435.1:CDS
GGAGAGATGATAGTGGAGAT+GGG 0.502154 4:-99521539 None:intergenic
AGTGTTTGGATCCACACAAC+TGG 0.507034 4:-99519219 None:intergenic
CATTCTAATCATGATGATGA+TGG 0.514227 4:-99523596 None:intergenic
TGAAGCTTGTTAAAGGACTA+GGG 0.515511 4:-99520501 None:intergenic
GATGGTGGATGTGTGATGGA+GGG 0.519141 4:-99521567 None:intergenic
GGTGGTGGAAGGTCTGCGTC+TGG 0.526615 4:+99522763 MsaT024435.1:CDS
TGTGACTTACAAGGAAGTAC+AGG 0.531187 4:+99520073 MsaT024435.1:CDS
AGAATGAATTCATCAATCAA+AGG 0.532417 4:-99519627 None:intergenic
AAAACCCGAGAAGACAAATT+GGG 0.533154 4:+99520207 MsaT024435.1:CDS
CATGGTAAGAATTGTCATCA+AGG 0.534349 4:-99521592 None:intergenic
ATGGTGGATGTGTGATGGAG+GGG 0.535220 4:-99521566 None:intergenic
GTGATGCATCAATACCATCT+TGG 0.536833 4:+99520229 MsaT024435.1:CDS
TTTAAGGTGTTGAATATCCA+AGG 0.540367 4:-99520530 None:intergenic
CAGCAACAACATCATAAACT+AGG 0.542717 4:+99522742 MsaT024435.1:CDS
AAGTGGAAGTTCTTCTTCCA+AGG 0.544042 4:+99520429 MsaT024435.1:CDS
ACAACAACTGGTGAAGGAAG+TGG 0.551888 4:+99520364 MsaT024435.1:CDS
CAACATGAAGAAGAGAAAGA+AGG 0.555164 4:+99520253 MsaT024435.1:CDS
AGAATTGTCATCAAGGATGA+TGG 0.555788 4:-99521585 None:intergenic
GAATGAATTCATCAATCAAA+GGG 0.558039 4:-99519626 None:intergenic
GGATGATGGTGGATGTGTGA+TGG 0.559886 4:-99521571 None:intergenic
ACGCAGCTTTCCATATAAGT+AGG 0.560422 4:+99521507 MsaT024435.1:CDS
TGTGGACACAAATTTGATCA+AGG 0.561466 4:+99519250 MsaT024435.1:CDS
TTATAGGTTGGAATAGGAGA+AGG 0.569160 4:+99521317 MsaT024435.1:intron
CAACATCATAAACTAGGTGG+TGG 0.571157 4:+99522748 MsaT024435.1:CDS
ACCGAAGAGTGTGACTTACA+AGG 0.573730 4:+99520064 MsaT024435.1:CDS
TGATCTCATAGATTCTAAGC+TGG 0.574339 4:+99519189 MsaT024435.1:CDS
CAAATTTGTGTCCACAGCGA+GGG 0.577429 4:-99519243 None:intergenic
CAAATTTGATCAAGGCAAGC+CGG 0.585518 4:+99519258 MsaT024435.1:CDS
ATCATAAACTAGGTGGTGGA+AGG 0.591383 4:+99522752 MsaT024435.1:CDS
TCCAAACACTGCCCTCGCTG+TGG 0.598125 4:+99519232 MsaT024435.1:CDS
CTGGAAGAGCACCAGTTGTG+TGG 0.599801 4:+99519208 MsaT024435.1:CDS
ATACAACAGGAACACGAAAG+AGG 0.605890 4:+99520029 MsaT024435.1:CDS
GCAACAACAACAACTGGTGA+AGG 0.614557 4:+99520358 MsaT024435.1:CDS
GTTTGGAGGAAGTCATTATG+GGG 0.614581 4:+99522785 MsaT024435.1:CDS
TGGAACTAACAGGATTGGCT+AGG 0.614683 4:+99519510 MsaT024435.1:intron
ATAGTGGAGATGGGATTGGA+AGG 0.617201 4:-99521530 None:intergenic
TTGTTGTCATGAGGGTCGAC+TGG 0.619843 4:-99523573 None:intergenic
TCAAATTTGTGTCCACAGCG+AGG 0.631442 4:-99519244 None:intergenic
GATTGGCTAGGTCTACCAGC+AGG 0.635385 4:+99519522 MsaT024435.1:CDS
TGATGATGGTTGTTGTCATG+AGG 0.638720 4:-99523582 None:intergenic
AGGAGGCTCATGTGATCAGG+AGG 0.640907 4:+99521367 MsaT024435.1:CDS
GATGATGGTTGTTGTCATGA+GGG 0.647114 4:-99523581 None:intergenic
AGAGAAATGCAAGCATCAGG+AGG 0.653970 4:+99521350 MsaT024435.1:CDS
GTACAGGAGGAGAAACAAGA+TGG 0.661050 4:+99520089 MsaT024435.1:CDS
ACAACTGGTGAAGGAAGTGG+TGG 0.665064 4:+99520367 MsaT024435.1:CDS
GACTTACAAGGAAGTACAGG+AGG 0.666650 4:+99520076 MsaT024435.1:CDS
ATTGTCATCAAGGATGATGG+TGG 0.672021 4:-99521582 None:intergenic
AACGTCGTCTGATATCAAAG+AGG 0.681906 4:+99522816 MsaT024435.1:CDS
GAAACCAACAAGAAGCTGAG+TGG 0.685593 4:+99523529 MsaT024435.1:CDS
GGAGCATGATTGTTGAAACA+TGG 0.690838 4:-99521610 None:intergenic
CAACAACATCATAAACTAGG+TGG 0.704443 4:+99522745 MsaT024435.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 99519154 99523614 99519154 ID=MsaG024435
Chr4 mRNA 99519154 99523614 99519154 ID=MsaT024435.1;Parent=MsaG024435
Chr4 exon 99519154 99519279 99519154 ID=MsaT024435.1.exon1;Parent=MsaT024435.1
Chr4 CDS 99519154 99519279 99519154 ID=cds.MsaT024435.1;Parent=MsaT024435.1
Chr4 exon 99519522 99519702 99519522 ID=MsaT024435.1.exon2;Parent=MsaT024435.1
Chr4 CDS 99519522 99519702 99519522 ID=cds.MsaT024435.1;Parent=MsaT024435.1
Chr4 exon 99519975 99520597 99519975 ID=MsaT024435.1.exon3;Parent=MsaT024435.1
Chr4 CDS 99519975 99520597 99519975 ID=cds.MsaT024435.1;Parent=MsaT024435.1
Chr4 exon 99521323 99521652 99521323 ID=MsaT024435.1.exon4;Parent=MsaT024435.1
Chr4 CDS 99521323 99521652 99521323 ID=cds.MsaT024435.1;Parent=MsaT024435.1
Chr4 exon 99522739 99522837 99522739 ID=MsaT024435.1.exon5;Parent=MsaT024435.1
Chr4 CDS 99522739 99522837 99522739 ID=cds.MsaT024435.1;Parent=MsaT024435.1
Chr4 exon 99523516 99523614 99523516 ID=MsaT024435.1.exon6;Parent=MsaT024435.1
Chr4 CDS 99523516 99523614 99523516 ID=cds.MsaT024435.1;Parent=MsaT024435.1
Gene Sequence

>MsaT024435.1

ATGATGAATAATAAGATGAGCAACGTTAGTAGCTCTGATCTCATAGATTCTAAGCTGGAAGAGCACCAGTTGTGTGGATCCAAACACTGCCCTCGCTGTGGACACAAATTTGATCAAGGCAAGCCGGATTGGCTAGGTCTACCAGCAGGAGTGAAATTTGATCCAACAGATCAAGAATTGATTGAACATCTTGAAGCCAAAGTTGAGTCAAAGAACATGCAGAAATCACACCCTTTGATTGATGAATTCATTCTCACTATTGAAGGAGAAGATGGAATTTGTTACACCCATCCAGAAAAACTTCCAGGAGTGACAAGAGATGGATTAAGCAGACACTTTTTCCATAGACCATCAAAGGCATATACAACAGGAACACGAAAGAGGAGAAAGATTCAAACCGAAGAGTGTGACTTACAAGGAAGTACAGGAGGAGAAACAAGATGGCACAAAACTGGTAAGACCAGACCTGTTATGGTTAATGGTAAACAAAAAGGTTGCAAGAAAATTCTTGTTCTCTACACCAACTTCGGCAAGAATCGAAAACCCGAGAAGACAAATTGGGTGATGCATCAATACCATCTTGGACAACATGAAGAAGAGAAAGAAGGAGAGCTTGTTGTTTCAAAGATATTTTATCAGACACAGCCAAGACAGTGTAATTGGTCTGATAATAATCAAAGAATAATTAGTGCAACAACAACAACTGGTGAAGGAAGTGGTGGAGAACCTAATTATAATATCAATGGAAGAAGAGATAGTGGAAGTGGAAGTTCTTCTTCCAAGGAAATTGTTACTCAGATTCATAGAGATGAAATGTCTGCTGTTGTTGGTGTCCCTAGTCCTTTAACAAGCTTCACAAATGCCTTGGATATTCAACACCTTAAATCTGATCATTTCGGCTTCAACCCATTTCGAAAAAGCTATGATGAGGTTGGAATAGGAGAAGGTTCTACAACAAGAGAAATGCAAGCATCAGGAGGCTCATGTGATCAGGAGGTGCATGAAAGACAGCATCATGTATTAGCACATCATCATCAACAACAACAACAACATCATCAGCAACAGCAACAGCAACAGCAACATGAGCATCATGTGCACCAGCAGATTAGTGCAAACGCAGCTTTCCATATAAGTAGGCCTTCCAATCCCATCTCCACTATCATCTCTCCACCTCCCCTCCATCACACATCCACCATCATCCTTGATGACAATTCTTACCATGTTTCAACAATCATGCTCCAACAAAATGAAAATTTTCAGCAGCAGCAACAACATCATAAACTAGGTGGTGGAAGGTCTGCGTCTGGTTTGGAGGAAGTCATTATGGGGTGCACTTCAACGTCGTCTGATATCAAAGAGGAGTCATCTATTAGAAACCAACAAGAAGCTGAGTGGTTGAAATACTCTTCTTACTGGCCAGTCGACCCTCATGACAACAACCATCATCATCATGATTAG
Protein sequence

>MsaT024435.1

MMNNKMSNVSSSDLIDSKLEEHQLCGSKHCPRCGHKFDQGKPDWLGLPAGVKFDPTDQELIEHLEAKVESKNMQKSHPLIDEFILTIEGEDGICYTHPEKLPGVTRDGLSRHFFHRPSKAYTTGTRKRRKIQTEECDLQGSTGGETRWHKTGKTRPVMVNGKQKGCKKILVLYTNFGKNRKPEKTNWVMHQYHLGQHEEEKEGELVVSKIFYQTQPRQCNWSDNNQRIISATTTTGEGSGGEPNYNINGRRDSGSGSSSSKEIVTQIHRDEMSAVVGVPSPLTSFTNALDIQHLKSDHFGFNPFRKSYDEVGIGEGSTTREMQASGGSCDQEVHERQHHVLAHHHQQQQQHHQQQQQQQQHEHHVHQQISANAAFHISRPSNPISTIISPPPLHHTSTIILDDNSYHVSTIMLQQNENFQQQQQHHKLGGGRSASGLEEVIMGCTSTSSDIKEESSIRNQQEAEWLKYSSYWPVDPHDNNHHHHD*