AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039142

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039142 MtrunA17_Chr7g0254991 98.442 321 4 1 1 321 1 320 0.0 646
MsaG039142 MtrunA17_Chr6g0460301 60.606 330 112 6 1 321 1 321 3.31e-118 343
MsaG039142 MtrunA17_Chr8g0355121 51.125 311 128 9 15 321 23 313 6.00e-87 263
MsaG039142 MtrunA17_Chr3g0080341 48.910 321 127 10 16 319 20 320 9.88e-86 261
MsaG039142 MtrunA17_Chr2g0321411 33.110 299 133 10 19 299 11 260 4.64e-31 118
MsaG039142 MtrunA17_Chr4g0044771 44.186 129 67 2 16 141 18 144 1.82e-26 107
MsaG039142 MtrunA17_Chr4g0044771 63.380 71 22 1 223 293 278 344 6.12e-17 80.9
MsaG039142 MtrunA17_Chr2g0321381 34.899 298 139 11 17 294 23 285 3.77e-26 105
MsaG039142 MtrunA17_Chr3g0133971 39.333 150 76 3 2 146 14 153 3.42e-23 99.4
MsaG039142 MtrunA17_Chr3g0133971 67.213 61 19 1 236 296 339 398 6.04e-17 80.9
MsaG039142 MtrunA17_Chr5g0424871 30.744 309 158 12 16 284 12 304 7.60e-23 96.7
MsaG039142 MtrunA17_Chr5g0440841 45.600 125 56 3 16 134 22 140 4.51e-22 93.6
MsaG039142 MtrunA17_Chr5g0440841 48.092 131 59 3 194 319 141 267 7.14e-20 87.4
MsaG039142 MtrunA17_Chr7g0266211 34.328 134 70 3 22 137 45 178 1.87e-15 76.6
MsaG039142 MtrunA17_Chr4g0051101 60.714 56 22 0 237 292 117 172 7.26e-12 63.5
MsaG039142 MtrunA17_Chr5g0405951 64.286 56 8 1 250 293 166 221 1.08e-11 63.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039142 AT3G56850.1 55.623 329 106 10 1 321 1 297 2.27e-101 300
MsaG039142 AT2G41070.3 48.012 327 99 10 1 321 1 262 4.55e-83 252
MsaG039142 AT2G41070.1 48.012 327 99 10 1 321 1 262 4.55e-83 252
MsaG039142 AT2G41070.2 48.012 327 99 10 1 321 1 262 4.55e-83 252
MsaG039142 AT2G41070.4 48.012 327 99 10 1 321 10 271 5.70e-83 252
MsaG039142 AT2G41070.5 46.333 300 90 10 1 294 1 235 1.08e-67 212
MsaG039142 AT3G44460.1 34.471 293 147 8 16 296 35 294 5.66e-26 105
MsaG039142 AT3G19290.4 43.571 140 61 3 16 137 34 173 1.11e-23 100
MsaG039142 AT3G19290.4 65.306 49 17 0 245 293 347 395 1.76e-13 71.2
MsaG039142 AT3G19290.2 43.571 140 61 3 16 137 34 173 1.50e-23 100
MsaG039142 AT3G19290.3 43.571 140 61 3 16 137 34 173 1.83e-23 100
MsaG039142 AT3G19290.3 65.306 49 17 0 245 293 347 395 2.76e-13 70.5
MsaG039142 AT3G19290.1 43.571 140 61 3 16 137 34 173 2.00e-23 100
MsaG039142 AT3G19290.1 65.306 49 17 0 245 293 347 395 2.83e-13 70.5
MsaG039142 AT3G19290.5 43.571 140 61 3 16 137 34 173 2.00e-23 100
MsaG039142 AT3G19290.5 65.306 49 17 0 245 293 347 395 2.83e-13 70.5
MsaG039142 AT1G45249.7 53.153 111 37 5 218 320 327 430 4.99e-20 90.5
MsaG039142 AT1G45249.7 42.553 141 54 6 16 137 36 168 6.66e-19 87.0
MsaG039142 AT1G45249.6 53.153 111 37 5 218 320 327 430 4.99e-20 90.5
MsaG039142 AT1G45249.6 42.553 141 54 6 16 137 36 168 6.66e-19 87.0
MsaG039142 AT1G45249.1 53.153 111 37 5 218 320 312 415 5.36e-20 90.1
MsaG039142 AT1G45249.1 42.553 141 54 6 16 137 21 153 7.09e-19 87.0
MsaG039142 AT1G45249.10 42.553 141 54 6 16 137 21 153 7.38e-19 86.7
MsaG039142 AT1G45249.5 42.553 141 54 6 16 137 21 153 7.38e-19 86.7
MsaG039142 AT1G45249.4 42.553 141 54 6 16 137 21 153 9.00e-19 86.7
MsaG039142 AT1G45249.8 42.553 141 54 6 16 137 21 153 9.00e-19 86.7
MsaG039142 AT1G45249.2 42.553 141 54 6 16 137 21 153 9.00e-19 86.7
MsaG039142 AT1G45249.9 42.553 141 54 6 16 137 21 153 9.00e-19 86.7
MsaG039142 AT1G45249.3 42.553 141 54 6 16 137 21 153 9.63e-19 86.7
MsaG039142 AT1G45249.3 48.361 122 37 6 218 320 312 426 3.66e-17 82.0
MsaG039142 AT2G36270.3 70.149 67 18 2 234 299 341 406 3.27e-18 85.1
MsaG039142 AT2G36270.1 70.149 67 18 2 234 299 341 406 3.46e-18 85.1
MsaG039142 AT2G36270.2 70.149 67 18 2 234 299 341 406 3.46e-18 85.1
MsaG039142 AT4G34000.3 48.113 106 44 3 198 293 312 416 1.12e-17 83.6
MsaG039142 AT4G34000.3 34.132 167 59 5 16 137 27 187 2.68e-17 82.4
MsaG039142 AT4G34000.1 48.113 106 44 3 198 293 312 416 1.46e-17 83.6
MsaG039142 AT4G34000.1 34.132 167 59 5 16 137 27 187 2.78e-17 82.4
MsaG039142 AT4G34000.4 48.113 106 44 3 198 293 312 416 1.46e-17 83.6
MsaG039142 AT4G34000.4 34.132 167 59 5 16 137 27 187 2.78e-17 82.4
MsaG039142 AT4G34000.2 48.113 106 44 3 198 293 312 416 1.46e-17 83.6
MsaG039142 AT4G34000.2 34.132 167 59 5 16 137 27 187 2.78e-17 82.4
MsaG039142 AT4G35900.1 56.579 76 32 1 246 321 211 285 3.24e-17 80.9
MsaG039142 AT2G17770.2 55.556 72 31 1 250 321 125 195 5.98e-15 72.8
MsaG039142 AT1G49720.1 52.632 95 35 4 235 320 298 391 1.08e-14 74.7
MsaG039142 AT1G49720.3 52.632 95 35 4 235 320 298 391 1.08e-14 74.7
MsaG039142 AT1G49720.2 64.407 59 20 1 235 293 298 355 2.05e-13 70.9
MsaG039142 AT1G03970.1 29.665 209 82 6 96 298 85 234 5.40e-12 65.5
MsaG039142 AT5G44080.1 47.674 86 33 2 245 318 227 312 3.14e-11 63.9
MsaG039142 AT5G42910.1 32.031 128 57 3 15 133 19 125 5.02e-11 63.5
MsaG039142 AT5G42910.1 42.991 107 51 5 219 318 264 367 7.58e-11 62.8

Find 82 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAAAATCAGCTTGGAAATTT+AGG 0.083769 7:-85207039 MsaT039142.1:CDS
CAGCATGGTCAACTGGCTTC+TGG 0.131375 7:-85206910 MsaT039142.1:CDS
ATGAATCCATTGACACTTTC+TGG 0.149546 7:-85206880 MsaT039142.1:CDS
CAAGGTTCTGGGTTGGATTC+TGG 0.152919 7:-85206952 MsaT039142.1:CDS
TCTGAAGCTGCTCAAGGTTC+TGG 0.221535 7:-85206964 MsaT039142.1:CDS
AAAATCAGCTTGGAAATTTA+GGG 0.258433 7:-85207038 MsaT039142.1:CDS
TTTGTCACCGTCTTCTTTAA+TGG 0.283520 7:-85206476 MsaT039142.1:CDS
TGTGGTTCAACAGCCTGTTT+TGG 0.318849 7:-85206527 MsaT039142.1:CDS
AGAAAACTATTGATGAGGTT+TGG 0.366361 7:-85206846 MsaT039142.1:CDS
ACAGAAGAAGAGTGCTAGTC+AGG 0.399470 7:-85206812 MsaT039142.1:CDS
GTTCTGCGAAGCTGATGCTT+AGG 0.411723 7:+85204450 None:intergenic
GGGTCTGGTGGTGGCATACT+TGG 0.413639 7:+85204471 None:intergenic
ATCTAGATTCATGCTTCCTA+AGG 0.414294 7:+85207011 None:intergenic
CACAAACTCAAGGTAGGAAA+AGG 0.414409 7:-85206438 MsaT039142.1:CDS
TCGGTCGCGGGCTAGAAAAC+AGG 0.419550 7:-85206338 MsaT039142.1:intron
CTGAAGCTGCTCAAGGTTCT+GGG 0.427919 7:-85206963 MsaT039142.1:CDS
AGAACAAAAGACTGGAACTT+TGG 0.437900 7:-85207103 MsaT039142.1:CDS
GTGTATCCTGCATCCAAAAC+AGG 0.438961 7:+85206514 None:intergenic
TTACATGCAGCATGGTCAAC+TGG 0.446389 7:-85206917 MsaT039142.1:CDS
ATGAGTTGCTGAAGAGTTTG+TGG 0.448987 7:-85206990 MsaT039142.1:CDS
GGGAATCTGCAGCTCGGTCG+CGG 0.454529 7:-85206351 MsaT039142.1:CDS
AGCATGGTCAACTGGCTTCT+GGG 0.456125 7:-85206909 MsaT039142.1:CDS
TTTGCAATAAAGTCTTCAAA+GGG 0.467582 7:+85204416 None:intergenic
ATACATCCCAGCATGGTCAT+TGG 0.471305 7:-85206654 MsaT039142.1:CDS
AGCTGCTCAAGGTTCTGGGT+TGG 0.476833 7:-85206959 MsaT039142.1:CDS
TTCTGCGAAGCTGATGCTTA+GGG 0.478401 7:+85204451 None:intergenic
CTGTGGAGAGGAGGCAGAAG+AGG 0.493448 7:-85206387 MsaT039142.1:CDS
ACTTGGTGAGATGACTTTGG+AGG 0.493788 7:-85206773 MsaT039142.1:CDS
TGATGCTGATGTTGTTGTTG+TGG 0.499071 7:+85206601 None:intergenic
AGTGAGGATAATGCTATGTC+AGG 0.499581 7:-85206709 MsaT039142.1:CDS
GAGGATTTCTTGATGAAAGC+TGG 0.506897 7:-85206754 MsaT039142.1:CDS
GGAAATTTAGGGAAACCCTT+AGG 0.509333 7:-85207027 MsaT039142.1:CDS
AGATCACCAGAAAGTGTCAA+TGG 0.510245 7:+85206874 None:intergenic
TGTTGTGGTTGCTGCACTGA+AGG 0.512843 7:+85206616 None:intergenic
GATGAGGTTCAAAATCAGCT+TGG 0.519734 7:-85207048 MsaT039142.1:CDS
CATCAGAATAATATGATGAC+TGG 0.520032 7:-85206574 MsaT039142.1:CDS
GGAATCTGCAGCTCGGTCGC+GGG 0.521215 7:-85206350 MsaT039142.1:CDS
AAGGGTTGCCTCTGGTGTTG+TGG 0.526242 7:-85206419 MsaT039142.1:CDS
GGTAGGAAAAGGGTTGCCTC+TGG 0.527641 7:-85206427 MsaT039142.1:CDS
TACACTTGGTGAGATGACTT+TGG 0.528431 7:-85206776 MsaT039142.1:CDS
CGAAGCTGATGCTTAGGGTC+TGG 0.529237 7:+85204456 None:intergenic
GTTGTGGTTGCTGCACTGAA+GGG 0.529499 7:+85206617 None:intergenic
TGGACATCTGAAGCTGCTCA+AGG 0.541485 7:-85206970 MsaT039142.1:CDS
ACAGGCTTACACACAAGAGC+TGG 0.542704 7:-85206222 MsaT039142.1:intron
ACAAACTCAAGGTAGGAAAA+GGG 0.545104 7:-85206437 MsaT039142.1:CDS
AGAAGAGTGCTAGTCAGGAT+AGG 0.552109 7:-85206807 MsaT039142.1:CDS
AAAAGACTGGAACTTTGGCT+AGG 0.557530 7:-85207098 MsaT039142.1:CDS
CAGATACACAAACTCAAGGT+AGG 0.558085 7:-85206444 MsaT039142.1:CDS
GCAATCCAAGAACAAAAGAC+TGG 0.559028 7:-85207111 MsaT039142.1:CDS
TGATGCTTAGGGTCTGGTGG+TGG 0.567579 7:+85204462 None:intergenic
GTACAATCTCACATTTGATG+AGG 0.569368 7:-85207064 MsaT039142.1:CDS
TCTAGATTCATGCTTCCTAA+GGG 0.569459 7:+85207012 None:intergenic
TTGGATTCTGGAACCACTGA+TGG 0.570371 7:-85206940 MsaT039142.1:CDS
GTTGCTGCACTGAAGGGACT+TGG 0.573952 7:+85206623 None:intergenic
TAGTAAGAAAACTATTGATG+AGG 0.581872 7:-85206851 MsaT039142.1:CDS
ACTGCATCCAATGACCATGC+TGG 0.582214 7:+85206647 None:intergenic
ACTTAGAAGAAGAGAATGAA+AGG 0.584805 7:-85206184 MsaT039142.1:CDS
AGGATAATGCTATGTCAGGA+AGG 0.586500 7:-85206705 MsaT039142.1:CDS
CACTGAATCATTTCCTAGTG+AGG 0.587073 7:-85206725 MsaT039142.1:CDS
AGCTGATGCTTAGGGTCTGG+TGG 0.587120 7:+85204459 None:intergenic
AAAGACTGGAACTTTGGCTA+GGG 0.596011 7:-85207097 MsaT039142.1:CDS
CTGCATCCAATGACCATGCT+GGG 0.608106 7:+85206648 None:intergenic
ACTGGAACTTTGGCTAGGGA+AGG 0.612277 7:-85207093 MsaT039142.1:CDS
TTGAGAAAACTGTGGAGAGG+AGG 0.618222 7:-85206396 MsaT039142.1:CDS
AAAATAGGGAATCTGCAGCT+CGG 0.624873 7:-85206357 MsaT039142.1:CDS
TTGAAAATGGGATCTCATGG+AGG 0.632717 7:-85207135 None:intergenic
ATGCTGCATGTAACCATCAG+TGG 0.635290 7:+85206927 None:intergenic
GATAGGAGAACAGCTACACT+TGG 0.637974 7:-85206790 MsaT039142.1:CDS
TCATCAGATACACAAACTCA+AGG 0.638560 7:-85206448 MsaT039142.1:CDS
AGGTTATATGACTAGTCATG+TGG 0.640844 7:-85206545 MsaT039142.1:CDS
GAAGTAGCCATTAAAGAAGA+CGG 0.641922 7:+85206469 None:intergenic
TTTCTTGATGAAAGCTGGTG+TGG 0.647086 7:-85206749 MsaT039142.1:CDS
CTCACTAGGAAATGATTCAG+TGG 0.653229 7:+85206726 None:intergenic
TTTCTCAACCACAACACCAG+AGG 0.653421 7:+85206411 None:intergenic
TGCAGGATACACTGAAGCAA+TGG 0.653801 7:-85206503 MsaT039142.1:CDS
GGATAATGCTATGTCAGGAA+GGG 0.659996 7:-85206704 MsaT039142.1:CDS
GACATAGCATTATCCTCACT+AGG 0.666638 7:+85206712 None:intergenic
TGGTTGAGAAAACTGTGGAG+AGG 0.682616 7:-85206399 MsaT039142.1:CDS
ACTGATGGTTACATGCAGCA+TGG 0.688917 7:-85206925 MsaT039142.1:CDS
CAACAAAATACATCCCAGCA+TGG 0.693166 7:-85206661 MsaT039142.1:CDS
TTGCAATAAAGTCTTCAAAG+GGG 0.695239 7:+85204417 None:intergenic
TGTTGTGGTTGAGAAAACTG+TGG 0.749971 7:-85206404 MsaT039142.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 85204431 85207151 85204431 ID=MsaG039142
Chr7 mRNA 85204431 85207151 85204431 ID=MsaT039142.1;Parent=MsaG039142
Chr7 exon 85204431 85204511 85204431 ID=MsaT039142.1.exon3;Parent=MsaT039142.1
Chr7 CDS 85204431 85204511 85204431 ID=cds.MsaT039142.1;Parent=MsaT039142.1
Chr7 exon 85206169 85206240 85206169 ID=MsaT039142.1.exon2;Parent=MsaT039142.1
Chr7 CDS 85206169 85206240 85206169 ID=cds.MsaT039142.1;Parent=MsaT039142.1
Chr7 exon 85206339 85207151 85206339 ID=MsaT039142.1.exon1;Parent=MsaT039142.1
Chr7 CDS 85206339 85207151 85206339 ID=cds.MsaT039142.1;Parent=MsaT039142.1
Gene Sequence

>MsaT039142.1

ATGGGATCTCATGGAGGAGCAATCCAAGAACAAAAGACTGGAACTTTGGCTAGGGAAGGATCTTTGTACAATCTCACATTTGATGAGGTTCAAAATCAGCTTGGAAATTTAGGGAAACCCTTAGGAAGCATGAATCTAGATGAGTTGCTGAAGAGTTTGTGGACATCTGAAGCTGCTCAAGGTTCTGGGTTGGATTCTGGAACCACTGATGGTTACATGCAGCATGGTCAACTGGCTTCTGGGTCATCTATGAATCCATTGACACTTTCTGGTGATCTTAGTAAGAAAACTATTGATGAGGTTTGGAGAGATATGCAACAGAAGAAGAGTGCTAGTCAGGATAGGAGAACAGCTACACTTGGTGAGATGACTTTGGAGGATTTCTTGATGAAAGCTGGTGTGGCCACTGAATCATTTCCTAGTGAGGATAATGCTATGTCAGGAAGGGTTGATTCTCAACAACAACAGCAACAAAATACATCCCAGCATGGTCATTGGATGCAGTACCAAGTCCCTTCAGTGCAGCAACCACAACAACAACATCAGCATCAAAATCATCAGAATAATATGATGACTGGTTTTGCAGGTTATATGACTAGTCATGTGGTTCAACAGCCTGTTTTGGATGCAGGATACACTGAAGCAATGGTGAGTTTGTCACCGTCTTCTTTAATGGCTACTTCATCAGATACACAAACTCAAGGTAGGAAAAGGGTTGCCTCTGGTGTTGTGGTTGAGAAAACTGTGGAGAGGAGGCAGAAGAGGATGATTAAAAATAGGGAATCTGCAGCTCGGTCGCGGGCTAGAAAACAGGCTTACACACAAGAGCTGGAGATCAAAGTTTCACACTTAGAAGAAGAGAATGAAAGGCTTAAAAGATTGCATGAGATAGAGAGAGTATTGCCAAGTATGCCACCACCAGACCCTAAGCATCAGCTTCGCAGAACTAGCTCAGCTCCCCTTTGA
Protein sequence

>MsaT039142.1

MGSHGGAIQEQKTGTLAREGSLYNLTFDEVQNQLGNLGKPLGSMNLDELLKSLWTSEAAQGSGLDSGTTDGYMQHGQLASGSSMNPLTLSGDLSKKTIDEVWRDMQQKKSASQDRRTATLGEMTLEDFLMKAGVATESFPSEDNAMSGRVDSQQQQQQNTSQHGHWMQYQVPSVQQPQQQHQHQNHQNNMMTGFAGYMTSHVVQQPVLDAGYTEAMVSLSPSSLMATSSDTQTQGRKRVASGVVVEKTVERRQKRMIKNRESAARSRARKQAYTQELEIKVSHLEEENERLKRLHEIERVLPSMPPPDPKHQLRRTSSAPL*