AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033878


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033878 MtrunA17_Chr6g0479911 98.270 289 5 0 1 289 1 289 0.0 590
MsaG033878 MtrunA17_Chr8g0375531 52.577 291 120 10 4 289 3 280 2.88e-82 249
MsaG033878 MtrunA17_Chr1g0156031 55.263 114 51 0 176 289 227 340 1.30e-45 157
MsaG033878 MtrunA17_Chr8g0385961 32.806 253 163 4 40 289 64 312 1.38e-44 153
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033878 AT2G01930.2 51.163 301 117 10 1 289 1 283 1.09e-94 281
MsaG033878 AT2G01930.1 51.163 301 117 10 1 289 1 283 1.09e-94 281
MsaG033878 AT1G14685.1 50.847 295 123 8 1 289 1 279 3.67e-88 264
MsaG033878 AT1G14685.4 50.847 295 123 8 1 289 1 279 3.67e-88 264
MsaG033878 AT1G14685.3 50.847 295 123 8 1 289 1 279 3.67e-88 264
MsaG033878 AT1G14685.2 50.847 295 123 8 1 289 1 279 3.67e-88 264
MsaG033878 AT1G68120.1 46.780 295 120 10 4 289 3 269 7.89e-77 235
MsaG033878 AT2G35550.2 54.422 147 65 2 143 289 82 226 6.32e-50 165
MsaG033878 AT2G35550.4 54.422 147 65 2 143 289 82 226 6.32e-50 165
MsaG033878 AT2G35550.3 54.422 147 65 2 143 289 82 226 6.32e-50 165
MsaG033878 AT2G35550.1 54.422 147 65 2 143 289 127 271 8.75e-50 166
MsaG033878 AT2G21240.1 32.830 265 163 5 28 289 44 296 4.99e-44 152
MsaG033878 AT2G21240.2 32.830 265 163 5 28 289 44 296 4.99e-44 152
MsaG033878 AT5G42520.3 56.075 107 46 1 184 289 176 282 5.52e-42 146
MsaG033878 AT5G42520.2 56.075 107 46 1 184 289 232 338 8.08e-42 147
MsaG033878 AT5G42520.1 56.075 107 46 1 184 289 236 342 1.09e-41 147
MsaG033878 AT4G38910.1 43.478 138 77 1 152 289 122 258 1.24e-41 144
MsaG033878 AT4G38910.2 43.478 138 77 1 152 289 147 283 1.75e-41 145

Find 97 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATATCACCATCGGGAAAT+TGG 0.178341 6:+101335807 MsaT033878.1:CDS
CGATAGATTTGAGGACTTAT+TGG 0.234611 6:+101336456 MsaT033878.1:CDS
TGCAATTAACGGGATTGATT+TGG 0.279573 6:+101336199 MsaT033878.1:CDS
GATAGATTTGAGGACTTATT+GGG 0.312732 6:+101336457 MsaT033878.1:CDS
CCAACAAGTTTGTTACTATC+AGG 0.343708 6:+101336492 MsaT033878.1:CDS
GCCTCAAACTACTTACCCTT+TGG 0.344791 6:+101335833 MsaT033878.1:CDS
ATTCCTGTTTGTTCTTGCAC+TGG 0.347046 6:+101336239 MsaT033878.1:CDS
CTTACCCTTTGGATTATATG+AGG 0.349085 6:+101335844 MsaT033878.1:CDS
CACCTCAACAATGTTATAGA+TGG 0.355446 6:+101336264 MsaT033878.1:CDS
ATGGACTTAACATAAGCAAT+TGG 0.360767 6:+101335661 MsaT033878.1:CDS
TTTCTAATCCGATAGATTTG+AGG 0.399273 6:+101336447 MsaT033878.1:CDS
AATGATTCGACCATGTGAAT+TGG 0.408906 6:+101335983 MsaT033878.1:CDS
CATATCACCATCGGGAAATT+GGG 0.409037 6:+101335808 MsaT033878.1:CDS
CCGGAAAAGCCGCCTCTGAT+TGG 0.413055 6:+101335747 MsaT033878.1:CDS
TGGACTTAACATAAGCAATT+GGG 0.420997 6:+101335662 MsaT033878.1:CDS
CTACGGAAATTGCAATTAAC+GGG 0.422090 6:+101336189 MsaT033878.1:CDS
TTAGGAGACTTCGGCACCTT+CGG 0.426454 6:-101336080 None:intergenic
TCGACCATGTGAATTGGTTA+AGG 0.427145 6:+101335989 MsaT033878.1:CDS
ACTACGGAAATTGCAATTAA+CGG 0.434305 6:+101336188 MsaT033878.1:CDS
CCTGATAGTAACAAACTTGT+TGG 0.444146 6:-101336492 None:intergenic
CTATAACCTGGAGGGTTAGT+AGG 0.446214 6:-101335921 None:intergenic
CGAAATGCCGCGGTTATGTC+GGG 0.452368 6:+101335774 MsaT033878.1:CDS
CTCTTCGGCTTCTTTGCCTT+AGG 0.455380 6:-101336098 None:intergenic
ACCACAGGTGCTTCCTCCAT+TGG 0.459398 6:-101336020 None:intergenic
TAATTTAGTGTTGTAATGGA+TGG 0.462352 6:+101335633 None:intergenic
ATAGATGGGGCTCGGGTGGA+TGG 0.464652 6:+101336279 MsaT033878.1:CDS
TTCCTGTTTGTTCTTGCACT+GGG 0.468493 6:+101336240 MsaT033878.1:CDS
TGATTCTTAAAAGATGAAAC+AGG 0.473276 6:-101335696 None:intergenic
AGGTTATAGTACTAGTATTC+CGG 0.475931 6:+101335935 MsaT033878.1:CDS
GTTGTAATGGATGGAGATAA+TGG 0.478647 6:+101335642 None:intergenic
ACAATGTTATAGATGGGGCT+CGG 0.487220 6:+101336271 MsaT033878.1:CDS
GGCACACGAGGTCCTCTCTT+CGG 0.493154 6:-101336113 None:intergenic
CCATTCACCTTCTCGACCAC+AGG 0.494618 6:-101336035 None:intergenic
ACAACTGATGCCATCGATGC+CGG 0.499881 6:+101335728 MsaT033878.1:CDS
TTCTTTGCCTTAGGAGACTT+CGG 0.501514 6:-101336089 None:intergenic
GTCCCAGTGCAAGAACAAAC+AGG 0.501675 6:-101336242 None:intergenic
TCGAAATGCCGCGGTTATGT+CGG 0.501909 6:+101335773 MsaT033878.1:CDS
GTGCAAGAACAAACAGGAAT+CGG 0.503075 6:-101336236 None:intergenic
GAAGGAGAATTCTCGTCCTT+CGG 0.503811 6:-101336134 None:intergenic
CAATGTTATAGATGGGGCTC+GGG 0.507375 6:+101336272 MsaT033878.1:CDS
CCTGTGGTCGAGAAGGTGAA+TGG 0.509475 6:+101336035 MsaT033878.1:CDS
ACCTCAACAATGTTATAGAT+GGG 0.523017 6:+101336265 MsaT033878.1:CDS
CCGCGTCGTTTAGTACTCAT+AGG 0.528654 6:-101336344 None:intergenic
CAATAAGTCCTCAAATCTAT+CGG 0.528692 6:-101336455 None:intergenic
GTCGAGAAGGTGAATGGAAC+TGG 0.530658 6:+101336041 MsaT033878.1:CDS
TCCAAAGGGTAAGTAGTTTG+AGG 0.531276 6:-101335834 None:intergenic
GAAGGACGAGAATTCTCCTT+CGG 0.531353 6:+101336136 MsaT033878.1:CDS
CTTGGTGTTCGTTGAACCGA+AGG 0.532361 6:-101336152 None:intergenic
TTACCCTTTGGATTATATGA+GGG 0.536203 6:+101335845 MsaT033878.1:CDS
CATCCCTCATATAATCCAAA+GGG 0.541845 6:-101335848 None:intergenic
TGTTATAGATGGGGCTCGGG+TGG 0.542239 6:+101336275 MsaT033878.1:CDS
TGGATTATATGAGGGATGCA+TGG 0.548813 6:+101335853 MsaT033878.1:CDS
TTCTCGTCCTTCGGCACACG+AGG 0.552572 6:-101336125 None:intergenic
TAACGGTGCATATCACCATC+GGG 0.558932 6:+101335800 MsaT033878.1:CDS
ATTAGAGAAACTTGCAGCCG+AGG 0.559521 6:+101336415 MsaT033878.1:CDS
ATTAGAAAAGTTATAACCCT+CGG 0.560267 6:-101336432 None:intergenic
AGGACTTATTGGGCAAAACA+TGG 0.561945 6:+101336467 MsaT033878.1:CDS
ATGATACCTACTAACCCTCC+AGG 0.562585 6:+101335915 MsaT033878.1:CDS
GAGAGGACCTCGTGTGCCGA+AGG 0.571472 6:+101336118 MsaT033878.1:CDS
GCCGGAAGGAAAATGAGTAT+AGG 0.573233 6:+101336377 MsaT033878.1:CDS
TTAGAGAAACTTGCAGCCGA+GGG 0.574547 6:+101336416 MsaT033878.1:CDS
CGACGCGGTGCTAGAATAGC+CGG 0.576753 6:+101336359 MsaT033878.1:CDS
TGATGAGCTGAAGATGTCTC+CGG 0.579222 6:-101335954 None:intergenic
GCGGTTATGTCGGGAACTAA+CGG 0.579757 6:+101335783 MsaT033878.1:CDS
GGAAGCACCTGTGGTCGAGA+AGG 0.588134 6:+101336028 MsaT033878.1:CDS
GAAGGTGCCGAAGTCTCCTA+AGG 0.590939 6:+101336082 MsaT033878.1:CDS
GCATCCCTCATATAATCCAA+AGG 0.600896 6:-101335849 None:intergenic
GGACTTAACATAAGCAATTG+GGG 0.601047 6:+101335663 MsaT033878.1:CDS
TTCGGTTCAACGAACACCAA+GGG 0.601561 6:+101336154 MsaT033878.1:CDS
GCATTTCGACTTCCAATCAG+AGG 0.603067 6:-101335759 None:intergenic
CAAGTTTGTTACTATCAGGT+AGG 0.604667 6:+101336496 MsaT033878.1:CDS
GCCAATGGAGGAAGCACCTG+TGG 0.607095 6:+101336019 MsaT033878.1:CDS
CTAACGGTGCATATCACCAT+CGG 0.608113 6:+101335799 MsaT033878.1:CDS
AAGGGCACAAAAGAAAACTA+CGG 0.609634 6:+101336172 MsaT033878.1:CDS
CGTTTAGTACTCATAGGCAA+AGG 0.610952 6:-101336338 None:intergenic
ATGCATGGATTAGTAGTCAG+AGG 0.611474 6:+101335868 MsaT033878.1:CDS
GAGGCATCCCAATTTCCCGA+TGG 0.615246 6:-101335815 None:intergenic
AAGGCAAAGAAGCCGAAGAG+AGG 0.622231 6:+101336101 MsaT033878.1:CDS
CCCCATCTATAACATTGTTG+AGG 0.623582 6:-101336266 None:intergenic
TAAGAAGAGGCAAGGACCGA+AGG 0.629324 6:+101336064 MsaT033878.1:CDS
TACTAGTACTATAACCTGGA+GGG 0.630649 6:-101335929 None:intergenic
TCTTCCTTAACCAATTCACA+TGG 0.638004 6:-101335993 None:intergenic
GGAATACTAGTACTATAACC+TGG 0.638956 6:-101335933 None:intergenic
GGTTAAGGAAGAAATGCCAA+TGG 0.642003 6:+101336004 MsaT033878.1:CDS
TGCATGGATTAGTAGTCAGA+GGG 0.642777 6:+101335869 MsaT033878.1:CDS
TGAATGGAACTGGTAAGAAG+AGG 0.650068 6:+101336051 MsaT033878.1:CDS
GGAACTGGTAAGAAGAGGCA+AGG 0.651851 6:+101336056 MsaT033878.1:CDS
TTTCGACTTCCAATCAGAGG+CGG 0.656585 6:-101335756 None:intergenic
CCTCAACAATGTTATAGATG+GGG 0.670226 6:+101336266 MsaT033878.1:CDS
TAAGGAAGAAATGCCAATGG+AGG 0.676077 6:+101336007 MsaT033878.1:CDS
CTTCGGTTCAACGAACACCA+AGG 0.677515 6:+101336153 MsaT033878.1:CDS
GATTGGAAGTCGAAATGCCG+CGG 0.697890 6:+101335764 MsaT033878.1:CDS
ATACTAGTACTATAACCTGG+AGG 0.700408 6:-101335930 None:intergenic
GCAGTCTGCATGCTGCACAA+CGG 0.723033 6:+101336301 MsaT033878.1:CDS
GCGGTGCTAGAATAGCCGGA+AGG 0.737428 6:+101336363 MsaT033878.1:CDS
GTTAGTTCCCGACATAACCG+CGG 0.737494 6:-101335781 None:intergenic
CCTATGAGTACTAAACGACG+CGG 0.777544 6:+101336344 MsaT033878.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 101335648 101336517 101335648 ID=MsaG033878
Chr6 mRNA 101335648 101336517 101335648 ID=MsaT033878.1;Parent=MsaG033878
Chr6 exon 101335648 101336517 101335648 ID=MsaT033878.1.exon1;Parent=MsaT033878.1
Chr6 CDS 101335648 101336517 101335648 ID=cds.MsaT033878.1;Parent=MsaT033878.1
Gene Sequence

>MsaT033878.1

ATGGATGGAGATAATGGACTTAACATAAGCAATTGGGGATACTATGAACCTGTTTCATCTTTTAAGAATCATCTTGGTTTACAACTGATGCCATCGATGCCGGAAAAGCCGCCTCTGATTGGAAGTCGAAATGCCGCGGTTATGTCGGGAACTAACGGTGCATATCACCATCGGGAAATTGGGATGCCTCAAACTACTTACCCTTTGGATTATATGAGGGATGCATGGATTAGTAGTCAGAGGGATAATAAGTATATGAATATGAATATGATACCTACTAACCCTCCAGGTTATAGTACTAGTATTCCGGAGACATCTTCAGCTCATCATATTCAAATGATTCGACCATGTGAATTGGTTAAGGAAGAAATGCCAATGGAGGAAGCACCTGTGGTCGAGAAGGTGAATGGAACTGGTAAGAAGAGGCAAGGACCGAAGGTGCCGAAGTCTCCTAAGGCAAAGAAGCCGAAGAGAGGACCTCGTGTGCCGAAGGACGAGAATTCTCCTTCGGTTCAACGAACACCAAGGGCACAAAAGAAAACTACGGAAATTGCAATTAACGGGATTGATTTGGATATTTCAAGTATTCCGATTCCTGTTTGTTCTTGCACTGGGACACCTCAACAATGTTATAGATGGGGCTCGGGTGGATGGCAGTCTGCATGCTGCACAACGGCTATATCGATATATCCTTTGCCTATGAGTACTAAACGACGCGGTGCTAGAATAGCCGGAAGGAAAATGAGTATAGGAGCTTTTAAGAAAGTATTAGAGAAACTTGCAGCCGAGGGTTATAACTTTTCTAATCCGATAGATTTGAGGACTTATTGGGCAAAACATGGCACCAACAAGTTTGTTACTATCAGGTAG

Protein sequence

>MsaT033878.1

MDGDNGLNISNWGYYEPVSSFKNHLGLQLMPSMPEKPPLIGSRNAAVMSGTNGAYHHREIGMPQTTYPLDYMRDAWISSQRDNKYMNMNMIPTNPPGYSTSIPETSSAHHIQMIRPCELVKEEMPMEEAPVVEKVNGTGKKRQGPKVPKSPKAKKPKRGPRVPKDENSPSVQRTPRAQKKTTEIAINGIDLDISSIPIPVCSCTGTPQQCYRWGSGGWQSACCTTAISIYPLPMSTKRRGARIAGRKMSIGAFKKVLEKLAAEGYNFSNPIDLRTYWAKHGTNKFVTIR*