AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG001943


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG001943 MtrunA17_Chr1g0169561 87.261 314 40 0 60 373 1 314 0.0 536
MsaG001943 MtrunA17_Chr1g0169521 86.984 315 41 0 60 374 1 315 0.0 534
MsaG001943 MtrunA17_Chr1g0174001 75.258 194 35 2 194 374 1 194 1.35e-95 283
MsaG001943 MtrunA17_Chr7g0214511 56.596 235 76 8 153 375 67 287 4.66e-62 201
MsaG001943 MtrunA17_Chr1g0172861 37.425 334 118 14 64 374 12 277 1.38e-37 136
MsaG001943 MtrunA17_Chr1g0174871 34.899 298 135 12 96 375 29 285 2.67e-34 128
MsaG001943 MtrunA17_Chr1g0172961 34.982 283 116 12 64 327 12 245 5.75e-28 110
MsaG001943 MtrunA17_Chr1g0193731 36.296 270 84 10 130 374 16 222 5.08e-27 108
MsaG001943 MtrunA17_Chr1g0174861 39.286 196 91 7 157 340 45 224 2.34e-25 103
MsaG001943 MtrunA17_Chr4g0037041 37.714 175 61 5 72 243 10 139 7.55e-21 89.4
MsaG001943 MtrunA17_Chr1g0180581 34.468 235 87 9 147 374 45 219 1.18e-19 86.7
MsaG001943 MtrunA17_Chr1g0180571 53.947 76 19 2 295 370 13 72 6.38e-13 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 64 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACATTGTTATATATGTCTTA+TGG 0.192869 1:+28923619 MsaT001943.1:CDS
AGCGAAGATGAAACTGAATT+AGG 0.276698 1:+28923865 MsaT001943.1:CDS
AGGTTGAGGAAGAGTGTTAG+AGG 0.283104 1:-28923200 None:intergenic
CATTGTTATATATGTCTTAT+GGG 0.313934 1:+28923620 MsaT001943.1:CDS
GATCACTTGAATGATGAAAA+TGG 0.324278 1:-28922859 None:intergenic
AACTATAGGGTTTGAACTTA+GGG 0.333626 1:-28922946 None:intergenic
AAACTATAGGGTTTGAACTT+AGG 0.336722 1:-28922947 None:intergenic
ATTATCATCCACCGTATTGC+TGG 0.360275 1:-28923677 None:intergenic
ATGTCCATTCAAACCACTAT+TGG 0.376246 1:-28923386 None:intergenic
TGAATGATGAAAATGGAAAT+AGG 0.384414 1:-28922852 None:intergenic
TTCATGATGTTGTGAGTGTT+TGG 0.387952 1:-28922989 None:intergenic
ATGTTGTGAGTGTTTGGTTC+AGG 0.392267 1:-28922983 None:intergenic
ATCAGAAATACGCCTTCTCC+TGG 0.396596 1:-28923566 None:intergenic
GTTATGAGGGATCAACTAAA+AGG 0.407447 1:+28923644 MsaT001943.1:CDS
GCGAAGATGAAACTGAATTA+GGG 0.408376 1:+28923866 MsaT001943.1:CDS
GACTTTGTTCCAAGGAAGAT+GGG 0.419216 1:-28923468 None:intergenic
TCATCCAATAGTGGTTTGAA+TGG 0.425109 1:+28923382 MsaT001943.1:CDS
CACAAACATAATCATGATGA+TGG 0.427443 1:+28923316 MsaT001943.1:CDS
AACAGAAAAGAAACACTAAC+TGG 0.431171 1:-28923950 None:intergenic
AGTGTTAGAGGAGCGGTGAA+TGG 0.433506 1:-28923188 None:intergenic
TGACTTTGTTCCAAGGAAGA+TGG 0.439982 1:-28923469 None:intergenic
ACCGACTGCCCCATCTTCCT+TGG 0.446430 1:+28923459 MsaT001943.1:CDS
TGTTACAAACATCAGATGTA+TGG 0.450947 1:-28923351 None:intergenic
TACTTTGACAAGTCAGTAGA+TGG 0.459060 1:-28923505 None:intergenic
AACTGTAGATTCTTGAACCT+GGG 0.459451 1:-28923111 None:intergenic
TACTCAAAAGGTTTCGAAGA+AGG 0.479922 1:+28923420 MsaT001943.1:CDS
CAACTGTAGATTCTTGAACC+TGG 0.492609 1:-28923112 None:intergenic
TGTCACAAAACATTCACCTC+TGG 0.499496 1:+28923142 MsaT001943.1:CDS
AATTAGGGTCAAGAGTTGTC+AGG 0.507473 1:+28923881 MsaT001943.1:CDS
CGTTATTCACAGCATGATCA+TGG 0.509884 1:-28923240 None:intergenic
TATCATCTTCAAGAGTCTGT+TGG 0.516591 1:-28923081 None:intergenic
CATGATCATGCTGTGAATAA+CGG 0.518528 1:+28923241 MsaT001943.1:CDS
AACAAGGTGTGCTGCTAACA+AGG 0.519240 1:+28923713 MsaT001943.1:CDS
TATGAGATGGCATACTCAAA+AGG 0.524463 1:+28923408 MsaT001943.1:CDS
GGATCTAGCTGTGATATTGA+AGG 0.530396 1:+28923829 MsaT001943.1:CDS
ACTCAAAAGGTTTCGAAGAA+GGG 0.536160 1:+28923421 MsaT001943.1:CDS
TTGGTCTTATATGATATTGG+CGG 0.539661 1:-28923532 None:intergenic
CTCAAGTTGACTTTGTTCCA+AGG 0.540256 1:-28923476 None:intergenic
ATTGTTATATATGTCTTATG+GGG 0.542437 1:+28923621 MsaT001943.1:CDS
TCAAACATCGCAAGATTGCA+AGG 0.542865 1:+28923798 MsaT001943.1:CDS
GCAGAAGATTTCCAGCAATA+CGG 0.546299 1:+28923666 MsaT001943.1:CDS
TCAAACGAATGGTGAGAAGA+AGG 0.549246 1:-28923028 None:intergenic
ACCTCTGGTAAATCACTTGG+TGG 0.556710 1:+28923157 MsaT001943.1:CDS
GAGGAAGAGTGTTAGAGGAG+CGG 0.560783 1:-28923195 None:intergenic
CAAGATTGCAAGGAACCTGC+AGG 0.562783 1:+28923808 MsaT001943.1:CDS
ACAAACATAATCATGATGAT+GGG 0.568114 1:+28923317 MsaT001943.1:CDS
TTCACCTCTGGTAAATCACT+TGG 0.575760 1:+28923154 MsaT001943.1:CDS
GGATGATAATGAGAAGATGA+AGG 0.579672 1:+28923690 MsaT001943.1:CDS
ATATCACAGCTAGATCCTGC+AGG 0.585006 1:-28923823 None:intergenic
TCAGAAATACGCCTTCTCCT+GGG 0.585866 1:-28923565 None:intergenic
AAGATGGGGCAGTCGGTGAG+TGG 0.586640 1:-28923453 None:intergenic
TTGTTATATATGTCTTATGG+GGG 0.593530 1:+28923622 MsaT001943.1:CDS
TCATCTTCGAAATCATCACT+TGG 0.604104 1:-28923925 None:intergenic
TACATCTGATGTTTGTAACA+AGG 0.605212 1:+28923354 MsaT001943.1:CDS
AATGAGAAGATGAAGGAACA+AGG 0.607433 1:+28923697 MsaT001943.1:CDS
TCCAAGGAAGATGGGGCAGT+CGG 0.610571 1:-28923460 None:intergenic
TCTGTTGGTGATAATGATCA+TGG 0.616583 1:-28923066 None:intergenic
ACTTTGTTCCAAGGAAGATG+GGG 0.644016 1:-28923467 None:intergenic
GCGTATTTCTGATAATGATG+AGG 0.647247 1:+28923576 MsaT001943.1:CDS
GAAGATTTCCAGCAATACGG+TGG 0.664760 1:+28923669 MsaT001943.1:CDS
GTTTGAATGGACATATGAGA+TGG 0.694516 1:+28923395 MsaT001943.1:CDS
AATGAAATTCAGAAACAACA+AGG 0.709396 1:+28922917 MsaT001943.1:CDS
ACCACCAAGTGATTTACCAG+AGG 0.717389 1:-28923158 None:intergenic
GATCATGCTGTGAATAACGG+CGG 0.741138 1:+28923244 MsaT001943.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 28922830 28923957 28922830 ID=MsaG001943
Chr1 mRNA 28922830 28923957 28922830 ID=MsaT001943.1;Parent=MsaG001943
Chr1 exon 28922830 28923957 28922830 ID=MsaT001943.1.exon1;Parent=MsaT001943.1
Chr1 CDS 28922830 28923957 28922830 ID=cds.MsaT001943.1;Parent=MsaT001943.1
Gene Sequence

>MsaT001943.1

ATGAAGAGTTCTTTCTCATCATCCTATTTCCATTTTCATCATTCAAGTGATCACAAACCCGAAAACAACTATGAATATCATCATGATAATGAAATTCAGAAACAACAAGGTTCAAACCCTAAGTTCAAACCCTATAGTTTTTTTGTACACTCTCCTGAACCAAACACTCACAACATCATGAACAAACACTATTCTTCACCTTCTTCTCACCATTCGTTTGATAAACCCAAAAACAGCCATGATCATTATCACCAACAGACTCTTGAAGATGATAAGAAAAACCCAGGTTCAAGAATCTACAGTTGTGAGTTTTGTCACAAAACATTCACCTCTGGTAAATCACTTGGTGGTCACAAAACCATTCACCGCTCCTCTAACACTCTTCCTCAACCTAAAACAAACAAACAGATCCATGATCATGCTGTGAATAACGGCGGCACCTTGAAGAAGACTACAAAAATTACTTGGGTTTTTTCTTCATCTCTTCACAAACATAATCATGATGATGGGAAACTGAAGAACCATACATCTGATGTTTGTAACAAGGTTTTTTCATCCAATAGTGGTTTGAATGGACATATGAGATGGCATACTCAAAAGGTTTCGAAGAAGGGTGTGATTATCCACTCACCGACTGCCCCATCTTCCTTGGAACAAAGTCAACTTGAGTTTCTACCATCTACTGACTTGTCAAAGTACTTGCCGCCAATATCATATAAGACCAAAAAACGGAGTCCCAGGAGAAGGCGTATTTCTGATAATGATGAGGAAATTACTATTGCTGCAAAAACATTGTTATATATGTCTTATGGGGGTTATGAGGGATCAACTAAAAGGCAGAAGATTTCCAGCAATACGGTGGATGATAATGAGAAGATGAAGGAACAAGGTGTGCTGCTAACAAGGTGTGTTTGCCACAACGAAAAAAACTTGGTGCTGAGGTTGAAGATTCCTAAAGACAAGATTTTTCAAACATCGCAAGATTGCAAGGAACCTGCAGGATCTAGCTGTGATATTGAAGGCAAGAAGAATATTAGCGAAGATGAAACTGAATTAGGGTCAAGAGTTGTCAGGAATTTTGATCTGAATGAGCTTCCAAGTGATGATTTCGAAGATGAAACCAGTTAG

Protein sequence

>MsaT001943.1

MKSSFSSSYFHFHHSSDHKPENNYEYHHDNEIQKQQGSNPKFKPYSFFVHSPEPNTHNIMNKHYSSPSSHHSFDKPKNSHDHYHQQTLEDDKKNPGSRIYSCEFCHKTFTSGKSLGGHKTIHRSSNTLPQPKTNKQIHDHAVNNGGTLKKTTKITWVFSSSLHKHNHDDGKLKNHTSDVCNKVFSSNSGLNGHMRWHTQKVSKKGVIIHSPTAPSSLEQSQLEFLPSTDLSKYLPPISYKTKKRSPRRRRISDNDEEITIAAKTLLYMSYGGYEGSTKRQKISSNTVDDNEKMKEQGVLLTRCVCHNEKNLVLRLKIPKDKIFQTSQDCKEPAGSSCDIEGKKNISEDETELGSRVVRNFDLNELPSDDFEDETS*