AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG039282

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039282 MtrunA17_Chr7g0256671 95.434 219 9 1 1 218 1 219 2.04e-126 358
MsaG039282 MtrunA17_Chr1g0170581 57.895 228 76 6 1 218 1 218 2.98e-74 225
MsaG039282 MtrunA17_Chr1g0170591 56.444 225 76 5 1 218 1 210 4.10e-73 222
MsaG039282 MtrunA17_Chr1g0170571 58.222 225 72 5 1 218 1 210 6.54e-70 214
MsaG039282 MtrunA17_Chr6g0474681 34.211 152 91 4 66 215 6 150 1.04e-11 61.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG039282 AT3G56970.1 43.913 230 110 8 1 218 1 223 2.07e-48 159
MsaG039282 AT2G41240.1 42.035 226 112 6 1 218 1 215 1.37e-41 142
MsaG039282 AT3G56980.1 42.918 233 113 6 1 218 1 228 1.03e-40 140
MsaG039282 AT2G41240.2 41.593 226 112 7 1 218 1 214 3.65e-39 135
MsaG039282 AT5G04150.2 43.529 170 87 3 56 221 76 240 7.75e-37 129
MsaG039282 AT5G04150.1 43.713 167 85 3 56 218 76 237 4.18e-36 128

Find 38 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCCCTAATTGTTTACTATTA+AGG 0.133314 7:+87071633 MsaT039282.1:CDS
CTTCTCTTTATGACTAATTA+AGG 0.218000 7:-87070179 None:intergenic
TCCCTTAATAGTAAACAATT+AGG 0.258083 7:-87071635 None:intergenic
CCCTAATTGTTTACTATTAA+GGG 0.263463 7:+87071634 MsaT039282.1:CDS
AGCTTCTTAGCCATAAGTTT+AGG 0.275147 7:-87070286 None:intergenic
TCACTTCGTTCACTTCTTCC+TGG 0.286326 7:+87070364 MsaT039282.1:CDS
GCTTCTTAGCCATAAGTTTA+GGG 0.291086 7:-87070285 None:intergenic
TCTTCTTCTTCTAAAACCTT+TGG 0.334379 7:+87071455 MsaT039282.1:CDS
GCCACAATCCCCTAAACTTA+TGG 0.343588 7:+87070276 MsaT039282.1:CDS
TCAATCTCAACATGTTCCTT+TGG 0.352411 7:-87070250 None:intergenic
TTGATGTGTTTAGAAAATAA+TGG 0.374175 7:+87071416 MsaT039282.1:CDS
AAGACACGTGAAATTGTTAC+CGG 0.393671 7:-87071164 None:intergenic
AAACATGGGATGGCTCTTAG+AGG 0.417919 7:+87070141 MsaT039282.1:CDS
CCCTTAATAGTAAACAATTA+GGG 0.435428 7:-87071634 None:intergenic
GGTGAAGAGAATTGATGATA+AGG 0.444850 7:-87070229 None:intergenic
GGGATGGCTCTTAGAGGAGT+TGG 0.478368 7:+87070147 MsaT039282.1:CDS
CTCAGATAGAGGAATCTTGT+AGG 0.481665 7:-87071390 None:intergenic
TCTTCTTCTAAAACCTTTGG+AGG 0.482465 7:+87071458 MsaT039282.1:CDS
CACATCAAGATCTCAGATAG+AGG 0.501569 7:-87071401 None:intergenic
GCCATAAGTTTAGGGGATTG+TGG 0.507590 7:-87070277 None:intergenic
CTTCTAAAACCTTTGGAGGG+AGG 0.546758 7:+87071462 MsaT039282.1:CDS
TCTTCCTGGTGAAGATCAAA+CGG 0.553586 7:+87070378 MsaT039282.1:CDS
ACGTGTCTTAAAGTACATAC+CGG 0.558220 7:+87071178 MsaT039282.1:CDS
ACAAAAGCAGAATTGTAACT+TGG 0.558897 7:-87071308 None:intergenic
CTTCTTAGCCATAAGTTTAG+GGG 0.566289 7:-87070284 None:intergenic
CTTCTTCTAAAACCTTTGGA+GGG 0.566421 7:+87071459 MsaT039282.1:CDS
ATAGAAGAGCCTCCCTCCAA+AGG 0.569392 7:-87071471 None:intergenic
TCATCAATTCTCTTCACCAA+AGG 0.579398 7:+87070234 MsaT039282.1:CDS
GAGTTCTCATACTCAAACAT+GGG 0.591739 7:+87070127 MsaT039282.1:CDS
TCTCATACTCAAACATGGGA+TGG 0.596383 7:+87070131 MsaT039282.1:CDS
TGAGTTCTCATACTCAAACA+TGG 0.598383 7:+87070126 MsaT039282.1:CDS
GATTTACAAAAGCAAGTGCA+AGG 0.608962 7:+87071200 MsaT039282.1:CDS
TTTGAGTATGAGAACTCAGG+TGG 0.609689 7:-87070121 None:intergenic
ATGTTTGAGTATGAGAACTC+AGG 0.624831 7:-87070124 None:intergenic
ATTACCGTTTGATCTTCACC+AGG 0.645561 7:-87070382 None:intergenic
CAGTTAACAAAGAATCGCAA+AGG 0.655004 7:+87071276 MsaT039282.1:CDS
GATCACGTTCACTAGCATTG+TGG 0.694395 7:-87070312 None:intergenic
TTGAGTATGAGAACTCAGGT+GGG 0.707297 7:-87070120 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 87070106 87071653 87070106 ID=MsaG039282
Chr7 mRNA 87070106 87071653 87070106 ID=MsaT039282.1;Parent=MsaG039282
Chr7 exon 87070106 87070399 87070106 ID=MsaT039282.1.exon1;Parent=MsaT039282.1
Chr7 CDS 87070106 87070399 87070106 ID=cds.MsaT039282.1;Parent=MsaT039282.1
Chr7 exon 87071149 87071508 87071149 ID=MsaT039282.1.exon2;Parent=MsaT039282.1
Chr7 CDS 87071149 87071508 87071149 ID=cds.MsaT039282.1;Parent=MsaT039282.1
Chr7 exon 87071627 87071653 87071627 ID=MsaT039282.1.exon3;Parent=MsaT039282.1
Chr7 CDS 87071627 87071653 87071627 ID=cds.MsaT039282.1;Parent=MsaT039282.1
Gene Sequence

>MsaT039282.1

ATGGTTGCATTCTGCCCACCTGAGTTCTCATACTCAAACATGGGATGGCTCTTAGAGGAGTTGGAGCAAGAGTCCTTAATTAGTCATAAAGAGAAGAACTATGCATCTTTAGAGTACTCGTTACCTTATCATCAATTCTCTTCACCAAAGGAACATGTTGAGATTGAAAAGCCACAATCCCCTAAACTTATGGCTAAGAAGCTTAACCACAATGCTAGTGAACGTGATCGTCGCAAGAAGATTAATAGCTTGATTTCTTCACTTCGTTCACTTCTTCCTGGTGAAGATCAAACGAAAAAAATGAGCATTCCGGTAACAATTTCACGTGTCTTAAAGTACATACCGGATTTACAAAAGCAAGTGCAAGGATTAACTAAGAAAAAAGAAGAGCTTCTATCAAGAATTTCTCGACAAGAATATGCAGTTAACAAAGAATCGCAAAGGAAGAAAATTCCAAGTTACAATTCTGCTTTTGTAGTTTCGACAAGTAGGCTTAATGATACTGAGCTTATTGTTCATATTTCGTCTTATGAGACCTACAAGATTCCTCTATCTGAGATCTTGATGTGTTTAGAAAATAATGGACTTCTTCTATTAAACTCTTCTTCTTCTAAAACCTTTGGAGGGAGGCTCTTCTATAACTTGCATTTTCAGAAATTAGCCCTAATTGTTTACTATTAA
Protein sequence

>MsaT039282.1

MVAFCPPEFSYSNMGWLLEELEQESLISHKEKNYASLEYSLPYHQFSSPKEHVEIEKPQSPKLMAKKLNHNASERDRRKKINSLISSLRSLLPGEDQTKKMSIPVTISRVLKYIPDLQKQVQGLTKKKEELLSRISRQEYAVNKESQRKKIPSYNSAFVVSTSRLNDTELIVHISSYETYKIPLSEILMCLENNGLLLLNSSSSKTFGGRLFYNLHFQKLALIVYY*