AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG015847

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015847 MtrunA17_Chr3g0122091 90.885 373 18 3 1 371 53 411 0.0 664
MsaG015847 MtrunA17_Chr1g0151261 46.185 249 130 3 44 292 50 294 2.67e-63 206
MsaG015847 MtrunA17_Chr1g0153141 33.203 256 138 8 37 284 43 273 1.42e-26 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG015847 AT4G12240.1 56.977 344 126 5 38 371 30 361 3.51e-135 390
MsaG015847 AT5G52010.1 46.400 250 128 4 42 291 71 314 6.52e-63 206

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCAGCTATTCTGAGCTTAT+TGG 0.177466 3:+91638219 None:intergenic
AGCTGAAACGGGCAGGGTTT+TGG 0.228799 3:-91637823 MsaT015847.1:CDS
TATGTAGAGTAGGGCTGTTC+TGG 0.246065 3:-91638288 MsaT015847.1:CDS
AGAATAGCTGCAGCTTCTTT+TGG 0.246225 3:-91638208 MsaT015847.1:CDS
TGTCTCAAGACTGTTGTTAT+TGG 0.251511 3:-91637650 MsaT015847.1:CDS
GTCTCAAGACTGTTGTTATT+GGG 0.278322 3:-91637649 MsaT015847.1:CDS
AGGGAGTAGAAAGGTGAAAT+TGG 0.313386 3:-91637933 MsaT015847.1:CDS
TGAGACGACACTGTCATTCT+TGG 0.314624 3:-91638351 MsaT015847.1:CDS
GAGACGACACTGTCATTCTT+GGG 0.319372 3:-91638350 MsaT015847.1:CDS
GGGTAAGTATGCTATGAAAA+TGG 0.326589 3:-91637909 MsaT015847.1:CDS
TTCATAAGGTGGGATTGAAT+TGG 0.333130 3:+91638246 None:intergenic
TTGGGGTCACGGAAGGATTT+CGG 0.339709 3:-91638332 MsaT015847.1:CDS
TCATAGGCGGGTTGAGTGTT+TGG 0.351038 3:-91637729 MsaT015847.1:CDS
AGCTTATTGGCAACTTCATA+AGG 0.365446 3:+91638232 None:intergenic
ACAGGAACTGTTGTATCGTT+TGG 0.373770 3:-91638104 MsaT015847.1:CDS
CTGTATCGGTTGTGGAAAAC+TGG 0.377175 3:-91637538 MsaT015847.1:CDS
GTTGTATCGTTTGGAGGATA+AGG 0.381598 3:-91638095 MsaT015847.1:CDS
CTCATGTTTGTCGTGTTTGT+GGG 0.391232 3:-91638051 MsaT015847.1:CDS
GGGTTCAAACTGTGTTAGAT+AGG 0.398462 3:-91637802 MsaT015847.1:CDS
CCTCATGTTTGTCGTGTTTG+TGG 0.413883 3:-91638052 MsaT015847.1:CDS
GCCAAACCATACCCAACTTT+AGG 0.418960 3:+91637851 None:intergenic
TCCTAAAGTTGGGTATGGTT+TGG 0.425982 3:-91637852 MsaT015847.1:CDS
TTGACTCCTAAAGTTGGGTA+TGG 0.429889 3:-91637857 MsaT015847.1:CDS
TCATAAGGTGGGATTGAATT+GGG 0.443856 3:+91638247 None:intergenic
TTTGATGGGGAAGGCGAAGA+AGG 0.453176 3:-91637564 MsaT015847.1:CDS
GATGCAGTTCCTAAAACATC+TGG 0.457052 3:-91637440 MsaT015847.1:CDS
AAATTAGACTCCGATGATAA+TGG 0.457209 3:-91637347 MsaT015847.1:CDS
TTGTATCGTTTGGAGGATAA+GGG 0.462961 3:-91638094 MsaT015847.1:CDS
GCTGATGAGCTGAAACGGGC+AGG 0.464292 3:-91637830 MsaT015847.1:CDS
TGGTGGATATGATGGATCAT+AGG 0.472905 3:-91637745 MsaT015847.1:CDS
TCGTGATATATTGAAAAGAT+TGG 0.474466 3:-91637510 MsaT015847.1:CDS
ATTGCTAAAAGTGTGGCTAT+TGG 0.475645 3:+91638159 None:intergenic
TGAGTGTTTGGTTCTTGTAT+CGG 0.489683 3:-91637717 MsaT015847.1:CDS
TCTCAAGACTGTTGTTATTG+GGG 0.494985 3:-91637648 MsaT015847.1:CDS
TATTGCATTGCAAAAGCATA+TGG 0.499781 3:-91637765 MsaT015847.1:CDS
CACTGTCATTCTTGGGGTCA+CGG 0.505218 3:-91638343 MsaT015847.1:CDS
ACTCTACATAGCTTCTCATT+CGG 0.506498 3:+91638301 None:intergenic
GAAGGAGGCTGTATCGGTTG+TGG 0.514904 3:-91637546 MsaT015847.1:CDS
GCAGTGATGGAGTCTTGAAA+AGG 0.516098 3:-91637619 MsaT015847.1:CDS
ATGTAGAGTAGGGCTGTTCT+GGG 0.518539 3:-91638287 MsaT015847.1:CDS
GTTTGGCTGATGAGCTGAAA+CGG 0.521781 3:-91637835 MsaT015847.1:CDS
GGCGAAGAAGGAGGCTGTAT+CGG 0.522314 3:-91637552 MsaT015847.1:CDS
AAAGCATATGGTGGATATGA+TGG 0.523680 3:-91637753 MsaT015847.1:CDS
GTCATTCTTGGGGTCACGGA+AGG 0.525218 3:-91638339 MsaT015847.1:CDS
GGAACTGTTGTATCGTTTGG+AGG 0.537669 3:-91638101 MsaT015847.1:CDS
GAAAATGGAAAAGTATAAGA+AGG 0.542297 3:-91637894 MsaT015847.1:CDS
TCGTGAGAGGAGGAAAGAAC+AGG 0.542932 3:-91638122 MsaT015847.1:CDS
CTCCTCTCACGAACAACGTG+GGG 0.546733 3:+91638133 None:intergenic
AATGAGAAGCTATGTAGAGT+AGG 0.549536 3:-91638298 MsaT015847.1:CDS
AAGGCGGAATCAGATAGAAT+CGG 0.553848 3:-91637960 MsaT015847.1:CDS
TATTGGCAACTTCATAAGGT+GGG 0.553988 3:+91638236 None:intergenic
CTATTGTGTAGAATATTCTA+CGG 0.555084 3:+91638404 None:intergenic
TTTGGCTGATGAGCTGAAAC+GGG 0.555204 3:-91637834 MsaT015847.1:CDS
ACAAGGATGACAGAGGTCCT+TGG 0.556458 3:-91637373 MsaT015847.1:CDS
TGGAGTTGTTCGACATATGG+TGG 0.559762 3:-91638188 MsaT015847.1:CDS
ATGAGAAGCTATGTAGAGTA+GGG 0.561703 3:-91638297 MsaT015847.1:CDS
CTGATGAGCTGAAACGGGCA+GGG 0.566688 3:-91637829 MsaT015847.1:CDS
ATCGGCTAGAGGGAGTAGAA+AGG 0.569230 3:-91637942 MsaT015847.1:CDS
AGAATATTCTACGGAACTTG+AGG 0.572133 3:+91638413 None:intergenic
GGATATGATGGATCATAGGC+GGG 0.572337 3:-91637741 MsaT015847.1:CDS
GAGTAGAAAGGTGAAATTGG+TGG 0.573655 3:-91637930 MsaT015847.1:CDS
ATCAGATAGAATCGGCTAGA+GGG 0.575206 3:-91637952 MsaT015847.1:CDS
ATTTGCAACACCATTATCAT+CGG 0.578456 3:+91637337 None:intergenic
ATGAGCGTGAGCATGCGAAA+AGG 0.580807 3:-91637979 MsaT015847.1:CDS
TAAGGTGGGATTGAATTGGG+TGG 0.598304 3:+91638250 None:intergenic
TCCTCCTCTCACGAACAACG+TGG 0.601028 3:+91638131 None:intergenic
AACAAATGTTTGAATGCCAG+TGG 0.602266 3:+91638378 None:intergenic
AGAATGACAGTGTCGTCTCA+AGG 0.604787 3:+91638354 None:intergenic
CCCACGTTGTTCGTGAGAGG+AGG 0.604916 3:-91638132 MsaT015847.1:CDS
AATGCAATATCCGCAGCTTG+CGG 0.606975 3:+91637779 None:intergenic
AGACGACACTGTCATTCTTG+GGG 0.607766 3:-91638349 MsaT015847.1:CDS
AGTAGAAAGGTGAAATTGGT+GGG 0.609374 3:-91637929 MsaT015847.1:CDS
TGCATTGCAAAAGCATATGG+TGG 0.610349 3:-91637762 MsaT015847.1:CDS
TTCTACACAATAGAAGCCAC+TGG 0.610989 3:-91638394 MsaT015847.1:CDS
GTGGACATATAACCCAGAAG+TGG 0.612100 3:-91637486 MsaT015847.1:CDS
TTATTGGCAACTTCATAAGG+TGG 0.612373 3:+91638235 None:intergenic
CCTCCTCTCACGAACAACGT+GGG 0.620111 3:+91638132 None:intergenic
GATGGGGAAGGCGAAGAAGG+AGG 0.621967 3:-91637561 MsaT015847.1:CDS
AATCAGATAGAATCGGCTAG+AGG 0.623094 3:-91637953 MsaT015847.1:CDS
ATGTTTGTCGTGTTTGTGGG+AGG 0.623967 3:-91638048 MsaT015847.1:CDS
AGCGTGAGCATGCGAAAAGG+CGG 0.626856 3:-91637976 MsaT015847.1:CDS
AGGATGACAGAGGTCCTTGG+TGG 0.631079 3:-91637370 MsaT015847.1:CDS
GTTAGATAGGCCGCAAGCTG+CGG 0.632475 3:-91637789 MsaT015847.1:CDS
TCATATTGATGATGACTACA+AGG 0.634259 3:-91637390 MsaT015847.1:CDS
TTATGAAGGAAGCAAAGCTA+CGG 0.640003 3:-91637673 MsaT015847.1:CDS
TGGATATGATGGATCATAGG+CGG 0.652070 3:-91637742 MsaT015847.1:CDS
ATATATTGAAAAGATTGGAG+TGG 0.659405 3:-91637505 MsaT015847.1:CDS
CCACAAACACGACAAACATG+AGG 0.661362 3:+91638052 None:intergenic
TCCTCTCACGAACAACGTGG+GGG 0.698129 3:+91638134 None:intergenic
TCGGAGTCTAATTTCCACCA+AGG 0.709650 3:+91637356 None:intergenic
GATGACTACAAGGATGACAG+AGG 0.730694 3:-91637380 MsaT015847.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 91637331 91638446 91637331 ID=MsaG015847
Chr3 mRNA 91637331 91638446 91637331 ID=MsaT015847.1;Parent=MsaG015847
Chr3 exon 91637331 91638446 91637331 ID=MsaT015847.1.exon1;Parent=MsaT015847.1
Chr3 CDS 91637331 91638446 91637331 ID=cds.MsaT015847.1;Parent=MsaT015847.1
Gene Sequence

>MsaT015847.1

ATGGTTTCAATCCTCAAGTTCCGTAGAATATTCTACACAATAGAAGCCACTGGCATTCAAACATTTGTTGCCTTGAGACGACACTGTCATTCTTGGGGTCACGGAAGGATTTCGGATAAAAATCCGAATGAGAAGCTATGTAGAGTAGGGCTGTTCTGGGACTTAGACAACAAACCACCCAATTCAATCCCACCTTATGAAGTTGCCAATAAGCTCAGAATAGCTGCAGCTTCTTTTGGAGTTGTTCGACATATGGTGGCTTATGCCAATAGCCACACTTTTAGCAATGTCCCCCACGTTGTTCGTGAGAGGAGGAAAGAACAGGAACTGTTGTATCGTTTGGAGGATAAGGGTGTGATTAAGCGTAATGAGCCTCATGTTTGTCGTGTTTGTGGGAGGAAATTTTACACGAATGAAAAGCTTGTTAATCATTTCAAGCAATTGCATGAGCGTGAGCATGCGAAAAGGCGGAATCAGATAGAATCGGCTAGAGGGAGTAGAAAGGTGAAATTGGTGGGTAAGTATGCTATGAAAATGGAAAAGTATAAGAAGGCTGCAAGTGCTGTTTTGACTCCTAAAGTTGGGTATGGTTTGGCTGATGAGCTGAAACGGGCAGGGTTTTGGGTTCAAACTGTGTTAGATAGGCCGCAAGCTGCGGATATTGCATTGCAAAAGCATATGGTGGATATGATGGATCATAGGCGGGTTGAGTGTTTGGTTCTTGTATCGGATGATTCTGATTTTGTCGATGTTATGAAGGAAGCAAAGCTACGGTGTCTCAAGACTGTTGTTATTGGGGATTTTAGCAGTGATGGAGTCTTGAAAAGGACTGCCGATACTGCTTTTTCTTGGGAGGATATTTTGATGGGGAAGGCGAAGAAGGAGGCTGTATCGGTTGTGGAAAACTGGAAAGATCGTGATATATTGAAAAGATTGGAGTGGACATATAACCCAGAAGTGGATAAAAAGAAACACAACTTGGATGATGCAGTTCCTAAAACATCTGGAGTTGATGATATTGAAGATATTTGTGATCATATTGATGATGACTACAAGGATGACAGAGGTCCTTGGTGGAAATTAGACTCCGATGATAATGGTGTTGCAAATCGATAA
Protein sequence

>MsaT015847.1

MVSILKFRRIFYTIEATGIQTFVALRRHCHSWGHGRISDKNPNEKLCRVGLFWDLDNKPPNSIPPYEVANKLRIAAASFGVVRHMVAYANSHTFSNVPHVVRERRKEQELLYRLEDKGVIKRNEPHVCRVCGRKFYTNEKLVNHFKQLHEREHAKRRNQIESARGSRKVKLVGKYAMKMEKYKKAASAVLTPKVGYGLADELKRAGFWVQTVLDRPQAADIALQKHMVDMMDHRRVECLVLVSDDSDFVDVMKEAKLRCLKTVVIGDFSSDGVLKRTADTAFSWEDILMGKAKKEAVSVVENWKDRDILKRLEWTYNPEVDKKKHNLDDAVPKTSGVDDIEDICDHIDDDYKDDRGPWWKLDSDDNGVANR*