AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG042165

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042165 MtrunA17_Chr8g0349391 99.024 205 2 0 1 205 1 205 1.22e-152 421
MsaG042165 MtrunA17_Chr7g0247111 77.295 207 45 2 1 205 1 207 4.32e-112 318
MsaG042165 MtrunA17_Chr3g0113051 61.497 187 66 2 1 181 1 187 3.31e-83 245
MsaG042165 MtrunA17_Chr8g0386501 54.680 203 86 3 1 202 1 198 4.83e-75 225
MsaG042165 MtrunA17_Chr1g0152431 48.718 195 93 3 1 189 1 194 9.45e-63 193
MsaG042165 MtrunA17_Chr4g0059371 48.045 179 80 2 2 171 3 177 6.27e-57 178
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG042165 AT3G61230.1 69.697 198 56 2 2 195 3 200 1.06e-103 298
MsaG042165 AT1G01780.1 67.500 200 65 0 1 200 1 200 1.87e-101 292
MsaG042165 AT2G45800.1 70.098 204 55 4 1 198 1 204 1.20e-100 291
MsaG042165 AT3G55770.3 67.232 177 54 2 1 173 1 177 1.76e-88 259
MsaG042165 AT3G55770.5 67.232 177 54 2 1 173 1 177 1.76e-88 259
MsaG042165 AT3G55770.2 67.232 177 54 2 1 173 1 177 1.76e-88 259
MsaG042165 AT3G55770.1 67.232 177 54 2 1 173 1 177 1.76e-88 259
MsaG042165 AT2G39900.1 66.292 178 55 2 1 173 1 178 2.46e-87 256
MsaG042165 AT3G55770.7 56.398 211 54 3 1 173 1 211 1.66e-80 240
MsaG042165 AT3G55770.7 42.857 98 54 1 97 194 3 98 2.50e-19 83.2
MsaG042165 AT3G55770.7 35.088 114 40 1 3 82 101 214 2.34e-14 69.7
MsaG042165 AT2G45800.2 65.116 172 51 6 34 198 4 173 1.40e-70 213
MsaG042165 AT2G45800.2 52.113 71 34 0 3 73 68 138 6.49e-21 86.3
MsaG042165 AT1G10200.1 50.286 175 81 2 1 169 1 175 9.84e-61 188
MsaG042165 AT3G55770.4 65.414 133 41 3 1 129 1 132 2.93e-56 175
MsaG042165 AT3G55770.4 42.857 98 54 1 97 194 3 98 1.45e-20 84.0
MsaG042165 AT3G55770.6 66.142 127 37 3 1 121 1 127 1.19e-53 168
MsaG042165 AT3G55770.6 42.857 98 54 1 97 194 3 98 8.83e-21 84.3
MsaG042165 AT1G10200.2 45.385 130 65 2 46 169 4 133 2.32e-37 127
MsaG042165 AT1G10200.2 48.611 72 37 0 3 74 61 132 2.30e-17 75.9

Find 36 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCATTCAAGAGGTTTCTTC+TGG 0.235129 8:-17496580 None:intergenic
GTTTCTTCTGGATGATCTTC+AGG 0.252303 8:-17496568 None:intergenic
TCAAGCTATGCTGCTCTTGA+TGG 0.353414 8:+17496400 MsaT042165.1:CDS
CAAAATGAACCCTGCAGTAT+AGG 0.377575 8:-17496426 None:intergenic
CTTGCATTTATCAAGAGTTC+CGG 0.393087 8:-17494959 None:intergenic
AGCAAGTCGCACATTTGTCC+AGG 0.436853 8:-17495992 None:intergenic
TGCTTTAGGTGTGCTCATGC+AGG 0.437095 8:+17496361 MsaT042165.1:CDS
TTGATGGTGTCCTATACTGC+AGG 0.448405 8:+17496416 MsaT042165.1:CDS
TCTACCACAAGACATGCTTT+AGG 0.453453 8:+17496347 MsaT042165.1:CDS
AACCGTCTATCCACTGGAAA+AGG 0.456725 8:+17496019 MsaT042165.1:CDS
CTCTAAAACCGTCTATCCAC+TGG 0.500295 8:+17496013 MsaT042165.1:CDS
TTGTTACTGTTTCATTCAAG+AGG 0.524503 8:-17496590 None:intergenic
TTCCATGTTCAGTGGTACCC+TGG 0.525905 8:+17495974 MsaT042165.1:CDS
TCATTGCAAGGGAAATCTTA+CGG 0.534756 8:+17495062 MsaT042165.1:CDS
AACATGGAAGATAGTCTACT+TGG 0.545011 8:-17495960 None:intergenic
GGTGCTTCTGCTGATTGTGA+AGG 0.545791 8:-17496547 None:intergenic
ATTAAACAGGTGACACTGGA+AGG 0.549370 8:+17496319 MsaT042165.1:intron
CTTCAAATGTAGTCATTGCA+AGG 0.555260 8:+17495050 MsaT042165.1:CDS
GCAATAGAGAATTCCATCCA+TGG 0.558350 8:-17495386 None:intergenic
AGTACATACTCCTCCATGGA+TGG 0.562913 8:+17495373 MsaT042165.1:CDS
TTCTGACAAAGCAAATGAGC+TGG 0.565336 8:+17495602 MsaT042165.1:CDS
TACTCAAATCTGCACACAAG+AGG 0.573033 8:+17496485 MsaT042165.1:CDS
GCTTTAGGTGTGCTCATGCA+GGG 0.590942 8:+17496362 MsaT042165.1:CDS
TTCAAATGTAGTCATTGCAA+GGG 0.595286 8:+17495051 MsaT042165.1:CDS
TGATGGTGTCCTATACTGCA+GGG 0.598936 8:+17496417 MsaT042165.1:CDS
GAAGAAAACATGTCTTTCAC+CGG 0.600372 8:+17494940 None:intergenic
GATGAGTACATACTCCTCCA+TGG 0.608526 8:+17495369 MsaT042165.1:intron
CGGAACTCTTGATAAATGCA+AGG 0.609869 8:+17494960 MsaT042165.1:CDS
GTCCAGGGTACCACTGAACA+TGG 0.612761 8:-17495976 None:intergenic
GCATAGCTTGAATGTGTGAG+AGG 0.618734 8:-17496388 None:intergenic
AAATCTGCACACAAGAGGAA+TGG 0.618865 8:+17496490 MsaT042165.1:CDS
CATAGCTTGAATGTGTGAGA+GGG 0.638300 8:-17496387 None:intergenic
AGACTATCTTCCATGTTCAG+TGG 0.654978 8:+17495966 MsaT042165.1:CDS
GCAAGTCGCACATTTGTCCA+GGG 0.661497 8:-17495991 None:intergenic
CACACCTAAAGCATGTCTTG+TGG 0.697099 8:-17496351 None:intergenic
ATAGAGAATTCCATCCATGG+AGG 0.764020 8:-17495383 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr8 gene 17494949 17496597 17494949 ID=MsaG042165
Chr8 mRNA 17494949 17496597 17494949 ID=MsaT042165.1;Parent=MsaG042165
Chr8 exon 17494949 17495083 17494949 ID=MsaT042165.1.exon1;Parent=MsaT042165.1
Chr8 CDS 17494949 17495083 17494949 ID=cds.MsaT042165.1;Parent=MsaT042165.1
Chr8 exon 17495370 17495463 17495370 ID=MsaT042165.1.exon2;Parent=MsaT042165.1
Chr8 CDS 17495370 17495463 17495370 ID=cds.MsaT042165.1;Parent=MsaT042165.1
Chr8 exon 17495595 17495623 17495595 ID=MsaT042165.1.exon3;Parent=MsaT042165.1
Chr8 CDS 17495595 17495623 17495595 ID=cds.MsaT042165.1;Parent=MsaT042165.1
Chr8 exon 17495951 17496040 17495951 ID=MsaT042165.1.exon4;Parent=MsaT042165.1
Chr8 CDS 17495951 17496040 17495951 ID=cds.MsaT042165.1;Parent=MsaT042165.1
Chr8 exon 17496328 17496597 17496328 ID=MsaT042165.1.exon5;Parent=MsaT042165.1
Chr8 CDS 17496328 17496597 17496328 ID=cds.MsaT042165.1;Parent=MsaT042165.1
Gene Sequence

>MsaT042165.1

ATGTCTTTCACCGGAACTCTTGATAAATGCAAGGCTTGTGACAAGACTGTTTATGTTGTTGATTTGTTAACTCTTGAAAATATTCCATACCATAAAAGCTGCTTCAAATGTAGTCATTGCAAGGGAAATCTTACGATGAGTACATACTCCTCCATGGATGGAATTCTCTATTGCAAAACACATTTTGAACAGCTTTTCAAGGAATCTGGCAATTTTAGCAAGAACTTTGCAAAGTCTTCTGACAAAGCAAATGAGCTGAATAGGACACCAAGTAGACTATCTTCCATGTTCAGTGGTACCCTGGACAAATGTGCGACTTGCTCTAAAACCGTCTATCCACTGGAAAAGGTGACACTGGAAGGAGAAATCTACCACAAGACATGCTTTAGGTGTGCTCATGCAGGGTGCCCTCTCACACATTCAAGCTATGCTGCTCTTGATGGTGTCCTATACTGCAGGGTTCATTTTGCACAACTTTTCATGGAGAAAGGTAACTACAGTCATGTACTCAAATCTGCACACAAGAGGAATGGTTCTTCTTCTGAATCAGTTGAAGTTGTTGAAGAGCCTTCACAATCAGCAGAAGCACCTGAAGATCATCCAGAAGAAACCTCTTGA
Protein sequence

>MsaT042165.1

MSFTGTLDKCKACDKTVYVVDLLTLENIPYHKSCFKCSHCKGNLTMSTYSSMDGILYCKTHFEQLFKESGNFSKNFAKSSDKANELNRTPSRLSSMFSGTLDKCATCSKTVYPLEKVTLEGEIYHKTCFRCAHAGCPLTHSSYAALDGVLYCRVHFAQLFMEKGNYSHVLKSAHKRNGSSSESVEVVEEPSQSAEAPEDHPEETS*