AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG038481

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038481 MtrunA17_Chr7g0247111 97.642 212 5 0 1 212 1 212 1.08e-155 429
MsaG038481 MtrunA17_Chr8g0349391 77.295 207 36 4 1 199 1 204 8.71e-111 315
MsaG038481 MtrunA17_Chr3g0113051 61.053 190 70 2 1 186 1 190 4.84e-86 252
MsaG038481 MtrunA17_Chr8g0386501 52.830 212 96 2 1 212 1 208 9.21e-74 222
MsaG038481 MtrunA17_Chr1g0152431 50.857 175 82 2 1 171 1 175 1.43e-60 188
MsaG038481 MtrunA17_Chr4g0059371 47.977 173 83 2 2 169 3 173 3.00e-56 176
MsaG038481 MtrunA17_Chr4g0059371 43.056 72 41 0 3 74 103 174 5.72e-15 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG038481 AT2G45800.1 70.192 208 62 0 1 208 1 208 4.03e-106 305
MsaG038481 AT1G01780.1 71.144 201 53 2 1 198 1 199 5.97e-106 303
MsaG038481 AT3G61230.1 69.811 212 59 3 2 209 3 213 1.83e-104 300
MsaG038481 AT2G39900.1 64.286 182 62 1 1 179 1 182 4.19e-90 263
MsaG038481 AT3G55770.3 64.286 182 63 1 1 180 1 182 3.54e-89 261
MsaG038481 AT3G55770.5 64.286 182 63 1 1 180 1 182 3.54e-89 261
MsaG038481 AT3G55770.2 64.286 182 63 1 1 180 1 182 3.54e-89 261
MsaG038481 AT3G55770.1 64.286 182 63 1 1 180 1 182 3.54e-89 261
MsaG038481 AT3G55770.7 54.167 216 63 2 1 180 1 216 3.34e-81 242
MsaG038481 AT2G45800.2 66.258 163 55 0 46 208 15 177 5.19e-75 225
MsaG038481 AT2G45800.2 50.617 81 40 0 3 83 68 148 3.80e-22 89.7
MsaG038481 AT1G10200.1 50.276 181 86 2 1 177 1 181 2.17e-61 190
MsaG038481 AT3G55770.4 67.769 121 37 1 1 119 1 121 2.77e-56 175
MsaG038481 AT3G55770.4 47.674 86 45 0 99 184 3 88 5.98e-23 90.5
MsaG038481 AT3G55770.6 63.780 127 42 2 1 123 1 127 2.04e-53 168
MsaG038481 AT3G55770.6 47.674 86 45 0 99 184 3 88 3.29e-23 90.9
MsaG038481 AT1G10200.2 47.059 136 68 2 46 177 4 139 3.94e-40 134
MsaG038481 AT1G10200.2 50.000 72 36 0 3 74 61 132 1.24e-17 76.6

Find 44 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGAAAAGTTGTTCAAAA+TGG 0.152912 7:+77007992 None:intergenic
GCCTGTTCCTCAGTTTCTTC+TGG 0.236294 7:+77006766 None:intergenic
CTTGAAAAGTTGTTCAAAAT+GGG 0.287191 7:+77007993 None:intergenic
TCATCCTCATCAGCTGGTTC+AGG 0.337166 7:+77006799 None:intergenic
TGAGAAGATAAATGAGTTGA+TGG 0.377988 7:-77007771 MsaT038481.1:intron
TCTTCCTATGCTGCACTAGA+TGG 0.380773 7:-77006925 MsaT038481.1:CDS
CAAAATGGGGCTTGCAATAG+AGG 0.393896 7:+77008007 None:intergenic
ACCAGAAGAAACTGAGGAAC+AGG 0.395424 7:-77006767 MsaT038481.1:CDS
GTTACCACAAGACTTGCTTT+AGG 0.406861 7:-77006978 MsaT038481.1:CDS
TCATCAGCTGGTTCAGGTGG+TGG 0.409594 7:+77006805 None:intergenic
AACTGTTTATCCTTTGGAAA+AGG 0.417247 7:-77007425 MsaT038481.1:intron
GATGCCTCATCCTCATCAGC+TGG 0.427885 7:+77006793 None:intergenic
GAAAATGATGCTTGCAATAG+AGG 0.440602 7:+77006899 None:intergenic
GTTGATTTGTTAACTCTTGA+AGG 0.447636 7:-77008602 MsaT038481.1:CDS
AATTTCAGCAAGAACTTTCA+AGG 0.447985 7:-77007961 MsaT038481.1:intron
CTTTGTGAAATAGATGTCAT+TGG 0.477228 7:-77007010 MsaT038481.1:intron
GAACATAGAGGAGAGTCTAC+TGG 0.477378 7:+77007483 None:intergenic
ACTTGCTTTAGGTGTGCTCA+TGG 0.497010 7:-77006967 MsaT038481.1:CDS
GATGAGTACTTACTCGTCAA+TGG 0.501960 7:-77008037 MsaT038481.1:CDS
CTTAAAATGCACTCACTGCA+AGG 0.503886 7:-77008558 MsaT038481.1:CDS
TCCTCATCAGCTGGTTCAGG+TGG 0.506548 7:+77006802 None:intergenic
GAAATAGATGTCATTGGAAG+GGG 0.521645 7:-77007004 MsaT038481.1:intron
GACACCATCTAGTGCAGCAT+AGG 0.529057 7:+77006921 None:intergenic
CAGCATAGGAAGAATGTGTA+AGG 0.533785 7:+77006935 None:intergenic
GTGAAATAGATGTCATTGGA+AGG 0.534845 7:-77007006 MsaT038481.1:intron
TGAAATAGATGTCATTGGAA+GGG 0.539587 7:-77007005 MsaT038481.1:intron
TTGAAAAGTTGTTCAAAATG+GGG 0.540325 7:+77007994 None:intergenic
AACATAGAGGAGAGTCTACT+GGG 0.541859 7:+77007484 None:intergenic
AACAACAAAATGTCATTCAC+AGG 0.544997 7:-77008668 None:intergenic
TCACTGCAAGGGAAATCTTA+CGG 0.550486 7:-77008546 MsaT038481.1:intron
AGCTGGTTCAGGTGGTGGAG+TGG 0.554754 7:+77006810 None:intergenic
TTGTGACAAGACTGTTTATG+TGG 0.560240 7:-77008624 MsaT038481.1:CDS
ACCACCTGAACCAGCTGATG+AGG 0.566047 7:-77006803 MsaT038481.1:CDS
TGAACCAGCTGATGAGGATG+AGG 0.566240 7:-77006797 MsaT038481.1:CDS
TAAAGTTCCACTGAACATAG+AGG 0.599123 7:+77007471 None:intergenic
TTAAAATGCACTCACTGCAA+GGG 0.603835 7:-77008557 MsaT038481.1:CDS
AGTACTTACTCGTCAATGGA+TGG 0.612038 7:-77008033 MsaT038481.1:CDS
TGCTTTAGGTGTGCTCATGG+AGG 0.614156 7:-77006964 MsaT038481.1:CDS
AGACTCTCCTCTATGTTCAG+TGG 0.619328 7:-77007478 MsaT038481.1:CDS
AGGAACTCTTGATAAATGCA+AGG 0.635782 7:-77008648 MsaT038481.1:CDS
ACAGGCAGAAGAAAAGTCTG+AGG 0.636569 7:-77006749 MsaT038481.1:CDS
ATCAAAACCAGAAGAAACTG+AGG 0.663705 7:-77006773 MsaT038481.1:CDS
CATAGGAAGAATGTGTAAGG+TGG 0.667933 7:+77006938 None:intergenic
CACACCTAAAGCAAGTCTTG+TGG 0.697099 7:+77006974 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 77006735 77008681 77006735 ID=MsaG038481
Chr7 mRNA 77006735 77008681 77006735 ID=MsaT038481.1;Parent=MsaG038481
Chr7 exon 77006735 77007019 77006735 ID=MsaT038481.1.exon5;Parent=MsaT038481.1
Chr7 CDS 77006735 77007019 77006735 ID=cds.MsaT038481.1;Parent=MsaT038481.1
Chr7 exon 77007426 77007515 77007426 ID=MsaT038481.1.exon4;Parent=MsaT038481.1
Chr7 CDS 77007426 77007515 77007426 ID=cds.MsaT038481.1;Parent=MsaT038481.1
Chr7 exon 77007772 77007803 77007772 ID=MsaT038481.1.exon3;Parent=MsaT038481.1
Chr7 CDS 77007772 77007803 77007772 ID=cds.MsaT038481.1;Parent=MsaT038481.1
Chr7 exon 77007962 77008058 77007962 ID=MsaT038481.1.exon2;Parent=MsaT038481.1
Chr7 CDS 77007962 77008058 77007962 ID=cds.MsaT038481.1;Parent=MsaT038481.1
Chr7 exon 77008547 77008681 77008547 ID=MsaT038481.1.exon1;Parent=MsaT038481.1
Chr7 CDS 77008547 77008681 77008547 ID=cds.MsaT038481.1;Parent=MsaT038481.1
Gene Sequence

>MsaT038481.1

ATGTCATTCACAGGAACTCTTGATAAATGCAAGGCTTGTGACAAGACTGTTTATGTGGTTGATTTGTTAACTCTTGAAGGTATACCTTACCATAAAAGTTGCTTAAAATGCACTCACTGCAAGGGAAATCTTACGATGAGTACTTACTCGTCAATGGATGGTGTCCTCTATTGCAAGCCCCATTTTGAACAACTTTTCAAGGAATCTGGAAATTTCAGCAAGAACTTTCAAGCAAAGTCTTCTGAGAAGATAAATGAGTTGATGAACAGGACACCCAGTAGACTCTCCTCTATGTTCAGTGGAACTTTAGACAAATGTGCAGTTTGCACAAAAACTGTTTATCCTTTGGAAAAGATGTCATTGGAAGGGGAATGTTACCACAAGACTTGCTTTAGGTGTGCTCATGGAGGTTGCCACCTTACACATTCTTCCTATGCTGCACTAGATGGTGTCCTCTATTGCAAGCATCATTTTCAACAGCTTTTCATGGAGAAAGGAAACTACAATCATGTGCTTCAAGCTGCTGCAAACAAAAAGAATTCCACTCCACCACCTGAACCAGCTGATGAGGATGAGGCATCAAAACCAGAAGAAACTGAGGAACAGGCAGAAGAAAAGTCTGAGGCAGCAGAAACATGA
Protein sequence

>MsaT038481.1

MSFTGTLDKCKACDKTVYVVDLLTLEGIPYHKSCLKCTHCKGNLTMSTYSSMDGVLYCKPHFEQLFKESGNFSKNFQAKSSEKINELMNRTPSRLSSMFSGTLDKCAVCTKTVYPLEKMSLEGECYHKTCFRCAHGGCHLTHSSYAALDGVLYCKHHFQQLFMEKGNYNHVLQAAANKKNSTPPPEPADEDEASKPEETEEQAEEKSEAAET*