AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007041

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007041 MtrunA17_Chr2g0288481 78.750 160 24 2 1 160 95 244 1.46e-85 251
MsaG007041 MtrunA17_Chr8g0376351 88.372 86 9 1 9 93 1 86 1.97e-49 154
MsaG007041 MtrunA17_Chr2g0310741 48.252 143 57 5 1 138 113 243 5.15e-37 128
MsaG007041 MtrunA17_Chr7g0272991 45.890 146 68 4 1 143 111 248 3.50e-35 123
MsaG007041 MtrunA17_Chr1g0191681 47.794 136 61 5 1 136 111 236 1.05e-33 119
MsaG007041 MtrunA17_Chr3g0132191 46.400 125 51 2 1 125 65 173 6.79e-31 110
MsaG007041 MtrunA17_Chr2g0318921 53.030 66 31 0 3 68 35 100 2.49e-18 75.9
MsaG007041 MtrunA17_Chr2g0318881 53.030 66 31 0 3 68 35 100 2.67e-18 75.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007041 AT1G54830.2 50.000 136 62 3 1 132 80 213 3.08e-35 122
MsaG007041 AT1G54830.3 50.000 136 62 3 1 132 80 213 3.08e-35 122
MsaG007041 AT1G54830.1 50.000 136 62 3 1 132 80 213 3.08e-35 122
MsaG007041 AT3G48590.1 49.600 125 54 3 1 125 75 190 1.29e-33 119
MsaG007041 AT1G08970.3 50.000 136 47 4 1 129 90 211 4.14e-33 117
MsaG007041 AT1G08970.4 50.000 136 47 4 1 129 90 211 4.14e-33 117
MsaG007041 AT1G08970.2 50.000 136 47 4 1 129 90 211 4.14e-33 117
MsaG007041 AT1G08970.1 50.000 136 47 4 1 129 90 211 4.14e-33 117
MsaG007041 AT1G56170.1 56.701 97 37 3 1 95 86 179 1.72e-32 115
MsaG007041 AT1G56170.2 56.701 97 37 3 1 95 86 179 1.72e-32 115
MsaG007041 AT5G63470.2 47.059 136 60 3 1 133 88 214 9.00e-32 114
MsaG007041 AT5G63470.1 47.059 136 60 3 1 133 88 214 9.00e-32 114
MsaG007041 AT5G50480.1 44.094 127 50 3 1 125 64 171 2.48e-28 104
MsaG007041 AT5G27910.1 43.443 122 48 4 1 122 46 146 2.33e-21 85.9
MsaG007041 AT5G50490.1 37.313 134 63 4 1 128 46 164 1.10e-19 81.6
MsaG007041 AT5G50470.1 38.710 124 61 3 1 117 73 188 2.19e-18 78.6
MsaG007041 AT5G38140.1 42.647 68 39 0 1 68 77 144 5.32e-15 69.3

Find 40 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTGCTTAATCTTCTGAATT+TGG 0.096494 2:+13063933 None:intergenic
ATTGGGACACTTTCTCTTCT+TGG 0.187927 2:+13064155 None:intergenic
AATGGAGCGTGACATATTTA+TGG 0.230451 2:-13064183 MsaT007041.1:CDS
GGCATGTGAAATGTTTATTA+TGG 0.268895 2:-13064339 MsaT007041.1:CDS
TAGTCCTCCAAGAATGCTTA+TGG 0.282983 2:-13064063 MsaT007041.1:CDS
TAATAAGGAACATTTCCTAT+TGG 0.333389 2:+13064137 None:intergenic
GGTGTTCCCATAAGCATTCT+TGG 0.338684 2:+13064056 None:intergenic
AATAAGGAACATTTCCTATT+GGG 0.368793 2:+13064138 None:intergenic
GCCGGCATAGGCACATAATA+AGG 0.398907 2:+13064122 None:intergenic
ATGGAGCGTGACATATTTAT+GGG 0.438860 2:-13064182 MsaT007041.1:CDS
AGAAGAGAAAGTGTCCCAAT+AGG 0.459132 2:-13064152 MsaT007041.1:CDS
TCCTTATTATGTGCCTATGC+CGG 0.483112 2:-13064123 MsaT007041.1:CDS
TCAATCAGCCTCATAACAAC+AGG 0.483454 2:-13064028 MsaT007041.1:CDS
AATTTGGAAAATCAACATAA+TGG 0.484356 2:+13063949 None:intergenic
CATGCCTTAGCAAACAGAAT+AGG 0.486382 2:+13064356 None:intergenic
CCTAGTTGATATTGTCCCTA+GGG 0.487741 2:-13064213 MsaT007041.1:CDS
GGAAACATTTGATTTGCAAG+AGG 0.498129 2:+13063993 None:intergenic
TGGAGCTAGCAACAAGGTCA+TGG 0.501489 2:-13064319 MsaT007041.1:CDS
AAGATCATGAAAACAGAAGA+AGG 0.505724 2:-13064404 None:intergenic
AGTCCTCCAAGAATGCTTAT+GGG 0.511667 2:-13064062 MsaT007041.1:CDS
CCCTAGGGACAATATCAACT+AGG 0.511793 2:+13064213 None:intergenic
GAAACATTTGATTTGCAAGA+GGG 0.521354 2:+13063994 None:intergenic
GGCACCTATTCTGTTTGCTA+AGG 0.530640 2:-13064360 MsaT007041.1:CDS
GAGGGCTGCCTGTTGTTATG+AGG 0.531966 2:+13064020 None:intergenic
AATGTTTCCAATCCAAAAGC+AGG 0.532891 2:-13063979 MsaT007041.1:CDS
TACTGAGGTGGCATATGAGC+CGG 0.534480 2:+13064104 None:intergenic
TTGATTTGCAAGAGGGTGTG+AGG 0.552359 2:+13064001 None:intergenic
ATGCCACCTCAGTATGATGC+AGG 0.555708 2:-13064095 MsaT007041.1:CDS
TCCTAGTTGATATTGTCCCT+AGG 0.558927 2:-13064214 MsaT007041.1:CDS
GGTGGCATATGAGCCGGCAT+AGG 0.576392 2:+13064110 None:intergenic
GGAGCTAGCAACAAGGTCAT+GGG 0.582315 2:-13064318 MsaT007041.1:CDS
ATTCTTGGAGGACTATATGA+TGG 0.593998 2:+13064071 None:intergenic
GTTCCCATAAGCATTCTTGG+AGG 0.601037 2:+13064059 None:intergenic
TGATTTGCAAGAGGGTGTGA+GGG 0.602521 2:+13064002 None:intergenic
AAGGTCATGGGCTAATACAG+AGG 0.637560 2:-13064306 MsaT007041.1:CDS
TTATGAGGCTGATTGAGAGA+AGG 0.649482 2:+13064035 None:intergenic
AGTGAGTATGATATCAGCTG+AGG 0.690629 2:-13064381 MsaT007041.1:CDS
TTATTATGGAGCTAGCAACA+AGG 0.697305 2:-13064325 MsaT007041.1:CDS
GGACCTGCATCATACTGAGG+TGG 0.712395 2:+13064092 None:intergenic
GATGGACCTGCATCATACTG+AGG 0.765521 2:+13064089 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 13063938 13064420 13063938 ID=MsaG007041
Chr2 mRNA 13063938 13064420 13063938 ID=MsaT007041.1;Parent=MsaG007041
Chr2 exon 13063938 13064420 13063938 ID=MsaT007041.1.exon1;Parent=MsaT007041.1
Chr2 CDS 13063938 13064420 13063938 ID=cds.MsaT007041.1;Parent=MsaT007041.1
Gene Sequence

>MsaT007041.1

ATGAAAACAGAAGAAGGAGTGAGTATGATATCAGCTGAGGCACCTATTCTGTTTGCTAAGGCATGTGAAATGTTTATTATGGAGCTAGCAACAAGGTCATGGGCTAATACAGAGGTGAACAAAAGAAAGACACTTCAAAAGAGTGACATTGCATCTGCTGTCTCAAGTAATGAAGTGTTTGATTTCCTAGTTGATATTGTCCCTAGGGAAAAAACAATGGAGCGTGACATATTTATGGGTATACCAAGAAGAGAAAGTGTCCCAATAGGAAATGTTCCTTATTATGTGCCTATGCCGGCTCATATGCCACCTCAGTATGATGCAGGTCCATCATATAGTCCTCCAAGAATGCTTATGGGAACACCTTCTCTCAATCAGCCTCATAACAACAGGCAGCCCTCACACCCTCTTGCAAATCAAATGTTTCCAATCCAAAAGCAGGAAAATGACCATTATGTTGATTTTCCAAATTCAGAAGATTAA
Protein sequence

>MsaT007041.1

MKTEEGVSMISAEAPILFAKACEMFIMELATRSWANTEVNKRKTLQKSDIASAVSSNEVFDFLVDIVPREKTMERDIFMGIPRRESVPIGNVPYYVPMPAHMPPQYDAGPSYSPPRMLMGTPSLNQPHNNRQPSHPLANQMFPIQKQENDHYVDFPNSED*