AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG019166

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019166 MtrunA17_Chr4g0012691 90.780 141 12 1 1 140 1 141 3.78e-65 207
MsaG019166 MtrunA17_Chr4g0012691 69.461 167 13 2 141 269 212 378 5.09e-55 181
MsaG019166 MtrunA17_Chr4g0056091 32.710 321 123 8 2 242 1 308 1.71e-36 131
MsaG019166 MtrunA17_Chr7g0231181 50.000 176 43 8 2 140 1 168 4.21e-29 113
MsaG019166 MtrunA17_Chr7g0231181 48.000 150 28 6 144 267 234 359 7.25e-29 112
MsaG019166 MtrunA17_Chr5g0399261 33.735 249 77 10 2 171 5 244 1.64e-24 99.0
MsaG019166 MtrunA17_Chr4g0061301 45.070 71 39 0 4 74 10 80 2.17e-12 66.6
MsaG019166 MtrunA17_Chr4g0061301 53.333 60 17 2 127 175 315 374 4.26e-11 62.8
MsaG019166 MtrunA17_Chr1g0182161 34.694 147 56 7 125 240 17 154 6.17e-12 62.8
MsaG019166 MtrunA17_Chr4g0018761 26.950 282 118 12 7 236 9 254 9.14e-12 63.5
MsaG019166 MtrunA17_Chr2g0327901 39.326 89 36 1 126 196 11 99 1.88e-11 60.5
MsaG019166 MtrunA17_Chr3g0086331 36.667 120 67 3 126 241 351 465 3.66e-11 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG019166 AT3G60580.1 34.277 318 95 14 2 241 1 282 1.03e-33 124
MsaG019166 AT2G45120.1 35.826 321 110 13 2 241 1 306 1.23e-33 124
MsaG019166 AT1G02030.1 31.889 323 76 12 1 241 1 261 8.17e-31 116
MsaG019166 AT4G16610.1 40.179 112 55 3 1 112 1 100 2.10e-14 70.5

Find 46 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATTTGTCAAACCTCATTA+AGG 0.281207 4:-24253951 None:intergenic
CATAGGAGAACACATAATAT+TGG 0.390236 4:-24254179 MsaT019166.1:CDS
ATCAACTTTCTTGACCCGTT+TGG 0.394557 4:+24254763 None:intergenic
GGTGATGACTCAGTTTGTTT+TGG 0.396035 4:+24254992 None:intergenic
GTGAATCGAAAGCTTCGCTT+TGG 0.412150 4:+24254881 None:intergenic
GCTTCATCTCTTTCATCCTA+TGG 0.420837 4:-24254917 MsaT019166.1:CDS
TGGGCCAGTTGGATTCTTTG+AGG 0.421097 4:+24254790 None:intergenic
CTTCCTCGTACCTTCTTCAC+TGG 0.429275 4:+24254443 None:intergenic
ACCAGCGTCGATGAATTGAT+TGG 0.461470 4:+24254853 None:intergenic
AGAACACATAATATTGGATT+CGG 0.462559 4:-24254173 MsaT019166.1:CDS
GTTGGTGCTGCTCGCGGCGG+TGG 0.464935 4:+24254968 None:intergenic
TGGATTCTCTCTTAGACCAT+AGG 0.471463 4:+24254901 None:intergenic
AACTGGCCCACGATCCAAAC+GGG 0.477505 4:-24254777 MsaT019166.1:CDS
CGTTTGGATCGTGGGCCAGT+TGG 0.485267 4:+24254779 None:intergenic
AGAACTAAAGCCAGTGAAGA+AGG 0.486810 4:-24254453 MsaT019166.1:intron
GAGTCCTCAAAGAATCCAAC+TGG 0.487670 4:-24254794 MsaT019166.1:CDS
TCTTGACCCGTTTGGATCGT+GGG 0.488842 4:+24254771 None:intergenic
TTCTGTACTGAGTTCTTCAT+CGG 0.493840 4:-24254708 MsaT019166.1:CDS
TTCTTGACCCGTTTGGATCG+TGG 0.496085 4:+24254770 None:intergenic
GACGATGTTAGTCAAGTTGA+AGG 0.498170 4:-24253993 MsaT019166.1:CDS
TCATCTTCATCTTCGTCCAT+CGG 0.500481 4:+24254035 None:intergenic
GGTGCTGCTCGCGGCGGTGG+TGG 0.503220 4:+24254971 None:intergenic
TCATCTTCGTCCATCGGAGC+AGG 0.504356 4:+24254041 None:intergenic
CCAGCGTCGATGAATTGATT+GGG 0.505485 4:+24254854 None:intergenic
CAAACTATCTCCAACATTCG+CGG 0.520478 4:+24254079 None:intergenic
AATAAACAAGTTGCAGAAAG+TGG 0.531079 4:-24254344 MsaT019166.1:CDS
GCTCGAGGTTCCGCGAATGT+TGG 0.535052 4:-24254089 MsaT019166.1:CDS
TCCACCTAAAGCTCTACCAT+TGG 0.552290 4:+24255042 None:intergenic
CAACTGGCCCACGATCCAAA+CGG 0.561624 4:-24254778 MsaT019166.1:CDS
TCGAAACTGAGCTGAACAGT+TGG 0.568717 4:+24254950 None:intergenic
CCCAATCAATTCATCGACGC+TGG 0.575794 4:-24254854 MsaT019166.1:CDS
AGGTTTGACAAATTCAGCAT+CGG 0.580532 4:+24253959 None:intergenic
GAAGATGAAGACGAAGATGA+TGG 0.584528 4:-24254020 MsaT019166.1:CDS
TTTCGTTCATATCAAGCACT+AGG 0.595896 4:-24254392 MsaT019166.1:CDS
TCCAATGGTAGAGCTTTAGG+TGG 0.603163 4:-24255043 MsaT019166.1:CDS
TGAACAGTTGGTGCTGCTCG+CGG 0.604272 4:+24254962 None:intergenic
GTCAAGCACTAGGTGGACAT+AGG 0.616154 4:-24254196 MsaT019166.1:CDS
ACAAACGTTGAGGTTGCTCG+AGG 0.649082 4:-24254104 MsaT019166.1:CDS
AAACAAGTTGCAGAAAGTGG+TGG 0.653860 4:-24254341 MsaT019166.1:intron
CGTTCATATCAAGCACTAGG+TGG 0.659055 4:-24254389 MsaT019166.1:CDS
TCTTCAGGTCAAGCACTAGG+TGG 0.663302 4:-24254203 MsaT019166.1:intron
ACAGTTGGTGCTGCTCGCGG+CGG 0.667210 4:+24254965 None:intergenic
AGCAGCAACAACAACAACGA+TGG 0.688028 4:-24254132 MsaT019166.1:CDS
GATGAAGACGAAGATGATGG+TGG 0.693640 4:-24254017 MsaT019166.1:CDS
AAGCCAGTGAAGAAGGTACG+AGG 0.710119 4:-24254446 MsaT019166.1:CDS
GATGGTTAGAACAAACGTTG+AGG 0.711857 4:-24254114 MsaT019166.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 24253953 24255107 24253953 ID=MsaG019166
Chr4 mRNA 24253953 24255107 24253953 ID=MsaT019166.1;Parent=MsaG019166
Chr4 exon 24253953 24254218 24253953 ID=MsaT019166.1.exon3;Parent=MsaT019166.1
Chr4 CDS 24253953 24254218 24253953 ID=cds.MsaT019166.1;Parent=MsaT019166.1
Chr4 exon 24254342 24254465 24254342 ID=MsaT019166.1.exon2;Parent=MsaT019166.1
Chr4 CDS 24254342 24254465 24254342 ID=cds.MsaT019166.1;Parent=MsaT019166.1
Chr4 exon 24254688 24255107 24254688 ID=MsaT019166.1.exon1;Parent=MsaT019166.1
Chr4 CDS 24254688 24255107 24254688 ID=cds.MsaT019166.1;Parent=MsaT019166.1
Gene Sequence

>MsaT019166.1

ATGATGGAGAAACACAAGTGCAAATTTTGCTTGAGAAGTTTTTCCAATGGTAGAGCTTTAGGTGGACACATGAGATCACACATGATGAACCTACCAAAACAAACTGAGTCATCACCACCACCGCCGCGAGCAGCACCAACTGTTCAGCTCAGTTTCGAAGCTGAATCAGCTTCATCTCTTTCATCCTATGGTCTAAGAGAGAATCCAAAGCGAAGCTTTCGATTCACAGATCCCAATCAATTCATCGACGCTGGTTCGATAATTCATCAAGAAGATAGAGAAAGTGAAACTGAGTCCTCAAAGAATCCAACTGGCCCACGATCCAAACGGGTCAAGAAAGTTGATCCTATGAAAAACTCAGTACAGACTGAGTCTGTTTCTGTACTGAGTTCTTCATCGGATATAACAACTGAAGAAGATCCAGTGAAGAAGGTACGAGGAAGATACAAATGTGACACGTGTAACAAAGTGTTTCGTTCATATCAAGCACTAGGTGGACACAGAGCGAGTCACAAGAAAAATAAACAAGTTGCAGAAAGTGGTGGTCAAGCACTAGGTGGACATAGGAGAACACATAATATTGGATTCGGATCAGCATCAACATCAGCAGCAGCAACAACAACAACGATGGTTAGAACAAACGTTGAGGTTGCTCGAGGTTCCGCGAATGTTGGAGATAGTTTGTTAGATCTAAATTTTCCTGCTCCGATGGACGAAGATGAAGATGAAGACGAAGATGATGGTGGTGACGATGTTAGTCAAGTTGAAGGTTCTGCTGTTTCCGATGCTGAATTTGTCAAACCTCATTAA
Protein sequence

>MsaT019166.1

MMEKHKCKFCLRSFSNGRALGGHMRSHMMNLPKQTESSPPPPRAAPTVQLSFEAESASSLSSYGLRENPKRSFRFTDPNQFIDAGSIIHQEDRESETESSKNPTGPRSKRVKKVDPMKNSVQTESVSVLSSSSDITTEEDPVKKVRGRYKCDTCNKVFRSYQALGGHRASHKKNKQVAESGGQALGGHRRTHNIGFGSASTSAAATTTTMVRTNVEVARGSANVGDSLLDLNFPAPMDEDEDEDEDDGGDDVSQVEGSAVSDAEFVKPH*