AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG007487

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007487 MtrunA17_Chr2g0293381 98.316 297 5 0 1 297 1 297 0.0 592
MsaG007487 MtrunA17_Chr8g0384671 74.274 241 56 2 1 239 1 237 2.51e-125 359
MsaG007487 MtrunA17_Chr4g0054131 45.059 253 123 5 1 239 1 251 3.26e-65 207
MsaG007487 MtrunA17_Chr5g0401061 48.548 241 111 6 1 236 1 233 7.55e-64 203
MsaG007487 MtrunA17_Chr8g0383821 64.800 125 44 0 1 125 1 125 4.44e-53 170
MsaG007487 MtrunA17_Chr1g0195251 63.636 121 41 2 125 245 295 412 1.75e-39 143
MsaG007487 MtrunA17_Chr8g0342871 33.108 296 155 7 1 282 1 267 4.12e-33 123
MsaG007487 MtrunA17_Chr2g0329921 35.349 215 108 4 1 190 1 209 7.94e-29 112
MsaG007487 MtrunA17_Chr1g0166681 67.123 73 23 1 1 73 1 72 5.24e-27 104
MsaG007487 MtrunA17_Chr1g0195261 72.000 50 14 0 1 50 1 50 2.99e-20 82.4
MsaG007487 MtrunA17_Chr2g0293401 63.077 65 24 0 59 123 1 65 3.34e-20 82.8
MsaG007487 MtrunA17_Chr8g0383841 67.442 86 19 1 187 263 2 87 2.24e-14 68.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG007487 AT1G49950.3 57.490 247 92 6 1 241 1 240 8.82e-87 262
MsaG007487 AT1G49950.1 57.490 247 92 6 1 241 1 240 8.82e-87 262
MsaG007487 AT1G49950.2 57.490 247 92 6 1 241 1 240 8.82e-87 262
MsaG007487 AT3G49850.1 42.241 232 132 2 1 232 1 230 1.28e-52 174
MsaG007487 AT3G49850.2 42.241 232 132 2 1 232 1 230 1.28e-52 174
MsaG007487 AT5G67580.2 42.798 243 132 5 1 239 1 240 1.40e-52 174
MsaG007487 AT5G67580.1 42.798 243 132 5 1 239 1 240 1.40e-52 174
MsaG007487 AT1G72740.2 37.563 197 120 3 1 197 1 194 1.16e-32 122
MsaG007487 AT1G72740.1 36.946 203 119 4 1 197 1 200 2.62e-30 115
MsaG007487 AT1G17520.4 39.500 200 100 4 1 187 1 192 6.85e-29 112
MsaG007487 AT1G17520.1 40.722 194 94 4 1 181 1 186 4.81e-28 110
MsaG007487 AT1G17520.3 39.303 201 100 5 1 187 1 193 1.80e-27 108
MsaG007487 AT1G17520.2 40.513 195 94 5 1 181 1 187 1.24e-26 106
MsaG007487 AT1G54260.1 45.205 73 40 0 120 192 2 74 3.86e-12 64.7

Find 76 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAGATATGCTGCAAATTTC+TGG 0.140846 2:+18675099 MsaT007487.1:CDS
AAGCCAAGATTTACCGTCTT+TGG 0.203558 2:-18678342 None:intergenic
ACACCCATCGACATTATTAT+TGG 0.246656 2:+18678054 MsaT007487.1:CDS
TAGATATAGCTTCCATTATA+AGG 0.267054 2:-18675833 None:intergenic
TCATCATCACTTAGAGAAAA+AGG 0.267733 2:-18675045 None:intergenic
GTATTCTGTAGGACCATTAC+TGG 0.323222 2:+18676962 MsaT007487.1:intron
AGCCAAGATTTACCGTCTTT+GGG 0.343837 2:-18678341 None:intergenic
TCAAGCATGGGGTGGGTAAA+TGG 0.345523 2:+18674725 MsaT007487.1:CDS
AATGAAAAGAGTGCATTATC+AGG 0.374901 2:+18674987 MsaT007487.1:CDS
TATAAAACATGGTTAAATTC+AGG 0.375074 2:-18674766 None:intergenic
TTATTGGAAGGGAGGCAAAA+AGG 0.396790 2:+18678070 MsaT007487.1:CDS
TCGGTCAAATGTTGATCTAA+AGG 0.406182 2:+18674792 MsaT007487.1:CDS
AATACACGAGGACAACTCTA+TGG 0.413485 2:+18675014 MsaT007487.1:CDS
GGGTTGTTGGATAGGATAAA+TGG 0.426577 2:+18674908 MsaT007487.1:intron
TTCAGGTGAAGCGCAGGTAT+AGG 0.433823 2:+18677996 MsaT007487.1:intron
TTCTAATTCTAAATCGATCT+CGG 0.439248 2:-18678137 None:intergenic
TTCTAAATCGATCTCGGACT+TGG 0.444342 2:-18678131 None:intergenic
CTCTTCAGCCTCCGCCATGA+GGG 0.446885 2:-18678227 None:intergenic
TTGTAGAAGCTGAAAGGAAA+AGG 0.451081 2:+18678302 MsaT007487.1:CDS
CAGGTTGGATAACCTTATAA+TGG 0.457504 2:+18675821 MsaT007487.1:intron
GGAGGCAGAGGCTGCAGAAG+CGG 0.467500 2:+18678258 MsaT007487.1:CDS
AATCGATCTCGGACTTGGTA+TGG 0.471610 2:-18678126 None:intergenic
CTTCCTCTGTCTGAATATGC+TGG 0.476422 2:-18678031 None:intergenic
CCTCATGGCGGAGGCTGAAG+AGG 0.487598 2:+18678228 MsaT007487.1:CDS
AACCATTGCTTCTTTCATTG+AGG 0.488576 2:+18675887 MsaT007487.1:CDS
TGCTCGAGCAGTTGCTGAAG+CGG 0.494217 2:+18678201 MsaT007487.1:CDS
GAGGAATCCGCACTTAAAGC+TGG 0.499504 2:+18674697 MsaT007487.1:CDS
CTGAAGTATCTTACATCTCG+TGG 0.499992 2:+18677021 MsaT007487.1:CDS
GGCAGAGGCTGCAGAAGCGG+AGG 0.501552 2:+18678261 MsaT007487.1:CDS
AGCGGAAGCCCTCATGGCGG+AGG 0.503203 2:+18678219 MsaT007487.1:CDS
CCTCTTCAGCCTCCGCCATG+AGG 0.504586 2:-18678228 None:intergenic
TGCTGAAGCGGAAGCCCTCA+TGG 0.511274 2:+18678213 MsaT007487.1:CDS
ATAGAGTTGTCCTCGTGTAT+TGG 0.517777 2:-18675012 None:intergenic
CCTTCCAATAATAATGTCGA+TGG 0.524567 2:-18678058 None:intergenic
ATATCTAGCTTGAATGAACT+TGG 0.526305 2:+18675849 MsaT007487.1:CDS
ATCTCGTGGAAAACTGATCA+AGG 0.527774 2:+18677035 MsaT007487.1:CDS
AACTGCTCGAGCAGCACATG+CGG 0.528875 2:-18678191 None:intergenic
GGCAAGTGGATGGGCTTCGA+GGG 0.532126 2:+18674948 MsaT007487.1:CDS
TATTCTGTAGGACCATTACT+GGG 0.533689 2:+18676963 MsaT007487.1:intron
TTATATTTCAGGTGAAGCGC+AGG 0.535455 2:+18677990 MsaT007487.1:intron
AAGCTGGAGTTATCAAGCAT+GGG 0.537538 2:+18674713 MsaT007487.1:CDS
GGCTGCCTCTTGTGCAGACA+TGG 0.538920 2:-18678170 None:intergenic
AAGATCCATGTCTGCACAAG+AGG 0.540484 2:+18678165 MsaT007487.1:CDS
CTGTCTGAATATGCTGGAGT+AGG 0.541994 2:-18678025 None:intergenic
AAAGCTGGAGTTATCAAGCA+TGG 0.542386 2:+18674712 MsaT007487.1:CDS
TGGCAAGTGGATGGGCTTCG+AGG 0.542668 2:+18674947 MsaT007487.1:CDS
AGAGGCAACAAAGGAGGCAG+AGG 0.547850 2:+18678246 MsaT007487.1:CDS
AGTCAGCAGGTGCCCAGTAA+TGG 0.551122 2:-18676975 None:intergenic
CCATCGACATTATTATTGGA+AGG 0.555862 2:+18678058 MsaT007487.1:CDS
TACCTCAATGAAAGAAGCAA+TGG 0.571520 2:-18675889 None:intergenic
TCTAGCTTGAATGAACTTGG+TGG 0.579223 2:+18675852 MsaT007487.1:CDS
TGAGCGTGATGGCAAGTGGA+TGG 0.581001 2:+18674938 MsaT007487.1:CDS
GAGCGTGATGGCAAGTGGAT+GGG 0.581966 2:+18674939 MsaT007487.1:CDS
CATCGACATTATTATTGGAA+GGG 0.583949 2:+18678059 MsaT007487.1:CDS
GGAGTTATCAAGCATGGGGT+GGG 0.587974 2:+18674718 MsaT007487.1:CDS
CGACATTATTATTGGAAGGG+AGG 0.593276 2:+18678062 MsaT007487.1:CDS
TTAGATCAACATTTGACCGA+AGG 0.594489 2:-18674789 None:intergenic
GGAGGCTGAAGAGGCAACAA+AGG 0.596715 2:+18678237 MsaT007487.1:CDS
TGGAGTTATCAAGCATGGGG+TGG 0.597697 2:+18674717 MsaT007487.1:CDS
GGCTTCGAGGGAGAAGCCAA+AGG 0.598632 2:+18674960 MsaT007487.1:CDS
ATATCTCTTGAAACTTGAAG+AGG 0.602977 2:-18675084 None:intergenic
GGCTGAAGAGGCAACAAAGG+AGG 0.605389 2:+18678240 MsaT007487.1:CDS
ATGGCGAAATTTGAGCGTGA+TGG 0.606348 2:+18674927 MsaT007487.1:CDS
CTTCCAATAATAATGTCGAT+GGG 0.616105 2:-18678057 None:intergenic
AGAAGCGGAGGCAGATGCAA+TGG 0.616552 2:+18678273 MsaT007487.1:CDS
AGCTGAAAGGAAAAGGCTGA+AGG 0.619969 2:+18678309 MsaT007487.1:CDS
GCTTCGAGGGAGAAGCCAAA+GGG 0.621979 2:+18674961 MsaT007487.1:CDS
GGTTAAATTCAGGATCCTTG+AGG 0.623114 2:-18674756 None:intergenic
AATTTGAGCGTGATGGCAAG+TGG 0.631289 2:+18674934 MsaT007487.1:CDS
TTGACCGAAGGTATAAAACA+TGG 0.643379 2:-18674777 None:intergenic
GATAACTCCAGCTTTAAGTG+CGG 0.649462 2:-18674704 None:intergenic
AGCTGGAGTTATCAAGCATG+GGG 0.657193 2:+18674714 MsaT007487.1:CDS
ACTCCAGCATATTCAGACAG+AGG 0.701760 2:+18678028 MsaT007487.1:CDS
TAAATGGCGTACGATCCTCA+AGG 0.711423 2:+18674741 MsaT007487.1:CDS
TTATCAGGCACCAATACACG+AGG 0.743899 2:+18675002 MsaT007487.1:CDS
TGAAGCGGAAGCCCTCATGG+CGG 0.749745 2:+18678216 MsaT007487.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 18674664 18678354 18674664 ID=MsaG007487
Chr2 mRNA 18674664 18678354 18674664 ID=MsaT007487.1;Parent=MsaG007487
Chr2 exon 18674664 18674813 18674664 ID=MsaT007487.1.exon1;Parent=MsaT007487.1
Chr2 CDS 18674664 18674813 18674664 ID=cds.MsaT007487.1;Parent=MsaT007487.1
Chr2 exon 18674922 18675142 18674922 ID=MsaT007487.1.exon2;Parent=MsaT007487.1
Chr2 CDS 18674922 18675142 18674922 ID=cds.MsaT007487.1;Parent=MsaT007487.1
Chr2 exon 18675824 18675908 18675824 ID=MsaT007487.1.exon3;Parent=MsaT007487.1
Chr2 CDS 18675824 18675908 18675824 ID=cds.MsaT007487.1;Parent=MsaT007487.1
Chr2 exon 18676973 18677056 18676973 ID=MsaT007487.1.exon4;Parent=MsaT007487.1
Chr2 CDS 18676973 18677056 18676973 ID=cds.MsaT007487.1;Parent=MsaT007487.1
Chr2 exon 18678001 18678354 18678001 ID=MsaT007487.1.exon5;Parent=MsaT007487.1
Chr2 CDS 18678001 18678354 18678001 ID=cds.MsaT007487.1;Parent=MsaT007487.1
Gene Sequence

>MsaT007487.1

ATGGGTGTTCCTAAGCAAAAATGGTCAGAAGAAGAGGAATCCGCACTTAAAGCTGGAGTTATCAAGCATGGGGTGGGTAAATGGCGTACGATCCTCAAGGATCCTGAATTTAACCATGTTTTATACCTTCGGTCAAATGTTGATCTAAAGGATAAATGGCGAAATTTGAGCGTGATGGCAAGTGGATGGGCTTCGAGGGAGAAGCCAAAGGGAGCAATGAAAAGAGTGCATTATCAGGCACCAATACACGAGGACAACTCTATGGCTGTCACTCCTTTTTCTCTAAGTGATGATGAATTTGTTGATGTTCAGCCTCTTCAAGTTTCAAGAGATATGCTGCAAATTTCTGGCCCAAAAAGCTCTAGTATAAGGTTGGATAACCTTATAATGGAAGCTATATCTAGCTTGAATGAACTTGGTGGTTCTAATAAAACAACCATTGCTTCTTTCATTGAGGACCATTACTGGGCACCTGCTGACTTCAAAAAGCTGCTGTCAGCAAAACTGAAGTATCTTACATCTCGTGGAAAACTGATCAAGGTGAAGCGCAGGTATAGGATTGCACCTACTCCAGCATATTCAGACAGAGGAAGACACCCATCGACATTATTATTGGAAGGGAGGCAAAAAGGCTCTATGAAATTTTACAGGGATGAGAGCAATATCCATACCAAGTCCGAGATCGATTTAGAATTAGAAAAAATAAGATCCATGTCTGCACAAGAGGCAGCCGCATGTGCTGCTCGAGCAGTTGCTGAAGCGGAAGCCCTCATGGCGGAGGCTGAAGAGGCAACAAAGGAGGCAGAGGCTGCAGAAGCGGAGGCAGATGCAATGGAAGCTTTTGTAGAAGCTGAAAGGAAAAGGCTGAAGGAGAAAAACACCCAAAGACGGTAA
Protein sequence

>MsaT007487.1

MGVPKQKWSEEEESALKAGVIKHGVGKWRTILKDPEFNHVLYLRSNVDLKDKWRNLSVMASGWASREKPKGAMKRVHYQAPIHEDNSMAVTPFSLSDDEFVDVQPLQVSRDMLQISGPKSSSIRLDNLIMEAISSLNELGGSNKTTIASFIEDHYWAPADFKKLLSAKLKYLTSRGKLIKVKRRYRIAPTPAYSDRGRHPSTLLLEGRQKGSMKFYRDESNIHTKSEIDLELEKIRSMSAQEAAACAARAVAEAEALMAEAEEATKEAEAAEAEADAMEAFVEAERKRLKEKNTQRR*