AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG024160

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024160 MtrunA17_Chr8g0386511 99.351 154 1 0 46 199 1 154 8.54e-113 318
MsaG024160 MtrunA17_Chr5g0434331 39.286 196 96 3 4 199 35 207 5.65e-43 143
MsaG024160 MtrunA17_Chr7g0265291 34.483 203 116 6 9 198 4 202 5.21e-29 107
MsaG024160 MtrunA17_Chr1g0179781 32.323 198 120 5 12 198 7 201 2.84e-27 102
MsaG024160 MtrunA17_Chr2g0297251 36.538 156 94 3 11 165 36 187 7.70e-27 102
MsaG024160 MtrunA17_Chr7g0230511 31.250 192 113 7 3 181 1 186 2.23e-25 99.0
MsaG024160 MtrunA17_Chr4g0040071 30.303 198 123 6 12 198 15 208 3.25e-25 97.4
MsaG024160 MtrunA17_Chr4g0065041 36.111 144 87 3 10 152 6 145 3.64e-25 98.2
MsaG024160 MtrunA17_Chr5g0395181 29.949 197 130 5 6 198 15 207 3.67e-24 94.7
MsaG024160 MtrunA17_Chr5g0411151 31.343 201 119 6 12 198 35 230 1.12e-23 94.4
MsaG024160 MtrunA17_Chr8g0366581 30.000 200 123 7 12 198 33 228 3.76e-22 90.1
MsaG024160 MtrunA17_Chr8g0392151 32.432 148 75 5 14 140 15 158 9.02e-19 81.3
MsaG024160 MtrunA17_Chr2g0320561 30.769 169 102 8 14 170 6 171 9.62e-15 70.5
MsaG024160 MtrunA17_Chr4g0020811 29.861 144 79 6 14 142 8 144 5.44e-13 63.9
MsaG024160 MtrunA17_Chr1g0161601 41.975 81 44 2 14 94 50 127 9.70e-13 63.2
MsaG024160 MtrunA17_Chr2g0308401 29.861 144 79 6 14 142 6 142 1.30e-12 62.8
MsaG024160 MtrunA17_Chr2g0320551 32.867 143 82 6 14 145 6 145 7.72e-12 61.2
MsaG024160 MtrunA17_Chr4g0052451 38.095 84 44 2 63 140 10 91 2.74e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG024160 AT1G31040.1 32.900 231 106 8 11 198 18 242 7.70e-29 108
MsaG024160 AT2G27930.1 36.946 203 99 7 9 198 1 187 1.91e-28 105
MsaG024160 AT2G27930.4 36.946 203 99 7 9 198 1 187 1.91e-28 105
MsaG024160 AT2G01818.1 33.333 225 121 10 1 199 1 222 2.88e-28 105
MsaG024160 AT5G46710.3 33.019 212 103 6 12 198 12 209 2.27e-27 103
MsaG024160 AT5G46710.1 33.019 212 103 6 12 198 28 225 3.25e-27 103
MsaG024160 AT1G32700.1 31.905 210 127 6 1 198 1 206 1.86e-26 101
MsaG024160 AT2G12646.1 34.356 163 102 3 8 169 2 160 2.25e-26 102
MsaG024160 AT2G12646.2 34.356 163 102 3 8 169 2 160 2.25e-26 102
MsaG024160 AT2G12646.3 35.000 160 99 3 11 169 2 157 1.42e-25 99.8
MsaG024160 AT1G43000.2 32.407 216 117 8 8 198 12 223 4.70e-25 97.8
MsaG024160 AT1G43000.1 32.407 216 117 8 8 198 5 216 5.25e-25 97.4
MsaG024160 AT4G17900.2 32.143 196 121 5 12 198 20 212 8.26e-25 96.7
MsaG024160 AT4G17900.1 32.143 196 121 5 12 198 34 226 9.09e-25 97.1
MsaG024160 AT1G76590.1 33.143 175 103 6 8 180 14 176 1.20e-24 97.1
MsaG024160 AT3G60670.1 36.296 135 81 3 10 143 5 135 3.86e-24 95.9
MsaG024160 AT1G21000.1 28.511 235 116 9 12 198 16 246 2.49e-22 91.3
MsaG024160 AT1G21000.2 28.511 235 116 9 12 198 13 243 2.75e-22 90.9
MsaG024160 AT2G27930.3 38.462 143 74 5 9 140 1 140 1.40e-20 84.7
MsaG024160 AT2G27930.2 38.462 143 74 5 9 140 1 140 1.40e-20 84.7
MsaG024160 AT5G46710.2 36.641 131 78 4 12 140 28 155 3.40e-20 83.6
MsaG024160 AT1G32700.2 31.765 170 101 5 40 198 2 167 5.10e-19 80.9
MsaG024160 AT2G27930.5 33.793 145 70 4 65 198 61 190 1.42e-12 63.9
MsaG024160 AT2G27930.6 33.793 145 70 4 65 198 61 190 1.42e-12 63.9
MsaG024160 AT2G01818.2 33.121 157 80 7 66 199 4 158 9.32e-12 60.8

Find 37 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTGGACCTTCTTTGGGAAAA+AGG 0.129448 4:-96517283 MsaT024160.1:CDS
GGGAACTTCTGGACCTTCTT+TGG 0.210937 4:-96517291 MsaT024160.1:CDS
GAAACACAGGAGGGAACTTC+TGG 0.286766 4:-96517302 MsaT024160.1:CDS
AAAAGAGCCTCAAGCCAAAT+TGG 0.306260 4:+96518552 None:intergenic
GGAACTTCTGGACCTTCTTT+GGG 0.337965 4:-96517290 MsaT024160.1:CDS
TCAAGTGGTGTTGTGCTAAC+TGG 0.344627 4:+96517368 None:intergenic
CACCAGATGATATACAATAT+TGG 0.377985 4:+96518439 None:intergenic
CTCTTCGGGACCTTCCATCC+AGG 0.401860 4:-96517342 MsaT024160.1:CDS
TTGATGCTATCTCACTGAAT+TGG 0.402058 4:+96517612 None:intergenic
ACACCACTTGAGTCCTCTTC+GGG 0.413177 4:-96517356 MsaT024160.1:CDS
AACACCACTTGAGTCCTCTT+CGG 0.418793 4:-96517357 MsaT024160.1:CDS
CCAGGGTCCTCCTCAGCATC+AGG 0.432791 4:-96517324 MsaT024160.1:CDS
TAGTCATCACCTTGCAAGAA+AGG 0.434907 4:+96517522 None:intergenic
GCACAGTAGCGATATAAATC+AGG 0.468363 4:+96517545 None:intergenic
GTACTGTACAGATTGCAATA+TGG 0.468846 4:-96518469 MsaT024160.1:CDS
CGTAGACTTACAAAAGCAAC+AGG 0.478767 4:-96517661 MsaT024160.1:intron
CCTGATGCTGAGGAGGACCC+TGG 0.491773 4:+96517324 None:intergenic
CTACTGTGCCCTTTCTTGCA+AGG 0.513621 4:-96517531 MsaT024160.1:intron
TCTTCGGGACCTTCCATCCA+GGG 0.514865 4:-96517341 MsaT024160.1:CDS
TCCTGTGTTTCCTGATGCTG+AGG 0.533529 4:+96517314 None:intergenic
TGCCAATATTGTATATCATC+TGG 0.537908 4:-96518441 MsaT024160.1:CDS
TAAAAGAAGGGAGATCTATG+AGG 0.542712 4:+96517245 None:intergenic
AGTCATCACCTTGCAAGAAA+GGG 0.543071 4:+96517523 None:intergenic
GTTCTACTCATCAAATTCGT+AGG 0.546464 4:-96518506 MsaT024160.1:CDS
TGTGTTTCCTGATGCTGAGG+AGG 0.548455 4:+96517317 None:intergenic
ATGCTGAGGAGGACCCTGGA+TGG 0.559712 4:+96517328 None:intergenic
TGTTGTTGCTCTGAGTGCTA+TGG 0.578177 4:-96518367 MsaT024160.1:CDS
TTACAAAAGCAACAGGAAAG+TGG 0.586060 4:-96517654 MsaT024160.1:CDS
TCCTCAGCATCAGGAAACAC+AGG 0.589871 4:-96517315 MsaT024160.1:CDS
TGAGGAGGACCCTGGATGGA+AGG 0.592506 4:+96517332 None:intergenic
AATATATAGACATATTTACA+AGG 0.614023 4:-96518391 MsaT024160.1:CDS
GCTATCTCACTGAATTGGCG+AGG 0.635923 4:+96517617 None:intergenic
TCAGCATCAGGAAACACAGG+AGG 0.659675 4:-96517312 MsaT024160.1:CDS
GCTAACTGGATCCTCAGACT+CGG 0.666411 4:+96517382 None:intergenic
GGTCCCGAAGAGGACTCAAG+TGG 0.687578 4:+96517353 None:intergenic
CAGCATCAGGAAACACAGGA+GGG 0.689712 4:-96517311 MsaT024160.1:CDS
CTGGATGGAAGGTCCCGAAG+AGG 0.694672 4:+96517343 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr4 gene 96517244 96519559 96517244 ID=MsaG024160
Chr4 mRNA 96517244 96519559 96517244 ID=MsaT024160.1;Parent=MsaG024160
Chr4 exon 96517244 96517426 96517244 ID=MsaT024160.1.exon4;Parent=MsaT024160.1
Chr4 CDS 96517244 96517426 96517244 ID=cds.MsaT024160.1;Parent=MsaT024160.1
Chr4 exon 96517532 96517678 96517532 ID=MsaT024160.1.exon3;Parent=MsaT024160.1
Chr4 CDS 96517532 96517678 96517532 ID=cds.MsaT024160.1;Parent=MsaT024160.1
Chr4 exon 96518338 96518598 96518338 ID=MsaT024160.1.exon2;Parent=MsaT024160.1
Chr4 CDS 96518338 96518598 96518338 ID=cds.MsaT024160.1;Parent=MsaT024160.1
Chr4 exon 96519551 96519559 96519551 ID=MsaT024160.1.exon1;Parent=MsaT024160.1
Chr4 CDS 96519551 96519559 96519551 ID=cds.MsaT024160.1;Parent=MsaT024160.1
Gene Sequence

>MsaT024160.1

ATGAACATGGCAACCCAAAGTAATGTTGAAAAACCAATTTGGCTTGAGGCTCTTTTGAGAGAAAATTATTTTGGCTCATGTTCTACTCATCAAATTCGTAGGAATGAGCTGAAAAAGTACTGTACAGATTGCAATATGGTATGTTGCCAATATTGTATATCATCTGGTGTTCATCGCCACCACAAAATACTGAAAATATATAGACATATTTACAAGGATGTTGTTGCTCTGAGTGCTATGGAAAAATATTTTGATTGCTCAGAGATTCAGACTTACAAAAGCAACAGGAAAGTGGTTATTTCTCTGAAACCTCGCCAATTCAGTGAGATAGCATCAAATGCTGAAGACTCCTGTGAAGTTTGCAACAAAAAGTTGAATGAACCTGATTTATATCGCTACTGTGCCCTTTCTTGCAAGGTTGAAGCAGTTTCAAAAAAGTCCGAGTCTGAGGATCCAGTTAGCACAACACCACTTGAGTCCTCTTCGGGACCTTCCATCCAGGGTCCTCCTCAGCATCAGGAAACACAGGAGGGAACTTCTGGACCTTCTTTGGGAAAAAGGAAAAGAAAGGGAATACCTCATAGATCTCCCTTCTTTTAA
Protein sequence

>MsaT024160.1

MNMATQSNVEKPIWLEALLRENYFGSCSTHQIRRNELKKYCTDCNMVCCQYCISSGVHRHHKILKIYRHIYKDVVALSAMEKYFDCSEIQTYKSNRKVVISLKPRQFSEIASNAEDSCEVCNKKLNEPDLYRYCALSCKVEAVSKKSESEDPVSTTPLESSSGPSIQGPPQHQETQEGTSGPSLGKRKRKGIPHRSPFF*