AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG027332


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027332 MtrunA17_Chr5g0419811 88.770 187 20 1 188 373 1 187 1.02e-116 336
MsaG027332 MtrunA17_Chr5g0419821 87.898 157 18 1 1 157 1 156 1.88e-89 266
MsaG027332 MtrunA17_Chr6g0481041 58.421 190 73 3 1 190 1 184 2.94e-66 223
MsaG027332 MtrunA17_Chr2g0322731 43.678 174 93 2 12 181 74 246 7.35e-42 156
MsaG027332 MtrunA17_Chr5g0410711 46.111 180 95 2 10 188 65 243 5.44e-41 153
MsaG027332 MtrunA17_Chr1g0203671 49.359 156 76 2 32 185 93 247 4.44e-40 151
MsaG027332 MtrunA17_Chr4g0024351 47.020 151 75 2 32 178 58 207 9.41e-40 149
MsaG027332 MtrunA17_Chr8g0350321 48.227 141 72 1 34 174 115 254 1.30e-39 149
MsaG027332 MtrunA17_Chr3g0109391 60.902 133 31 2 214 346 587 698 1.94e-39 149
MsaG027332 MtrunA17_Chr7g0246631 47.518 141 73 1 34 174 91 230 4.71e-39 148
MsaG027332 MtrunA17_Chr7g0224481 50.000 144 60 2 34 177 15 146 2.87e-36 134
MsaG027332 MtrunA17_Chr7g0224451 50.000 144 60 2 34 177 15 146 8.50e-36 135
MsaG027332 MtrunA17_Chr6g0472471 46.763 139 73 1 38 176 73 210 3.02e-34 134
MsaG027332 MtrunA17_Chr2g0331581 42.748 131 72 2 38 166 143 272 1.86e-26 111
MsaG027332 MtrunA17_Chr5g0433301 47.328 131 46 2 216 346 582 689 1.25e-25 108
MsaG027332 MtrunA17_Chr5g0394111 37.719 114 70 1 42 155 40 152 4.18e-19 89.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG027332 AT1G73360.1 56.329 158 68 1 34 191 32 188 1.34e-52 186
MsaG027332 AT1G17920.2 52.667 150 69 2 37 185 24 172 3.91e-46 167
MsaG027332 AT1G17920.1 52.667 150 69 2 37 185 24 172 3.91e-46 167
MsaG027332 AT4G04890.2 46.328 177 90 4 33 205 61 236 1.04e-40 153
MsaG027332 AT4G04890.1 46.328 177 90 4 33 205 61 236 1.04e-40 153
MsaG027332 AT4G00730.2 51.493 134 64 1 34 167 134 266 1.64e-39 148
MsaG027332 AT1G05230.12 45.000 200 92 4 2 199 47 230 1.79e-39 148
MsaG027332 AT4G21750.2 50.000 140 69 1 33 172 61 199 1.91e-39 149
MsaG027332 AT4G21750.1 50.000 140 69 1 33 172 61 199 1.91e-39 149
MsaG027332 AT4G21750.3 50.000 140 69 1 33 172 61 199 1.91e-39 149
MsaG027332 AT4G21750.4 50.000 140 69 1 33 172 61 199 1.91e-39 149
MsaG027332 AT4G00730.1 51.493 134 64 1 34 167 134 266 3.04e-39 149
MsaG027332 AT1G05230.8 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.4 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.9 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.10 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.7 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.11 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.2 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.6 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.5 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.1 45.000 200 92 4 2 199 47 230 3.67e-39 148
MsaG027332 AT1G05230.3 45.000 200 92 4 2 199 47 230 3.78e-39 148
MsaG027332 AT3G61150.1 49.265 136 68 1 34 169 110 244 2.69e-37 143
MsaG027332 AT5G46880.3 46.939 147 75 2 33 179 110 253 3.05e-34 134
MsaG027332 AT5G46880.1 46.939 147 75 2 33 179 110 253 3.05e-34 134
MsaG027332 AT5G46880.2 46.939 147 75 2 33 179 110 253 3.05e-34 134
MsaG027332 AT5G17320.1 47.020 151 78 2 28 177 20 169 1.08e-31 127
MsaG027332 AT5G52170.3 41.860 172 91 4 2 170 27 192 1.38e-31 126
MsaG027332 AT5G52170.1 41.860 172 91 4 2 170 27 192 1.38e-31 126
MsaG027332 AT5G52170.2 41.860 172 91 4 2 170 27 192 1.55e-31 126
MsaG027332 AT1G34650.1 40.845 142 84 0 39 180 20 161 2.30e-30 123
MsaG027332 AT2G32370.1 41.714 175 95 4 28 198 62 233 8.22e-29 118
MsaG027332 AT3G03260.2 42.748 131 74 1 36 165 24 154 3.18e-27 113
MsaG027332 AT3G03260.1 42.748 131 74 1 36 165 24 154 3.25e-27 113
MsaG027332 AT1G79840.1 41.718 163 73 5 32 192 99 241 3.12e-25 107
MsaG027332 AT1G79840.5 41.718 163 73 5 32 192 99 241 3.32e-25 107
MsaG027332 AT1G79840.3 41.718 163 73 5 32 192 41 183 3.54e-25 107
MsaG027332 AT1G79840.6 41.718 163 73 5 32 192 41 183 3.54e-25 107
MsaG027332 AT1G79840.4 41.718 163 73 5 32 192 99 241 3.90e-25 107
MsaG027332 AT1G79840.2 41.718 163 73 5 32 192 128 270 5.32e-25 107
MsaG027332 AT4G17710.1 43.511 131 61 2 33 163 87 204 1.10e-24 106
MsaG027332 AT4G25530.1 32.231 121 80 1 37 155 40 160 1.68e-13 72.4

Find 91 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAATGCAATTAGGGGAATT+TGG 0.182664 5:+42672035 MsaT027332.1:CDS
CACCTGAGAAAATATGATTT+TGG 0.206900 5:-42671872 None:intergenic
ACCAATTCAAATATCATCTT+TGG 0.219702 5:+42671560 MsaT027332.1:CDS
GGTGCTTCGACAATGCAATT+AGG 0.245347 5:+42672026 MsaT027332.1:CDS
ATGTTGCATGCGCAATATTC+TGG 0.275832 5:+42671807 MsaT027332.1:CDS
GTGCTTCGACAATGCAATTA+GGG 0.285038 5:+42672027 MsaT027332.1:CDS
GTTATGGTCAGATCAGATTT+TGG 0.293590 5:+42669440 MsaT027332.1:CDS
CCACTACTTGGTAAACTTGA+TGG 0.323390 5:-42671699 None:intergenic
CCGGGTTACACCACTTCATT+AGG 0.330990 5:+42671996 MsaT027332.1:CDS
AAAGAATTAGCTTTGAGTTA+TGG 0.345545 5:+42669424 MsaT027332.1:CDS
GTTGGAAATTCATTTGATAT+TGG 0.350671 5:+42671615 MsaT027332.1:CDS
ACATCTTATCTTATCATTCT+CGG 0.356227 5:-42670777 None:intergenic
GATCATTCTTGAATAGCATT+TGG 0.373233 5:+42672198 MsaT027332.1:intron
TTACTTCTTTGAATCTCGTT+AGG 0.387005 5:-42669205 None:intergenic
ACCTGAAGATATTCAAAAGA+TGG 0.405470 5:+42672238 MsaT027332.1:CDS
TCATCTTTGGATTCAACAAT+GGG 0.406650 5:+42671573 MsaT027332.1:CDS
GATTCAACAATGGGGAGTAT+TGG 0.411860 5:+42671582 MsaT027332.1:CDS
TCCAAAGATGATATTTGAAT+TGG 0.413568 5:-42671561 None:intergenic
AACAATTACCTCAACAATCA+TGG 0.416923 5:+42671739 MsaT027332.1:CDS
TCATCGTTGCATTGCCCTAA+AGG 0.424737 5:+42671657 MsaT027332.1:CDS
AAAGATGATATTTGAATTGG+TGG 0.425517 5:-42671558 None:intergenic
TAGGGCAATGCAACGATGAA+TGG 0.441470 5:-42671653 None:intergenic
GCAATATTCTGGACAAGATT+CGG 0.442351 5:+42671818 MsaT027332.1:CDS
GATATTTGAATTGGTGGAAC+TGG 0.454943 5:-42671552 None:intergenic
GAAAATTTAATCTGCCCCTC+TGG 0.458560 5:+42670827 MsaT027332.1:CDS
GAGTTTCAGAGTGGAGGAAG+TGG 0.463955 5:+42669130 MsaT027332.1:CDS
TCTACTCCCCACCACTGTCC+CGG 0.468646 5:+42671977 MsaT027332.1:CDS
GAAATGATAACCGTTCACTA+AGG 0.481739 5:+42670753 MsaT027332.1:CDS
GGACATCTAAATCAAAATGT+GGG 0.484157 5:-42671851 None:intergenic
GTGTAACCCGGGACAGTGGT+GGG 0.487177 5:-42671984 None:intergenic
TTGCATTGCCCTAAAGGAAA+AGG 0.490303 5:+42671663 MsaT027332.1:CDS
GGGGAGTATTGGACAAGGAT+TGG 0.490348 5:+42671593 MsaT027332.1:CDS
ATCAACAACGGACCACTACT+TGG 0.491789 5:-42671711 None:intergenic
ATCATCTTTGGATTCAACAA+TGG 0.498569 5:+42671572 MsaT027332.1:CDS
TGGACATCTAAATCAAAATG+TGG 0.502102 5:-42671852 None:intergenic
GGTGTAACCCGGGACAGTGG+TGG 0.512415 5:-42671985 None:intergenic
AGTATTGGACAAGGATTGGT+TGG 0.518348 5:+42671597 MsaT027332.1:CDS
ACCACTTCATTAGGTGAGAC+CGG 0.518859 5:+42672005 MsaT027332.1:CDS
CCTGAAGATATTCAAAAGAT+GGG 0.518915 5:+42672239 MsaT027332.1:CDS
CCTAATGAAGTGGTGTAACC+CGG 0.520984 5:-42671996 None:intergenic
CTACTCCCCACCACTGTCCC+GGG 0.522171 5:+42671978 MsaT027332.1:CDS
ATCAAAATAACAATCACCAT+TGG 0.530162 5:-42670864 None:intergenic
ATTAGGGGAATTTGGATTCG+AGG 0.533461 5:+42672043 MsaT027332.1:CDS
AAATAACAATCACCATTGGT+TGG 0.534518 5:-42670860 None:intergenic
ATGTGAGAATATATCTATGA+AGG 0.534689 5:+42670796 MsaT027332.1:CDS
TGTAACCCGGGACAGTGGTG+GGG 0.544537 5:-42671983 None:intergenic
AGTATGCAGGTCGATACCTT+TGG 0.549314 5:+42671777 MsaT027332.1:CDS
ATTTGAATTGGTGGAACTGG+TGG 0.550148 5:-42671549 None:intergenic
TAGAAGATCAGATGAATCGA+TGG 0.554577 5:-42671928 None:intergenic
TAGAAGATCAGATGAATCGA+TGG 0.554577 5:-42671958 None:intergenic
CATTCTCGGCCCTTAGTGAA+CGG 0.554659 5:-42670763 None:intergenic
CTAATGGAGTTTCAGAGTGG+AGG 0.557144 5:+42669124 None:intergenic
ACCTGCATACTTTGATACCT+CGG 0.565962 5:-42671765 None:intergenic
TTAGGGGAATTTGGATTCGA+GGG 0.567383 5:+42672044 MsaT027332.1:CDS
AGATCAGATGAATCGATGGT+GGG 0.567478 5:-42671924 None:intergenic
AGATCAGATGAATCGATGGT+GGG 0.567478 5:-42671954 None:intergenic
TCAAGCTGGTTCGGAGTGTG+AGG 0.569323 5:-42669247 None:intergenic
GGTGGTTGTCCTCCAACCAA+TGG 0.569844 5:+42670848 MsaT027332.1:CDS
TAATTGCATTGTCGAAGCAC+CGG 0.570679 5:-42672024 None:intergenic
TAACAATCACCATTGGTTGG+AGG 0.572616 5:-42670857 None:intergenic
TCCGAGGTATCAAAGTATGC+AGG 0.573808 5:+42671764 MsaT027332.1:CDS
AATTTAATCTGCCCCTCTGG+TGG 0.575675 5:+42670830 MsaT027332.1:CDS
GCTGGTTCGGAGTGTGAGGA+CGG 0.580940 5:-42669243 None:intergenic
AAATGATAACCGTTCACTAA+GGG 0.581718 5:+42670754 MsaT027332.1:CDS
AGCATTATATCTGAATACAC+TGG 0.584252 5:+42671507 MsaT027332.1:CDS
GACATCTAAATCAAAATGTG+GGG 0.585558 5:-42671850 None:intergenic
ACCGGTCTCACCTAATGAAG+TGG 0.597496 5:-42672006 None:intergenic
AAGATCAGATGAATCGATGG+TGG 0.602370 5:-42671925 None:intergenic
AAGATCAGATGAATCGATGG+TGG 0.602370 5:-42671955 None:intergenic
GAAACTGGTACTTACTCCCA+CGG 0.602394 5:-42672077 None:intergenic
TTTCAGAGTGGAGGAAGTGG+TGG 0.608080 5:+42669133 MsaT027332.1:CDS
GATCAGATGAATCGATGGTG+GGG 0.608527 5:-42671923 None:intergenic
GATCAGATGAATCGATGGTG+GGG 0.608527 5:-42671953 None:intergenic
CCATCAAGTTTACCAAGTAG+TGG 0.609404 5:+42671699 MsaT027332.1:CDS
AAATGCTCTACTCAAAGAAG+AGG 0.616166 5:+42670907 MsaT027332.1:CDS
CTCGGAGTCCATGATTGTTG+AGG 0.616580 5:-42671747 None:intergenic
GAACAAAAGGGTTCAGACGA+AGG 0.619839 5:+42669468 MsaT027332.1:CDS
ATGCAACATTGTGTTGCCAA+AGG 0.623905 5:-42671793 None:intergenic
TGAATCTCGTTAGGAGTGTG+AGG 0.625793 5:-42669196 None:intergenic
AATTGTTCATTCATCAACAA+CGG 0.631258 5:-42671723 None:intergenic
CTAATGAAGTGGTGTAACCC+GGG 0.645481 5:-42671995 None:intergenic
GTTGGAGGACAACCACCAGA+GGG 0.645567 5:-42670842 None:intergenic
GGTTGGAGGACAACCACCAG+AGG 0.663143 5:-42670843 None:intergenic
TGCTTCGACAATGCAATTAG+GGG 0.669628 5:+42672028 MsaT027332.1:CDS
AGACTAATGGAGTTTCAGAG+TGG 0.672355 5:+42669121 None:intergenic
CTCAACAATCATGGACTCCG+AGG 0.676275 5:+42671748 MsaT027332.1:CDS
ACATCTAAATCAAAATGTGG+GGG 0.693255 5:-42671849 None:intergenic
ACAATGGGGAGTATTGGACA+AGG 0.710979 5:+42671588 MsaT027332.1:CDS
AGTGGTGTAACCCGGGACAG+TGG 0.726941 5:-42671988 None:intergenic
CATCTTTGGATTCAACAATG+GGG 0.731611 5:+42671574 MsaT027332.1:CDS
TTGGAGGACAACCACCAGAG+GGG 0.763822 5:-42670841 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr5 gene 42669127 42672265 42669127 ID=MsaG027332
Chr5 mRNA 42669127 42672265 42669127 ID=MsaT027332.1;Parent=MsaG027332
Chr5 exon 42669127 42669281 42669127 ID=MsaT027332.1.exon1;Parent=MsaT027332.1
Chr5 CDS 42669127 42669281 42669127 ID=cds.MsaT027332.1;Parent=MsaT027332.1
Chr5 exon 42669372 42669489 42669372 ID=MsaT027332.1.exon2;Parent=MsaT027332.1
Chr5 CDS 42669372 42669489 42669372 ID=cds.MsaT027332.1;Parent=MsaT027332.1
Chr5 exon 42670740 42670928 42670740 ID=MsaT027332.1.exon3;Parent=MsaT027332.1
Chr5 CDS 42670740 42670928 42670740 ID=cds.MsaT027332.1;Parent=MsaT027332.1
Chr5 exon 42671492 42672084 42671492 ID=MsaT027332.1.exon4;Parent=MsaT027332.1
Chr5 CDS 42671492 42672084 42671492 ID=cds.MsaT027332.1;Parent=MsaT027332.1
Chr5 exon 42672199 42672265 42672199 ID=MsaT027332.1.exon5;Parent=MsaT027332.1
Chr5 CDS 42672199 42672265 42672199 ID=cds.MsaT027332.1;Parent=MsaT027332.1
Gene Sequence

>MsaT027332.1

ATGGAGTTTCAGAGTGGAGGAAGTGGTGGTTCTTTTGATTCTCAAAGTAAGAAAAAACGTTATCGTCGTCCTCACACTCCTAACGAGATTCAAAGAAGTAAGAAGAAACGTTATCGCCGTCCTCACACTCCGAACCAGCTTGAAAAGCTTGAAGAGGTGTTTAAGGAGTGTCCAAAACCTGATGAAAAACAAAAGTTGCAATTAAGCAAAGAATTAGCTTTGAGTTATGGTCAGATCAGATTTTGGTTTCAGAACAAAAGGGTTCAGACGAAGGCAAAACTTGAAAGAAATGATAACCGTTCACTAAGGGCCGAGAATGATAAGATAAGATGTGAGAATATATCTATGAAGGAAGCCCTAGAAAATTTAATCTGCCCCTCTGGTGGTTGTCCTCCAACCAATGGTGATTGTTATTTTGATAGAAAAAGGTTGAGATTGGAAAATGCTCTACTCAAAGAAGAGCTTTATAAAGAATCTAGCATTATATCTGAATACACTGGAAGATCAGTTTTAGGGTTTCCACCAGTTCCACCAATTCAAATATCATCTTTGGATTCAACAATGGGGAGTATTGGACAAGGATTGGTTGGAAATTCATTTGATATTGGTGAAATTCATAACAACCATTCATCGTTGCATTGCCCTAAAGGAAAAGGAAAACTCTTCAATCCATCAAGTTTACCAAGTAGTGGTCCGTTGTTGATGAATGAACAATTACCTCAACAATCATGGACTCCGAGGTATCAAAGTATGCAGGTCGATACCTTTGGCAACACAATGTTGCATGCGCAATATTCTGGACAAGATTCGGCAATTGTGCCCCCACATTTTGATTTAGATGTCCAAAATCATATTTTCTCAGGTGTCAATATCGATTCATCTGATCTTCTACTCCCCACCATCGATTCATCTGATCTTCTACTCCCCACCATCGATTCATCTGATCTTCTACTCCCCACCACTGTCCCGGGTTACACCACTTCATTAGGTGAGACCGGTGCTTCGACAATGCAATTAGGGGAATTTGGATTCGAGGGTTTTGATGATCCGTGGGAATCATTCTTGAATAGCATTTGGCATAATGAAATACTTTCACCTGAAGATATTCAAAAGATGGGATAA

Protein sequence

>MsaT027332.1

MEFQSGGSGGSFDSQSKKKRYRRPHTPNEIQRSKKKRYRRPHTPNQLEKLEEVFKECPKPDEKQKLQLSKELALSYGQIRFWFQNKRVQTKAKLERNDNRSLRAENDKIRCENISMKEALENLICPSGGCPPTNGDCYFDRKRLRLENALLKEELYKESSIISEYTGRSVLGFPPVPPIQISSLDSTMGSIGQGLVGNSFDIGEIHNNHSSLHCPKGKGKLFNPSSLPSSGPLLMNEQLPQQSWTPRYQSMQVDTFGNTMLHAQYSGQDSAIVPPHFDLDVQNHIFSGVNIDSSDLLLPTIDSSDLLLPTIDSSDLLLPTTVPGYTTSLGETGASTMQLGEFGFEGFDDPWESFLNSIWHNEILSPEDIQKMG*