AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG016735

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016735 MtrunA17_Chr3g0132091 94.886 352 16 2 26 376 1 351 0.0 677
MsaG016735 MtrunA17_Chr8g0386271 59.314 408 116 20 1 376 1 390 5.27e-136 393
MsaG016735 MtrunA17_Chr7g0224821 33.753 397 212 10 1 376 1 367 8.59e-56 187
MsaG016735 MtrunA17_Chr4g0061651 55.474 137 41 4 43 172 75 198 5.79e-39 144
MsaG016735 MtrunA17_Chr2g0308321 50.323 155 67 3 43 192 122 271 3.13e-38 144
MsaG016735 MtrunA17_Chr5g0420051 45.752 153 79 1 43 195 131 279 2.02e-37 140
MsaG016735 MtrunA17_Chr3g0122411 50.000 126 61 2 83 206 151 276 1.39e-36 137
MsaG016735 MtrunA17_Chr7g0231911 58.696 92 38 0 87 178 139 230 1.18e-33 127
MsaG016735 MtrunA17_Chr4g0046991 57.000 100 40 1 71 170 50 146 6.76e-32 117
MsaG016735 MtrunA17_Chr7g0258471 36.820 239 118 5 97 330 142 352 7.67e-32 124
MsaG016735 MtrunA17_Chr8g0360361 64.103 78 28 0 97 174 65 142 5.54e-31 116
MsaG016735 MtrunA17_Chr1g0162871 46.715 137 67 2 97 233 104 234 3.60e-30 122
MsaG016735 MtrunA17_Chr8g0334671 68.421 76 24 0 97 172 187 262 4.73e-30 117
MsaG016735 MtrunA17_Chr2g0282521 61.905 84 32 0 91 174 58 141 7.08e-30 112
MsaG016735 MtrunA17_Chr2g0302791 59.302 86 35 0 97 182 139 224 1.62e-29 120
MsaG016735 MtrunA17_Chr1g0194121 55.000 100 43 1 83 182 133 230 1.75e-29 120
MsaG016735 MtrunA17_Chr7g0270541 50.450 111 52 2 72 182 121 228 1.57e-28 117
MsaG016735 MtrunA17_Chr8g0377421 46.429 112 58 1 97 206 132 243 4.03e-27 109
MsaG016735 MtrunA17_Chr8g0377401 58.904 73 30 0 97 169 162 234 1.04e-22 95.9
MsaG016735 MtrunA17_Chr8g0366211 52.747 91 43 0 47 137 39 129 2.31e-18 80.5
MsaG016735 MtrunA17_Chr2g0286661 50.000 74 37 0 97 170 103 176 3.68e-18 86.3
MsaG016735 MtrunA17_Chr2g0317041 59.574 47 19 0 97 143 99 145 1.59e-14 70.5
MsaG016735 MtrunA17_Chr1g0175031 61.702 47 18 0 97 143 74 120 3.00e-14 69.3
MsaG016735 MtrunA17_Chr8g0377431 53.571 56 26 0 97 152 151 206 5.14e-13 67.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG016735 AT5G50570.1 38.806 402 177 17 1 376 1 359 2.35e-68 219
MsaG016735 AT5G50570.2 38.806 402 177 17 1 376 1 359 2.35e-68 219
MsaG016735 AT5G50670.1 38.806 402 177 17 1 376 1 359 2.35e-68 219
MsaG016735 AT5G50670.2 38.806 402 177 17 1 376 1 359 2.35e-68 219
MsaG016735 AT1G27370.6 53.636 110 48 2 64 172 144 251 6.55e-33 126
MsaG016735 AT1G27370.1 53.636 110 48 2 64 172 144 251 8.77e-33 127
MsaG016735 AT1G27370.5 53.636 110 48 2 64 172 144 251 8.77e-33 127
MsaG016735 AT1G27370.3 53.636 110 48 2 64 172 144 251 8.77e-33 127
MsaG016735 AT1G27370.2 53.636 110 48 2 64 172 144 251 8.77e-33 127
MsaG016735 AT1G27370.4 53.636 110 48 2 64 172 144 251 8.77e-33 127
MsaG016735 AT1G27370.7 53.636 110 48 2 64 172 144 251 8.77e-33 127
MsaG016735 AT1G27360.2 54.630 108 44 2 66 172 147 250 1.25e-32 126
MsaG016735 AT1G27360.1 54.630 108 44 2 66 172 147 250 1.25e-32 126
MsaG016735 AT1G27360.3 54.630 108 44 2 66 172 147 250 1.25e-32 126
MsaG016735 AT1G27360.4 54.630 108 44 2 66 172 147 250 1.25e-32 126
MsaG016735 AT2G47070.1 58.252 103 41 1 97 197 106 208 4.14e-32 128
MsaG016735 AT2G42200.1 62.963 81 30 0 97 177 74 154 7.30e-32 124
MsaG016735 AT3G60030.1 55.046 109 46 1 94 199 124 232 8.05e-32 127
MsaG016735 AT1G76580.2 67.901 81 26 0 97 177 114 194 9.34e-32 127
MsaG016735 AT1G76580.3 67.901 81 26 0 97 177 114 194 1.04e-31 127
MsaG016735 AT5G43270.3 63.750 80 29 0 94 173 166 245 1.39e-31 124
MsaG016735 AT5G43270.1 63.750 80 29 0 94 173 166 245 1.39e-31 124
MsaG016735 AT5G43270.2 63.750 80 29 0 94 173 166 245 1.39e-31 124
MsaG016735 AT1G76580.1 67.901 81 26 0 97 177 114 194 1.51e-31 127
MsaG016735 AT3G57920.1 56.701 97 42 0 77 173 39 135 4.42e-31 121
MsaG016735 AT2G33810.1 64.865 74 26 0 97 170 54 127 1.59e-30 114
MsaG016735 AT1G02065.1 64.286 84 30 0 87 170 178 261 2.13e-30 119
MsaG016735 AT1G69170.1 37.768 233 126 4 76 304 100 317 2.59e-30 120
MsaG016735 AT1G53160.3 62.821 78 29 0 97 174 54 131 2.69e-29 112
MsaG016735 AT1G53160.2 62.821 78 29 0 97 174 54 131 4.79e-29 111
MsaG016735 AT1G53160.1 62.821 78 29 0 97 174 54 131 4.79e-29 111
MsaG016735 AT1G20980.1 64.634 82 28 1 97 177 120 201 5.83e-29 119
MsaG016735 AT3G15270.1 60.811 74 29 0 97 170 63 136 2.00e-27 107
MsaG016735 AT2G47070.2 55.696 79 33 1 121 197 1 79 4.19e-19 89.7
MsaG016735 AT1G02065.2 60.345 58 23 0 87 144 178 235 1.30e-17 82.0
MsaG016735 AT5G18830.2 48.684 76 38 1 97 171 138 213 8.03e-17 82.8
MsaG016735 AT5G18830.1 48.684 76 38 1 97 171 138 213 9.26e-17 82.4
MsaG016735 AT5G18830.3 48.684 76 38 1 97 171 138 213 9.97e-17 82.4

Find 92 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGTAGGTGTTGCAATTT+TGG 0.158488 3:-101436168 None:intergenic
ACCAACCTTACCTTGGTAAT+TGG 0.175692 3:-101437521 None:intergenic
AAAGCACCTTCTTGGGATTT+GGG 0.187536 3:+101435975 MsaT016735.1:CDS
GTTGGCAGAACCTTTGTTTA+AGG 0.193299 3:-101436355 None:intergenic
GAAAGCACCTTCTTGGGATT+TGG 0.238938 3:+101435974 MsaT016735.1:CDS
ACGAAACCACACCTCTTCTT+AGG 0.280555 3:+101439098 MsaT016735.1:CDS
AAATTTCTATTCCCATTGAT+AGG 0.308664 3:-101439419 None:intergenic
CCACATGTACTTGTTGGTTT+TGG 0.311200 3:-101438973 None:intergenic
GGAATTTGAAAGCACCTTCT+TGG 0.318651 3:+101435967 MsaT016735.1:CDS
TCTTCCATTGTTTCTATGTT+GGG 0.318840 3:-101436020 None:intergenic
GCAACACCTACTTCTTCTTC+AGG 0.325475 3:+101436176 MsaT016735.1:CDS
ATGGAAGAATCAAACAGATT+TGG 0.341310 3:+101436035 MsaT016735.1:CDS
TGATCACTCTCACTCCCATT+TGG 0.346060 3:-101439331 None:intergenic
CATGTATAGGTTTCATTCGC+TGG 0.346570 3:+101437387 MsaT016735.1:intron
AATGTCCCGTATGCAGCCTT+TGG 0.355884 3:+101439255 MsaT016735.1:CDS
TTCTTCCATTGTTTCTATGT+TGG 0.356796 3:-101436021 None:intergenic
GATCACTCTCACTCCCATTT+GGG 0.397635 3:-101439330 None:intergenic
CTCAACTATTTCCCTATCAA+TGG 0.401247 3:+101439407 MsaT016735.1:CDS
GAATTTGAAAGCACCTTCTT+GGG 0.406706 3:+101435968 MsaT016735.1:CDS
ATTTGAAGCTTGGTCAGGTT+GGG 0.406990 3:+101436090 MsaT016735.1:CDS
AAGTTGCTTCCCTTCTCCAT+AGG 0.412844 3:-101439035 None:intergenic
ATGTCCCGTATGCAGCCTTT+GGG 0.413710 3:+101439256 MsaT016735.1:CDS
ACTCCAGAGGTTACAATTTG+TGG 0.417163 3:+101436332 MsaT016735.1:CDS
GTAATTGTAGAGATTATCAT+AGG 0.418535 3:+101436279 MsaT016735.1:CDS
CTACCAGCAGGTCGCGTGAT+AGG 0.419897 3:-101437490 None:intergenic
CAGACGCACACATCTGATAA+TGG 0.424137 3:+101439202 MsaT016735.1:CDS
CAATTTGTGGCCTTAAACAA+AGG 0.433957 3:+101436345 MsaT016735.1:CDS
CAGTTTCTTGTCTTGTGGAT+GGG 0.435642 3:+101436240 MsaT016735.1:CDS
TTGGAGTTTATAAAATGAAA+GGG 0.436768 3:+101436054 MsaT016735.1:CDS
TATCAACCACATGTACTTGT+TGG 0.442335 3:-101438979 None:intergenic
GAAGGAGTGTTGGTCCCAAA+TGG 0.443655 3:+101439316 MsaT016735.1:CDS
AATTGTAACCTCTGGAGTCT+TGG 0.443787 3:-101436327 None:intergenic
AGTTGCTTCCCTTCTCCATA+GGG 0.445636 3:-101439034 None:intergenic
AACTTGAAAAGGGTAGCAAC+TGG 0.449000 3:-101438874 None:intergenic
AGATTATCATAGGCGTCATA+AGG 0.456365 3:+101436289 MsaT016735.1:CDS
GCAGGTCGCGTGATAGGTTC+AGG 0.457130 3:-101437484 None:intergenic
ACAGTTTCTTGTCTTGTGGA+TGG 0.459317 3:+101436239 MsaT016735.1:CDS
AATTTCTATTCCCATTGATA+GGG 0.460765 3:-101439418 None:intergenic
TGTTGATTTGAAGCTTGGTC+AGG 0.463472 3:+101436085 MsaT016735.1:CDS
AAGCACCTTCTTGGGATTTG+GGG 0.465651 3:+101435976 MsaT016735.1:CDS
CATGGCAGTAGAACTTGAAA+AGG 0.466360 3:-101438885 None:intergenic
TTTCTTCCTGTGAAAGTGGT+AGG 0.467735 3:+101438936 MsaT016735.1:CDS
AGGCCACAAATTGTAACCTC+TGG 0.469390 3:-101436335 None:intergenic
TTTGGAGTTTATAAAATGAA+AGG 0.469867 3:+101436053 MsaT016735.1:CDS
TGGGACCAACACTCCTTCCA+TGG 0.470666 3:-101439311 None:intergenic
GGTTCTGCCAACAGTGTAGC+AGG 0.480510 3:+101436366 MsaT016735.1:CDS
TAACAATAGCTTTGAGTCCA+TGG 0.485578 3:+101439294 MsaT016735.1:CDS
CTCATTTCTTCCTGTGAAAG+TGG 0.486411 3:+101438932 MsaT016735.1:CDS
TTGTTCCTCGTTGTATAACA+TGG 0.491290 3:+101439354 MsaT016735.1:CDS
CGCGTGATAGGTTCAGGCTG+TGG 0.502946 3:-101437478 None:intergenic
TGATAATGGTTTGAATCAAA+TGG 0.506912 3:+101439216 MsaT016735.1:CDS
TTGTATAACATGGGTTCTGA+TGG 0.507293 3:+101439364 MsaT016735.1:CDS
TCAACTATTTCCCTATCAAT+GGG 0.507836 3:+101439408 MsaT016735.1:CDS
TGAGTCCATGGAAGGAGTGT+TGG 0.509096 3:+101439306 MsaT016735.1:CDS
GAACCTATCACGCGACCTGC+TGG 0.513292 3:+101437487 MsaT016735.1:CDS
TTGCTACTTGTCCTAAGAAG+AGG 0.514720 3:-101439109 None:intergenic
ATTGACAGTTTCTTGTCTTG+TGG 0.515582 3:+101436235 MsaT016735.1:CDS
TCAGTCCCAAAGGCTGCATA+CGG 0.523893 3:-101439261 None:intergenic
GAAGATCCTGAAGAAGAAGT+AGG 0.539972 3:-101436182 None:intergenic
TTGCTTCCCTTCTCCATAGG+GGG 0.540375 3:-101439032 None:intergenic
AGCACCTTCTTGGGATTTGG+GGG 0.546781 3:+101435977 MsaT016735.1:CDS
TGTTCCTCGTTGTATAACAT+GGG 0.547164 3:+101439355 MsaT016735.1:CDS
GTGAAGCCTACCACTTTCAC+AGG 0.547444 3:-101438942 None:intergenic
TGGAGTTTATAAAATGAAAG+GGG 0.553424 3:+101436055 MsaT016735.1:CDS
AAGGAGTGTTGGTCCCAAAT+GGG 0.554973 3:+101439317 MsaT016735.1:CDS
CTGCCATGGTGAATTCAGCT+TGG 0.557661 3:+101438900 MsaT016735.1:CDS
ATTACCCAACATAGAAACAA+TGG 0.578453 3:+101436016 MsaT016735.1:CDS
GTTGTTATTATATTATGGAG+TGG 0.582799 3:+101435946 None:intergenic
GTGAATTCAGCTTGGAGTAG+CGG 0.589283 3:+101438908 MsaT016735.1:CDS
GCATCATTAGACAAAGGAAG+TGG 0.590112 3:-101436134 None:intergenic
GATTTGAAGCTTGGTCAGGT+TGG 0.592453 3:+101436089 MsaT016735.1:CDS
ACTTGAAAAGGGTAGCAACT+GGG 0.597817 3:-101438873 None:intergenic
CATTGATAGGGAAATAGTTG+AGG 0.598793 3:-101439406 None:intergenic
ATATATACCTGCTACACTGT+TGG 0.601239 3:-101436373 None:intergenic
GACAGAAGAGAGAGAGCACA+AGG 0.601971 3:-101439172 None:intergenic
AATAGCTTTGAGTCCATGGA+AGG 0.603284 3:+101439298 MsaT016735.1:CDS
ATGGCAGTAGAACTTGAAAA+GGG 0.604257 3:-101438884 None:intergenic
TGCATACGGGACATTGAATG+AGG 0.606553 3:-101439247 None:intergenic
CCATGCAGACTCAGTCCCAA+AGG 0.608403 3:-101439271 None:intergenic
CCTTTGGGACTGAGTCTGCA+TGG 0.612958 3:+101439271 MsaT016735.1:CDS
CAGTCCCAAAGGCTGCATAC+GGG 0.620364 3:-101439260 None:intergenic
GTTGCTTCCCTTCTCCATAG+GGG 0.627059 3:-101439033 None:intergenic
ATGGGTTCTGATGGATCACA+AGG 0.638864 3:+101439373 MsaT016735.1:CDS
CCAAAACCAACAAGTACATG+TGG 0.642955 3:+101438973 MsaT016735.1:CDS
GCACCTTCTTGGGATTTGGG+GGG 0.648392 3:+101435978 MsaT016735.1:CDS
AGCTGTAGGAAACGTTTAGA+CGG 0.648813 3:+101437433 MsaT016735.1:CDS
ACTTGTCCTAAGAAGAGGTG+TGG 0.652942 3:-101439104 None:intergenic
ACAACAGCATCATTAGACAA+AGG 0.660295 3:-101436140 None:intergenic
AGGAAGTGGTGATTGATCAG+TGG 0.671389 3:-101436120 None:intergenic
ACTTCATTCCAAGACTCCAG+AGG 0.684162 3:+101436319 MsaT016735.1:CDS
ACTCCAAGCTGAATTCACCA+TGG 0.715980 3:-101438903 None:intergenic
AGAACCCATGTTATACAACG+AGG 0.772576 3:-101439359 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr3 gene 101435960 101439435 101435960 ID=MsaG016735
Chr3 mRNA 101435960 101439435 101435960 ID=MsaT016735.1;Parent=MsaG016735
Chr3 exon 101435960 101436387 101435960 ID=MsaT016735.1.exon1;Parent=MsaT016735.1
Chr3 CDS 101435960 101436387 101435960 ID=cds.MsaT016735.1;Parent=MsaT016735.1
Chr3 exon 101437396 101437532 101437396 ID=MsaT016735.1.exon2;Parent=MsaT016735.1
Chr3 CDS 101437396 101437532 101437396 ID=cds.MsaT016735.1;Parent=MsaT016735.1
Chr3 exon 101438870 101439435 101438870 ID=MsaT016735.1.exon3;Parent=MsaT016735.1
Chr3 CDS 101438870 101439435 101438870 ID=cds.MsaT016735.1;Parent=MsaT016735.1
Gene Sequence

>MsaT016735.1

ATGGAGTGGAATTTGAAAGCACCTTCTTGGGATTTGGGGGGTATAGAAGAGGCAACATTACCCAACATAGAAACAATGGAAGAATCAAACAGATTTGGAGTTTATAAAATGAAAGGGGAGTTTTCTGTTGATTTGAAGCTTGGTCAGGTTGGGAACTCTGCCACTGATCAATCACCACTTCCTTTGTCTAATGATGCTGTTGTTGTCTCCAAAATTGCAACACCTACTTCTTCTTCAGGATCTTCTAAGAGAGCTAGAGCTATGAATAATGCAACATTGACAGTTTCTTGTCTTGTGGATGGGTGCAATTCTGATCTTAGTAATTGTAGAGATTATCATAGGCGTCATAAGGTTTGTGAACTTCATTCCAAGACTCCAGAGGTTACAATTTGTGGCCTTAAACAAAGGTTCTGCCAACAGTGTAGCAGGTTTCATTCGCTGGAGCAATTTGATGAAAGAAAAAGAAGCTGTAGGAAACGTTTAGACGGACACAACCGAAGAAGAAGAAAACCACAGCCTGAACCTATCACGCGACCTGCTGGTAGTTTTTTGTCCAATTACCAAGGCACCCAGTTGCTACCCTTTTCAAGTTCTACTGCCATGGTGAATTCAGCTTGGAGTAGCGGACTCATTTCTTCCTGTGAAAGTGGTAGGCTTCACATCCACAACCAAAACCAACAAGTACATGTGGTTGATAAACAAGATATTTTTCCTGGTTCTACTCAAACCCCCTATGGAGAAGGGAAGCAACTTCAATTCTTACACAATGACAACAACAATCTCTCACTTCATAACGAAACCACACCTCTTCTTAGGACAAGTAGCAAAATGTTCTGTGATAGTTTAACAACTTCAGTACACGAGTCACCTTGTGCTCTCTCTCTTCTGTCATCATCACAGACGCACACATCTGATAATGGTTTGAATCAAATGGTGCAGCAGCCTCATTCAATGTCCCGTATGCAGCCTTTGGGACTGAGTCTGCATGGTAACAATAGCTTTGAGTCCATGGAAGGAGTGTTGGTCCCAAATGGGAGTGAGAGTGATCATTGTTCCTCGTTGTATAACATGGGTTCTGATGGATCACAAGGCAATGATGCACCTCAACTATTTCCCTATCAATGGGAATAG
Protein sequence

>MsaT016735.1

MEWNLKAPSWDLGGIEEATLPNIETMEESNRFGVYKMKGEFSVDLKLGQVGNSATDQSPLPLSNDAVVVSKIATPTSSSGSSKRARAMNNATLTVSCLVDGCNSDLSNCRDYHRRHKVCELHSKTPEVTICGLKQRFCQQCSRFHSLEQFDERKRSCRKRLDGHNRRRRKPQPEPITRPAGSFLSNYQGTQLLPFSSSTAMVNSAWSSGLISSCESGRLHIHNQNQQVHVVDKQDIFPGSTQTPYGEGKQLQFLHNDNNNLSLHNETTPLLRTSSKMFCDSLTTSVHESPCALSLLSSSQTHTSDNGLNQMVQQPHSMSRMQPLGLSLHGNNSFESMEGVLVPNGSESDHCSSLYNMGSDGSQGNDAPQLFPYQWE*