AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG010515

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010515 MtrunA17_Chr2g0324961 98.947 285 3 0 1 285 1 285 0.0 593
MsaG010515 MtrunA17_Chr4g0040541 76.736 288 60 4 1 285 1 284 2.93e-156 437
MsaG010515 MtrunA17_Chr4g0046431 68.561 264 73 6 26 284 46 304 3.68e-125 359
MsaG010515 MtrunA17_Chr2g0282871 57.288 295 114 5 1 285 1 293 1.10e-114 332
MsaG010515 MtrunA17_Chr8g0367761 83.240 179 29 1 26 204 46 223 7.75e-109 315
MsaG010515 MtrunA17_Chr8g0389661 73.737 198 40 4 27 217 30 222 7.78e-96 290
MsaG010515 MtrunA17_Chr5g0422431 56.345 197 82 2 25 221 37 229 2.24e-70 224
MsaG010515 MtrunA17_Chr1g0198751 57.068 191 78 2 25 215 37 223 2.65e-70 224
MsaG010515 MtrunA17_Chr7g0227071 53.439 189 84 2 25 212 34 219 1.48e-63 207
MsaG010515 MtrunA17_Chr1g0198741 55.357 112 50 0 104 215 7 118 3.43e-35 128
MsaG010515 MtrunA17_Chr1g0147421 34.940 166 82 8 49 206 27 174 4.85e-15 74.3
MsaG010515 MtrunA17_Chr7g0253011 32.995 197 95 9 49 227 17 194 2.85e-14 72.4
MsaG010515 MtrunA17_Chr6g0484441 32.402 179 94 7 48 217 4 164 3.03e-14 71.6
MsaG010515 MtrunA17_Chr3g0091921 31.694 183 96 7 49 220 16 180 2.41e-13 68.9
MsaG010515 MtrunA17_Chr4g0060931 31.579 171 88 7 49 209 17 168 6.78e-13 68.2
MsaG010515 MtrunA17_Chr2g0318101 29.448 163 95 6 34 193 1 146 3.86e-12 65.9
MsaG010515 MtrunA17_Chr1g0183741 28.313 166 96 6 48 208 9 156 2.89e-11 62.8
MsaG010515 MtrunA17_Chr3g0130731 33.562 146 75 7 49 191 7 133 3.65e-11 62.4
MsaG010515 MtrunA17_Chr8g0384721 32.192 146 77 6 49 191 7 133 4.36e-11 62.4
MsaG010515 MtrunA17_Chr3g0124761 32.639 144 79 6 49 191 7 133 5.43e-11 62.0
MsaG010515 MtrunA17_Chr2g0316971 30.952 168 89 7 49 206 23 173 5.48e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG010515 AT4G28500.1 79.104 201 40 2 25 224 36 235 6.79e-117 338
MsaG010515 AT1G28470.1 76.289 194 44 1 24 215 50 243 2.73e-105 309
MsaG010515 AT4G29230.3 71.144 201 45 2 25 217 29 224 1.92e-97 293
MsaG010515 AT4G29230.1 71.144 201 45 2 25 217 29 224 8.01e-97 293
MsaG010515 AT4G29230.2 71.144 201 44 2 25 217 29 223 1.83e-96 293
MsaG010515 AT5G56620.3 68.342 199 48 4 27 214 25 219 1.85e-90 275
MsaG010515 AT5G56620.2 68.342 199 48 4 27 214 25 219 2.48e-90 274
MsaG010515 AT5G56620.1 68.342 199 48 4 27 214 25 219 3.83e-90 273
MsaG010515 AT1G25580.1 57.143 189 71 4 25 213 37 215 1.21e-65 212
MsaG010515 AT5G14490.2 50.785 191 85 4 30 213 30 218 9.76e-55 179
MsaG010515 AT5G14490.4 50.785 191 85 4 30 213 30 218 1.58e-54 180
MsaG010515 AT5G14490.1 50.785 191 85 4 30 213 33 221 1.98e-54 180
MsaG010515 AT5G14490.3 50.785 191 85 4 30 213 33 221 2.17e-54 180
MsaG010515 AT3G01600.1 51.064 188 84 3 30 210 30 216 9.78e-54 179
MsaG010515 AT3G04060.1 32.961 179 96 6 41 211 12 174 1.37e-15 76.3
MsaG010515 AT5G18270.2 34.637 179 91 7 42 211 14 175 1.55e-15 75.9
MsaG010515 AT5G18270.1 34.637 179 91 7 42 211 14 175 2.68e-15 75.5
MsaG010515 AT3G18400.1 34.337 166 83 8 48 206 4 150 2.57e-14 72.4
MsaG010515 AT5G07680.1 32.143 168 91 5 49 209 17 168 2.39e-13 69.7
MsaG010515 AT3G29035.1 32.941 170 83 8 49 207 24 173 2.58e-13 69.3
MsaG010515 AT5G07680.2 32.143 168 91 5 49 209 3 154 2.60e-13 69.3
MsaG010515 AT5G39610.1 33.929 168 82 7 49 206 20 168 4.52e-13 68.6
MsaG010515 AT5G61430.1 31.953 169 90 6 49 209 16 167 6.61e-13 68.6
MsaG010515 AT1G01720.1 31.333 150 85 5 43 191 1 133 1.34e-12 67.0
MsaG010515 AT1G02230.1 32.877 146 73 7 50 188 4 131 1.02e-11 65.1
MsaG010515 AT5G08790.1 32.877 146 76 6 49 191 7 133 1.07e-11 64.3
MsaG010515 AT1G76420.1 31.844 179 92 9 48 216 21 179 1.71e-11 64.3
MsaG010515 AT4G35580.3 29.082 196 106 10 42 226 2 175 3.76e-11 63.5
MsaG010515 AT4G35580.2 29.082 196 106 10 42 226 2 175 3.87e-11 63.5
MsaG010515 AT4G35580.1 29.082 196 106 10 42 226 2 175 4.00e-11 63.5
MsaG010515 AT1G33060.2 29.268 164 89 8 42 198 17 160 5.08e-11 63.5
MsaG010515 AT1G33060.1 29.268 164 89 8 42 198 17 160 5.45e-11 63.5

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACTTGCCACTCACGAAAAC+TGG 0.294833 2:+74261936 None:intergenic
GAAAGCCAGAGAAAACAAAT+TGG 0.314159 2:-74261863 MsaT010515.1:CDS
TCAAGAGATTCTTGAACATT+TGG 0.330357 2:-74262345 MsaT010515.1:CDS
CACATTGTCTAGGCTGTGTT+TGG 0.340883 2:+74261766 None:intergenic
AATTAACCTGGTAATTTCTC+TGG 0.347710 2:+74262227 None:intergenic
AGAGGAGAAAGAAGGAGAAT+TGG 0.354646 2:-74261808 MsaT010515.1:CDS
TTCGTGAGTGGCAAGTTAAA+AGG 0.360040 2:-74261930 MsaT010515.1:CDS
TAATCATAGTACTATCCTTA+TGG 0.361262 2:-74262715 MsaT010515.1:CDS
CATTATTTCCAAGATGGTAT+TGG 0.373788 2:+74261832 None:intergenic
GAGTTGCCTGGATTACCTGC+TGG 0.394171 2:-74262389 MsaT010515.1:CDS
GAATTCATCCCTACTCTTGA+AGG 0.419664 2:-74262275 MsaT010515.1:CDS
GTTAATTAATTATAGGGTGC+TGG 0.422909 2:-74262419 MsaT010515.1:intron
GGGATGAATTCATCAATTAA+AGG 0.427373 2:+74262287 None:intergenic
CCTCTTCATTATTTCCAAGA+TGG 0.434430 2:+74261826 None:intergenic
GAAACAAGATGGCACAAAAC+AGG 0.437008 2:-74261969 MsaT010515.1:CDS
CTGTGTTTGGTAGAAAACTT+TGG 0.443831 2:+74261779 None:intergenic
CCTACTCTTGAAGGAGAGAA+TGG 0.452976 2:-74262266 MsaT010515.1:CDS
AGTTGCCTGGATTACCTGCT+GGG 0.468652 2:-74262388 MsaT010515.1:CDS
TTCACCCCAGCAGGTAATCC+AGG 0.471003 2:+74262383 None:intergenic
GCTGGAATTCATGAGTTGCC+TGG 0.479458 2:-74262401 MsaT010515.1:CDS
TATGCAGGTGTCGGCAAAGA+TGG 0.479967 2:-74262083 MsaT010515.1:intron
CCATTCTCTCCTTCAAGAGT+AGG 0.481831 2:+74262266 None:intergenic
AAAGAAGTACCATCATGAAC+AGG 0.483493 2:+74261561 None:intergenic
TGATCCGACATTTCTTTCAC+CGG 0.491329 2:-74262058 MsaT010515.1:CDS
GGATCAAACTTCACCCCAGC+AGG 0.493343 2:+74262374 None:intergenic
GTTATGCACCAATACCATCT+TGG 0.493624 2:-74261840 MsaT010515.1:CDS
CATTCTCTCCTTCAAGAGTA+GGG 0.494352 2:+74262267 None:intergenic
CCATCAAAAGCATACACAAC+AGG 0.501280 2:-74262035 MsaT010515.1:CDS
TCATATCAAATGCCAAGATC+AGG 0.502996 2:-74262646 MsaT010515.1:intron
TATCTCTGCGTCTCTCCATA+AGG 0.503083 2:+74262700 None:intergenic
AAAGCCAGAGAAAACAAATT+GGG 0.504516 2:-74261862 MsaT010515.1:CDS
GAATGTGAAGAACCTGATCT+TGG 0.505797 2:+74262634 None:intergenic
AATAATGAAGAGGAGAAAGA+AGG 0.526318 2:-74261816 MsaT010515.1:CDS
TCAAGAATCTCTTGATCAGT+AGG 0.542994 2:+74262353 None:intergenic
ACTCATCCAGAGAAATTACC+AGG 0.579439 2:-74262233 MsaT010515.1:intron
TTGATATGATGACCACATGT+AGG 0.596208 2:+74262660 None:intergenic
AATGAACCACCACATTGTCT+AGG 0.596526 2:+74261756 None:intergenic
TGTAGTTAGTGTAAAGCACA+AGG 0.598633 2:+74261895 None:intergenic
ATGGCCGGTGAAAGAAATGT+CGG 0.616052 2:+74262054 None:intergenic
AACATTTGGAAGCAAAAGTG+AGG 0.616853 2:-74262331 MsaT010515.1:CDS
CCATCTTGGAAATAATGAAG+AGG 0.636615 2:-74261826 MsaT010515.1:CDS
ATCAGAACTTGTCCTACATG+TGG 0.643015 2:-74262672 MsaT010515.1:CDS
AAAGTGCACACAGATGCTGA+TGG 0.650930 2:-74261996 MsaT010515.1:CDS
GGCACAAAACAGGTAAAACA+AGG 0.653352 2:-74261959 MsaT010515.1:CDS
CTGATGGAAGTGAAACAAGA+TGG 0.659352 2:-74261980 MsaT010515.1:CDS
CAAACACAGCCTAGACAATG+TGG 0.666262 2:-74261765 MsaT010515.1:CDS
TAGTGATCAAGGTGTGCATG+AGG 0.690375 2:-74261694 MsaT010515.1:CDS
TGATCAAGGTGTGCATGAGG+TGG 0.699152 2:-74261691 MsaT010515.1:CDS
GTTGCCTGGATTACCTGCTG+GGG 0.708832 2:-74262387 MsaT010515.1:CDS
ACACAGCCTAGACAATGTGG+TGG 0.735435 2:-74261762 MsaT010515.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 74261551 74262763 74261551 ID=MsaG010515
Chr2 mRNA 74261551 74262763 74261551 ID=MsaT010515.1;Parent=MsaG010515
Chr2 exon 74261551 74262098 74261551 ID=MsaT010515.1.exon3;Parent=MsaT010515.1
Chr2 CDS 74261551 74262098 74261551 ID=cds.MsaT010515.1;Parent=MsaT010515.1
Chr2 exon 74262234 74262426 74262234 ID=MsaT010515.1.exon2;Parent=MsaT010515.1
Chr2 CDS 74262234 74262426 74262234 ID=cds.MsaT010515.1;Parent=MsaT010515.1
Chr2 exon 74262647 74262763 74262647 ID=MsaT010515.1.exon1;Parent=MsaT010515.1
Chr2 CDS 74262647 74262763 74262647 ID=cds.MsaT010515.1;Parent=MsaT010515.1
Gene Sequence

>MsaT010515.1

ATGACTCAGTGTAGTTACCCTGAAAATAATCATAGTACTATCCTTATGGAGAGACGCAGAGATAGCTTAATCAGAACTTGTCCTACATGTGGTCATCATATCAAATGCCAAGATCAGGGTGCTGGAATTCATGAGTTGCCTGGATTACCTGCTGGGGTGAAGTTTGATCCTACTGATCAAGAGATTCTTGAACATTTGGAAGCAAAAGTGAGGTCTGATATTCAAATGCTTCATCCTTTAATTGATGAATTCATCCCTACTCTTGAAGGAGAGAATGGAATCTGCTGTACTCATCCAGAGAAATTACCAGGTGTCGGCAAAGATGGACTGATCCGACATTTCTTTCACCGGCCATCAAAAGCATACACAACAGGAACAAGAAAAAGAAGAAAAGTGCACACAGATGCTGATGGAAGTGAAACAAGATGGCACAAAACAGGTAAAACAAGGCCAGTTTTCGTGAGTGGCAAGTTAAAAGGTTATAAGAAAATCCTTGTGCTTTACACTAACTACAGAAAGCAAAGAAAGCCAGAGAAAACAAATTGGGTTATGCACCAATACCATCTTGGAAATAATGAAGAGGAGAAAGAAGGAGAATTGGTAGTTTCCAAAGTTTTCTACCAAACACAGCCTAGACAATGTGGTGGTTCATTGATGAAAGACTCAGCATCATTTTCTGATAAAAAACTAAATAGTGATCAAGGTGTGCATGAGGTGGTTAATCATAAAAACAGTGGATTTGTTGAATACTATAGTACTTCTTTCATATCTTTTGATCAAGGGGAACAACATAGATCAAACAATGCTCAAGTGATTTCTCATTTTCCTGTTCATGATGGTACTTCTTTCATTCCTTGA
Protein sequence

>MsaT010515.1

MTQCSYPENNHSTILMERRRDSLIRTCPTCGHHIKCQDQGAGIHELPGLPAGVKFDPTDQEILEHLEAKVRSDIQMLHPLIDEFIPTLEGENGICCTHPEKLPGVGKDGLIRHFFHRPSKAYTTGTRKRRKVHTDADGSETRWHKTGKTRPVFVSGKLKGYKKILVLYTNYRKQRKPEKTNWVMHQYHLGNNEEEKEGELVVSKVFYQTQPRQCGGSLMKDSASFSDKKLNSDQGVHEVVNHKNSGFVEYYSTSFISFDQGEQHRSNNAQVISHFPVHDGTSFIP*