AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene64107

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64107.t1 MTR_5g074200 61.379 145 13 2 4 105 183 327 3.76e-52 166
MS.gene64107.t1 MTR_5g093540 55.882 136 9 2 5 105 130 249 5.43e-39 130
MS.gene64107.t1 MTR_3g031220 54.667 75 29 2 12 83 176 248 7.77e-20 82.8
MS.gene64107.t1 MTR_3g031220 56.000 75 28 2 12 83 176 248 1.12e-19 82.8
MS.gene64107.t1 MTR_3g031220 65.789 38 13 0 33 70 365 402 8.28e-12 60.5
MS.gene64107.t1 MTR_5g074400 41.026 117 30 3 26 105 238 352 1.61e-19 82.4
MS.gene64107.t1 MTR_5g074400 68.421 38 12 0 33 70 420 457 5.46e-13 63.5
MS.gene64107.t1 MTR_7g100510 65.385 52 18 0 34 85 190 241 1.64e-18 79.3
MS.gene64107.t1 MTR_7g071120 58.621 58 24 0 26 83 159 216 8.01e-18 77.4
MS.gene64107.t1 MTR_7g071120 63.158 38 14 0 33 70 324 361 3.29e-11 58.5
MS.gene64107.t1 MTR_3g056100 62.745 51 19 0 33 83 99 149 3.18e-16 72.8
MS.gene64107.t1 MTR_3g056100 50.980 51 24 1 33 82 258 308 8.99e-11 57.4
MS.gene64107.t1 MTR_3g056100 62.745 51 19 0 33 83 99 149 3.29e-16 72.8
MS.gene64107.t1 MTR_3g056100 50.980 51 24 1 33 82 271 321 9.02e-11 57.4
MS.gene64107.t1 MTR_5g094430 60.784 51 20 0 33 83 66 116 1.43e-15 70.9
MS.gene64107.t1 MTR_5g094430 50.980 51 24 1 33 82 230 280 7.99e-11 57.4
MS.gene64107.t1 MTR_7g011820 64.151 53 19 0 33 85 228 280 3.08e-15 70.1
MS.gene64107.t1 MTR_4g013260 51.471 68 31 2 18 83 168 235 4.51e-15 69.7
MS.gene64107.t1 MTR_3g009470 60.784 51 20 0 33 83 280 330 4.54e-15 69.7
MS.gene64107.t1 MTR_3g056100 62.745 51 19 0 33 83 243 293 6.72e-15 69.3
MS.gene64107.t1 MTR_3g056100 62.745 51 19 0 33 83 243 293 8.26e-15 68.9
MS.gene64107.t1 MTR_5g042920 60.377 53 21 0 33 85 151 203 9.23e-15 68.6
MS.gene64107.t1 MTR_7g080020 62.745 51 19 0 33 83 280 330 1.99e-14 67.8
MS.gene64107.t1 MTR_5g094430 60.784 51 20 0 33 83 200 250 5.20e-14 66.6
MS.gene64107.t1 MTR_3g009470 60.784 51 20 0 33 83 280 330 6.40e-14 66.2
MS.gene64107.t1 MTR_5g094430 60.784 51 20 0 33 83 88 138 1.30e-13 65.5
MS.gene64107.t1 MTR_7g080000 59.184 49 20 0 34 82 235 283 3.01e-13 64.3
MS.gene64107.t1 MTR_7g080000 63.158 38 14 0 33 70 432 469 3.43e-11 58.5
MS.gene64107.t1 MTR_4g082580 41.558 77 44 1 10 85 122 198 1.22e-12 62.8
MS.gene64107.t1 MTR_5g073850 62.500 48 9 2 1 40 113 159 9.56e-12 58.5
MS.gene64107.t1 MTR_1g077780 60.526 38 15 0 33 70 62 99 2.05e-11 57.0
MS.gene64107.t1 MTR_8g092140 41.429 70 40 1 33 101 160 229 3.77e-11 57.8
MS.gene64107.t1 MTR_3g095080 39.726 73 43 1 33 104 144 216 5.75e-11 57.0
MS.gene64107.t1 MTR_3g095080 39.726 73 43 1 33 104 168 240 6.14e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene64107.t1 AT2G38470 62.745 51 19 0 33 83 184 234 3.24e-18 78.6
MS.gene64107.t1 AT1G13960 62.264 53 20 0 33 85 76 128 5.59e-18 77.4
MS.gene64107.t1 AT1G13960 52.941 51 23 1 33 82 256 306 9.56e-12 60.1
MS.gene64107.t1 AT5G07100 61.538 52 19 1 33 83 24 75 9.15e-18 75.1
MS.gene64107.t1 AT5G07100 65.789 38 13 0 33 70 141 178 1.95e-12 60.8
MS.gene64107.t1 AT5G07100 61.538 52 19 1 33 83 24 75 9.15e-18 75.1
MS.gene64107.t1 AT5G07100 65.789 38 13 0 33 70 141 178 1.95e-12 60.8
MS.gene64107.t1 AT5G07100 61.538 52 19 1 33 83 24 75 9.15e-18 75.1
MS.gene64107.t1 AT5G07100 65.789 38 13 0 33 70 141 178 1.95e-12 60.8
MS.gene64107.t1 AT5G07100 61.538 52 19 1 33 83 24 75 9.15e-18 75.1
MS.gene64107.t1 AT5G07100 65.789 38 13 0 33 70 141 178 1.95e-12 60.8
MS.gene64107.t1 AT5G07100 61.538 52 19 1 33 83 117 168 1.15e-17 76.3
MS.gene64107.t1 AT5G07100 65.789 38 13 0 33 70 234 271 1.50e-12 62.0
MS.gene64107.t1 AT3G01080 62.264 53 20 0 33 85 205 257 1.18e-16 73.6
MS.gene64107.t1 AT1G13960 62.264 53 20 0 33 85 229 281 3.11e-16 72.8
MS.gene64107.t1 AT3G01080 62.264 53 20 0 33 85 205 257 3.21e-16 72.8
MS.gene64107.t1 AT3G01080 53.846 52 23 1 33 83 344 395 6.01e-13 63.5
MS.gene64107.t1 AT3G01080 62.264 53 20 0 33 85 167 219 1.05e-15 71.2
MS.gene64107.t1 AT3G01080 53.846 52 23 1 33 83 306 357 1.85e-12 62.0
MS.gene64107.t1 AT4G26440 64.000 50 18 0 33 82 178 227 1.11e-15 71.2
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 211 261 1.14e-15 71.2
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 381 431 6.37e-11 57.8
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 171 221 1.15e-15 71.2
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 341 391 6.39e-11 57.8
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 139 189 1.24e-15 71.2
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 309 359 6.99e-11 57.8
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 35 85 1.69e-15 70.9
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 205 255 9.80e-11 57.4
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 35 85 1.69e-15 70.9
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 205 255 9.80e-11 57.4
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 35 85 1.69e-15 70.9
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 205 255 9.80e-11 57.4
MS.gene64107.t1 AT4G26640 60.784 51 20 0 33 83 35 85 1.69e-15 70.9
MS.gene64107.t1 AT4G26640 50.980 51 24 1 33 82 205 255 9.80e-11 57.4
MS.gene64107.t1 AT2G03340 60.377 53 21 0 33 85 250 302 1.79e-15 70.9
MS.gene64107.t1 AT2G37260 55.769 52 23 0 34 85 166 217 2.31e-15 70.5
MS.gene64107.t1 AT5G56270 62.745 51 19 0 33 83 273 323 2.40e-15 70.5
MS.gene64107.t1 AT5G56270 65.789 38 13 0 33 70 487 524 4.03e-11 58.5
MS.gene64107.t1 AT2G37260 55.769 52 23 0 34 85 84 135 2.73e-15 70.1
MS.gene64107.t1 AT2G37260 55.769 52 23 0 34 85 86 137 2.78e-15 70.1
MS.gene64107.t1 AT2G30250 54.717 53 24 0 31 83 164 216 8.41e-15 68.9
MS.gene64107.t1 AT2G04880 52.000 50 24 0 33 82 111 160 9.49e-15 68.6
MS.gene64107.t1 AT2G04880 52.000 50 24 0 33 82 111 160 1.21e-14 68.6
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.21e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.23e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.23e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.25e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.25e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.30e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.43e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.43e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.48e-14 67.8
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 391 453 2.68e-14 67.4
MS.gene64107.t1 AT4G12020 47.692 65 32 1 21 85 458 520 2.92e-14 67.4
MS.gene64107.t1 AT5G13080 49.020 51 25 1 33 82 67 117 1.21e-11 57.8

Find 14 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCATGATGATGGGTATAAT+TGG 0.246954 5.1:+50260224 MS.gene64107:CDS
ATCATTTGGAAGTGAACAAT+TGG 0.346812 5.1:+50260469 MS.gene64107:CDS
ATTGATACTGAAGACTTTGC+AGG 0.359791 5.1:-50260506 None:intergenic
TACTTGCAAGATCAATCATT+TGG 0.394888 5.1:+50260455 MS.gene64107:intron
AAAATTTGTCTTTAAGAAGA+AGG 0.406219 5.1:+50260197 MS.gene64107:CDS
AAGAGAAAGTAGCAAAAGGA+AGG 0.448078 5.1:+50260257 MS.gene64107:CDS
AAGGTTGAGATAACTATAGA+TGG 0.449611 5.1:+50260334 MS.gene64107:CDS
AGAAGGATAAACCATGATGA+TGG 0.457113 5.1:+50260214 MS.gene64107:CDS
TATGAAGAGAAAGTAGCAAA+AGG 0.459364 5.1:+50260253 MS.gene64107:CDS
TCCAATTATACCCATCATCA+TGG 0.461024 5.1:-50260225 None:intergenic
GAAGGATAAACCATGATGAT+GGG 0.572923 5.1:+50260215 MS.gene64107:CDS
AGAGAAAGTAGCAAAAGGAA+GGG 0.578563 5.1:+50260258 MS.gene64107:CDS
GAAGCTATTATAAATGTACA+TGG 0.617639 5.1:+50260290 MS.gene64107:CDS
ATTATTGAGACACTATACAA+AGG 0.688284 5.1:+50260361 MS.gene64107:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTGTCTTTAAGAAGA+AGG + chr5.1:50260197-50260216 MS.gene64107:CDS 20.0%
!!! TAATTGTTTTGTGAAGAAAA+AGG + chr5.1:50260315-50260334 MS.gene64107:CDS 20.0%
!!! TTCTTAAAGACAAATTTTGT+TGG - chr5.1:50260195-50260214 None:intergenic 20.0%
!!! TTTTTCTTCACAAAACAATT+AGG - chr5.1:50260316-50260335 None:intergenic 20.0%
! ATTATTGAGACACTATACAA+AGG + chr5.1:50260361-50260380 MS.gene64107:CDS 25.0%
! GAAGCTATTATAAATGTACA+TGG + chr5.1:50260290-50260309 MS.gene64107:CDS 25.0%
AAGGTTGAGATAACTATAGA+TGG + chr5.1:50260334-50260353 MS.gene64107:CDS 30.0%
ATCATTTGGAAGTGAACAAT+TGG + chr5.1:50260469-50260488 MS.gene64107:CDS 30.0%
TACTTGCAAGATCAATCATT+TGG + chr5.1:50260455-50260474 MS.gene64107:intron 30.0%
TATGAAGAGAAAGTAGCAAA+AGG + chr5.1:50260253-50260272 MS.gene64107:CDS 30.0%
AAGAGAAAGTAGCAAAAGGA+AGG + chr5.1:50260257-50260276 MS.gene64107:CDS 35.0%
AGAAGGATAAACCATGATGA+TGG + chr5.1:50260214-50260233 MS.gene64107:CDS 35.0%
AGAGAAAGTAGCAAAAGGAA+GGG + chr5.1:50260258-50260277 MS.gene64107:CDS 35.0%
ATTGATACTGAAGACTTTGC+AGG - chr5.1:50260509-50260528 None:intergenic 35.0%
GAAGGATAAACCATGATGAT+GGG + chr5.1:50260215-50260234 MS.gene64107:CDS 35.0%
TCCAATTATACCCATCATCA+TGG - chr5.1:50260228-50260247 None:intergenic 35.0%
!! ACCATGATGATGGGTATAAT+TGG + chr5.1:50260224-50260243 MS.gene64107:CDS 35.0%
AGCTAACGTCTTCAATGAAG+TGG + chr5.1:50260401-50260420 MS.gene64107:intron 40.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 50260133 50260532 50260133 ID=MS.gene64107
chr5.1 mRNA 50260133 50260532 50260133 ID=MS.gene64107.t1;Parent=MS.gene64107
chr5.1 exon 50260133 50260382 50260133 ID=MS.gene64107.t1.exon1;Parent=MS.gene64107.t1
chr5.1 CDS 50260133 50260382 50260133 ID=cds.MS.gene64107.t1;Parent=MS.gene64107.t1
chr5.1 exon 50260465 50260532 50260465 ID=MS.gene64107.t1.exon2;Parent=MS.gene64107.t1
chr5.1 CDS 50260465 50260532 50260465 ID=cds.MS.gene64107.t1;Parent=MS.gene64107.t1
Gene Sequence

>MS.gene64107

ATGGAAGCTGATGATATAGCTATAGAAGTTGATGCTGCAGATAGCAACAGAAATGAATTCCAACAAAATTTGTCTTTAAGAAGAAGGATAAACCATGATGATGGGTATAATTGGAAAAAGTATGAAGAGAAAGTAGCAAAAGGAAGGGAAAATCAAAGAAGCTATTATAAATGTACATGGCCTAATTGTTTTGTGAAGAAAAAGGTTGAGATAACTATAGATGGAGAAATTATTGAGACACTATACAAAGGTACACATAATCATTGTAAGCTAACGTCTTCAATGAAGTGGATCTCATCATCTGAGTATCTTTATTCACTTTTACTTGCAAGATCAATCATTTGGAAGTGAACAATTGGATTCTGATGAAGAACCTGCAAAGTCTTCAGTATCAATATGA
Protein sequence

>MS.gene64107.t1

MEADDIAIEVDAADSNRNEFQQNLSLRRRINHDDGYNWKKYEEKVAKGRENQRSYYKCTWPNCFVKKKVEITIDGEIIETLYKDQSFGSEQLDSDEEPAKSSVSI