AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050024

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050024.t1 MTR_5g074200 78.182 165 27 2 1 157 164 327 2.35e-86 256
MS.gene050024.t1 MTR_5g093540 73.944 142 21 1 16 157 124 249 3.86e-66 202
MS.gene050024.t1 MTR_5g074400 40.268 149 83 3 12 157 207 352 2.30e-27 107
MS.gene050024.t1 MTR_5g074400 56.140 57 24 1 50 105 420 476 5.19e-15 71.6
MS.gene050024.t1 MTR_3g031220 42.105 133 66 4 29 157 176 301 1.21e-23 95.1
MS.gene050024.t1 MTR_3g031220 42.105 133 66 4 29 157 176 301 1.68e-23 95.9
MS.gene050024.t1 MTR_3g031220 52.632 57 26 1 50 105 365 421 5.66e-13 65.9
MS.gene050024.t1 MTR_7g071120 56.338 71 31 0 43 113 159 229 1.08e-21 90.5
MS.gene050024.t1 MTR_7g071120 52.632 57 26 1 50 105 324 380 2.84e-13 66.6
MS.gene050024.t1 MTR_7g100510 66.667 57 19 0 51 107 190 246 3.19e-21 89.0
MS.gene050024.t1 MTR_7g100510 50.000 56 27 1 51 105 362 417 4.90e-11 60.1
MS.gene050024.t1 MTR_5g073850 67.692 65 12 2 1 57 96 159 3.63e-21 84.7
MS.gene050024.t1 MTR_7g080020 59.375 64 26 0 50 113 280 343 1.97e-19 84.3
MS.gene050024.t1 MTR_7g080020 50.877 57 27 1 50 105 493 549 1.16e-12 64.7
MS.gene050024.t1 MTR_3g056100 57.812 64 27 0 50 113 99 162 3.06e-19 83.6
MS.gene050024.t1 MTR_3g056100 50.877 57 27 1 50 105 258 314 3.68e-13 66.2
MS.gene050024.t1 MTR_3g056100 57.812 64 27 0 50 113 99 162 3.14e-19 83.6
MS.gene050024.t1 MTR_3g056100 50.877 57 27 1 50 105 271 327 3.87e-13 66.2
MS.gene050024.t1 MTR_5g042920 62.500 56 21 0 50 105 151 206 4.28e-19 83.2
MS.gene050024.t1 MTR_5g042920 52.632 57 26 1 50 105 320 376 4.29e-14 68.9
MS.gene050024.t1 MTR_4g013260 42.105 114 60 5 35 145 168 278 5.35e-19 82.8
MS.gene050024.t1 MTR_4g013260 50.877 57 27 1 50 105 336 392 4.80e-12 63.2
MS.gene050024.t1 MTR_5g094430 58.065 62 26 0 50 111 66 127 1.79e-18 81.3
MS.gene050024.t1 MTR_5g094430 50.877 57 27 1 50 105 230 286 3.75e-13 66.2
MS.gene050024.t1 MTR_5g094430 58.065 62 26 0 50 111 88 149 1.82e-18 81.3
MS.gene050024.t1 MTR_5g094430 50.877 57 27 1 50 105 252 308 3.85e-13 66.2
MS.gene050024.t1 MTR_3g009470 56.250 64 28 0 50 113 280 343 2.57e-18 80.9
MS.gene050024.t1 MTR_3g056100 57.812 64 27 0 50 113 243 306 1.74e-17 78.6
MS.gene050024.t1 MTR_3g056100 50.877 57 27 1 50 105 402 458 2.23e-11 61.2
MS.gene050024.t1 MTR_3g056100 57.812 64 27 0 50 113 243 306 1.78e-17 78.6
MS.gene050024.t1 MTR_3g056100 50.877 57 27 1 50 105 415 471 2.30e-11 61.2
MS.gene050024.t1 MTR_7g080000 55.556 63 28 0 51 113 235 297 2.65e-17 78.2
MS.gene050024.t1 MTR_7g080000 50.877 57 27 1 50 105 432 488 1.16e-12 64.7
MS.gene050024.t1 MTR_7g011820 63.793 58 21 0 50 107 228 285 3.83e-17 77.8
MS.gene050024.t1 MTR_7g011820 38.318 107 53 4 50 150 410 509 2.19e-12 63.9
MS.gene050024.t1 MTR_3g009470 60.345 58 23 0 50 107 280 337 1.34e-16 76.3
MS.gene050024.t1 MTR_3g009470 52.632 57 26 1 50 105 495 551 1.32e-11 62.0
MS.gene050024.t1 MTR_5g094430 60.345 58 23 0 50 107 200 257 1.58e-16 75.9
MS.gene050024.t1 MTR_5g094430 50.877 57 27 1 50 105 364 420 3.45e-11 60.5
MS.gene050024.t1 MTR_4g082580 58.182 55 22 1 50 103 145 199 1.71e-15 72.8
MS.gene050024.t1 MTR_4g082580 50.877 57 27 1 50 105 278 334 9.10e-14 67.8
MS.gene050024.t1 MTR_1g077780 50.000 62 30 1 50 110 62 123 1.60e-13 64.3
MS.gene050024.t1 MTR_5g097490 32.353 102 63 2 51 146 93 194 1.83e-12 63.9
MS.gene050024.t1 MTR_5g097490 42.623 61 34 1 50 109 252 312 1.63e-11 61.2
MS.gene050024.t1 MTR_3g106060 36.047 86 49 3 51 130 139 224 1.88e-12 63.5
MS.gene050024.t1 MTR_8g007270 50.877 57 27 1 50 105 154 210 3.43e-12 62.4
MS.gene050024.t1 MTR_8g092140 50.909 55 26 1 50 103 160 214 3.56e-12 62.4
MS.gene050024.t1 MTR_3g095080 49.123 57 28 1 50 105 168 224 3.57e-12 62.4
MS.gene050024.t1 MTR_3g095080 49.123 57 28 1 50 105 144 200 4.56e-12 62.0
MS.gene050024.t1 MTR_7g079010 42.683 82 37 4 50 124 141 219 6.31e-12 61.2
MS.gene050024.t1 MTR_6g046600 68.421 38 12 0 70 107 22 59 9.98e-12 58.9
MS.gene050024.t1 MTR_4g094412 48.276 58 28 2 50 105 234 291 1.08e-11 62.0
MS.gene050024.t1 MTR_4g094412 48.276 58 28 2 50 105 243 300 1.20e-11 62.0
MS.gene050024.t1 MTR_2g033820 40.000 75 43 2 44 116 196 270 1.46e-11 61.6
MS.gene050024.t1 MTR_5g091390 44.928 69 35 3 44 109 150 218 1.94e-11 60.8
MS.gene050024.t1 MTR_4g107970 35.052 97 51 4 14 105 146 235 2.07e-11 61.2
MS.gene050024.t1 MTR_7g028415 40.260 77 43 2 50 123 93 169 2.19e-11 59.3
MS.gene050024.t1 MTR_7g028710 40.260 77 43 2 50 123 93 169 2.19e-11 59.3
MS.gene050024.t1 MTR_4g107970 35.052 97 51 4 14 105 223 312 2.38e-11 61.2
MS.gene050024.t1 MTR_8g096730 47.273 55 28 1 50 103 70 124 2.70e-11 58.5
MS.gene050024.t1 MTR_4g130900 42.857 56 31 1 51 105 360 415 6.08e-11 59.7
MS.gene050024.t1 MTR_2g105060 42.105 57 31 2 51 105 95 151 8.07e-11 58.5
MS.gene050024.t1 MTR_8g092010 40.449 89 48 3 33 116 88 176 8.62e-11 57.8
MS.gene050024.t1 MTR_2g105060 42.105 57 31 2 51 105 170 226 9.86e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050024.t1 AT5G07100 47.619 105 41 4 50 152 24 116 4.17e-22 88.6
MS.gene050024.t1 AT5G07100 52.632 57 26 1 50 105 141 197 9.12e-14 66.2
MS.gene050024.t1 AT5G07100 47.619 105 41 4 50 152 24 116 4.17e-22 88.6
MS.gene050024.t1 AT5G07100 52.632 57 26 1 50 105 141 197 9.12e-14 66.2
MS.gene050024.t1 AT5G07100 47.619 105 41 4 50 152 24 116 4.17e-22 88.6
MS.gene050024.t1 AT5G07100 52.632 57 26 1 50 105 141 197 9.12e-14 66.2
MS.gene050024.t1 AT5G07100 47.619 105 41 4 50 152 24 116 4.17e-22 88.6
MS.gene050024.t1 AT5G07100 52.632 57 26 1 50 105 141 197 9.12e-14 66.2
MS.gene050024.t1 AT5G07100 47.619 105 41 4 50 152 117 209 1.10e-21 89.0
MS.gene050024.t1 AT5G07100 52.632 57 26 1 50 105 234 290 8.78e-14 67.4
MS.gene050024.t1 AT2G38470 62.069 58 22 0 50 107 184 241 2.81e-21 89.4
MS.gene050024.t1 AT2G38470 52.632 57 26 1 50 105 362 418 1.30e-12 64.7
MS.gene050024.t1 AT1G13960 62.500 56 21 0 50 105 76 131 5.31e-20 85.1
MS.gene050024.t1 AT1G13960 52.632 57 26 1 50 105 256 312 3.86e-14 68.9
MS.gene050024.t1 AT2G37260 52.239 67 32 0 51 117 86 152 3.25e-19 82.8
MS.gene050024.t1 AT2G37260 52.239 67 32 0 51 117 84 150 3.36e-19 82.8
MS.gene050024.t1 AT2G37260 52.239 67 32 0 51 117 166 232 3.60e-19 83.2
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 171 228 1.19e-18 82.0
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 341 424 1.31e-14 70.5
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 211 268 1.26e-18 82.0
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 381 464 1.27e-14 70.5
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 139 196 1.47e-18 81.6
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 309 392 1.42e-14 70.5
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 35 92 1.85e-18 80.9
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 205 288 1.36e-14 70.1
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 35 92 1.85e-18 80.9
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 205 288 1.36e-14 70.1
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 35 92 1.85e-18 80.9
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 205 288 1.36e-14 70.1
MS.gene050024.t1 AT4G26640 60.345 58 23 0 50 107 35 92 1.85e-18 80.9
MS.gene050024.t1 AT4G26640 44.186 86 45 2 50 134 205 288 1.36e-14 70.1
MS.gene050024.t1 AT5G56270 62.069 58 22 0 50 107 273 330 3.47e-18 80.9
MS.gene050024.t1 AT5G56270 54.386 57 25 1 50 105 487 543 8.06e-13 65.5
MS.gene050024.t1 AT4G26440 60.345 58 23 0 50 107 178 235 3.82e-18 80.5
MS.gene050024.t1 AT4G26440 50.877 57 27 1 50 105 372 428 2.81e-11 60.8
MS.gene050024.t1 AT1G13960 62.500 56 21 0 50 105 229 284 5.50e-18 80.1
MS.gene050024.t1 AT1G13960 52.632 57 26 1 50 105 409 465 3.66e-12 63.5
MS.gene050024.t1 AT3G01080 60.714 56 22 0 50 105 205 260 1.02e-17 78.6
MS.gene050024.t1 AT2G30250 55.000 60 27 0 48 107 164 223 1.11e-17 79.0
MS.gene050024.t1 AT2G30250 46.154 65 33 2 51 114 329 392 1.68e-12 64.3
MS.gene050024.t1 AT3G01080 60.714 56 22 0 50 105 205 260 3.30e-17 77.8
MS.gene050024.t1 AT3G01080 54.386 57 25 1 50 105 344 400 1.23e-15 73.2
MS.gene050024.t1 AT2G03340 60.714 56 22 0 50 105 250 305 3.66e-17 77.8
MS.gene050024.t1 AT2G03340 52.632 57 26 1 50 105 415 471 4.70e-12 63.2
MS.gene050024.t1 AT3G01080 60.714 56 22 0 50 105 167 222 4.02e-17 77.4
MS.gene050024.t1 AT3G01080 54.386 57 25 1 50 105 306 362 1.62e-15 72.8
MS.gene050024.t1 AT2G04880 50.000 58 29 0 50 107 111 168 3.09e-16 75.1
MS.gene050024.t1 AT2G04880 50.000 58 29 0 50 107 111 168 3.62e-16 74.7
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 9.43e-15 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 9.90e-15 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.00e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.02e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.02e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.08e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.10e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.13e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.13e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 391 456 1.23e-14 70.9
MS.gene050024.t1 AT4G12020 47.059 68 34 1 38 105 458 523 1.39e-14 70.5
MS.gene050024.t1 AT5G13080 47.368 57 29 1 50 105 67 123 1.31e-13 64.7
MS.gene050024.t1 AT1G55600 50.847 59 28 1 48 105 305 363 5.80e-13 65.9
MS.gene050024.t1 AT1G64000 36.585 82 43 2 33 105 89 170 8.54e-13 63.5
MS.gene050024.t1 AT2G44745 50.877 57 27 1 50 105 145 201 2.60e-12 62.4
MS.gene050024.t1 AT5G41570 45.614 57 30 1 50 105 98 154 4.03e-12 61.2
MS.gene050024.t1 AT2G21900 35.052 97 53 2 10 105 78 165 8.97e-12 60.8
MS.gene050024.t1 AT1G29860 40.000 80 45 3 44 121 129 207 1.93e-11 60.8
MS.gene050024.t1 AT2G46130 47.368 57 29 1 50 105 30 86 1.95e-11 57.8
MS.gene050024.t1 AT4G39410 49.091 55 27 1 50 103 223 277 3.33e-11 60.5
MS.gene050024.t1 AT2G25000 37.879 66 39 2 51 114 126 191 3.81e-11 59.7
MS.gene050024.t1 AT2G25000 37.879 66 39 2 51 114 104 169 3.84e-11 59.3
MS.gene050024.t1 AT2G25000 37.879 66 39 2 51 114 104 169 3.84e-11 59.3
MS.gene050024.t1 AT5G49520 47.458 59 30 1 48 105 219 277 5.42e-11 60.1
MS.gene050024.t1 AT2G25000 37.879 66 39 2 51 114 147 212 6.11e-11 59.3

Find 18 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCATGATGATGGGTATAAT+TGG 0.246954 5.4:+51339543 MS.gene050024:CDS
TTCGTTCAAAATTTGATTCT+CGG 0.288568 5.4:+51339408 MS.gene050024:CDS
ATCATTTGGAAGTGAACAAT+TGG 0.346812 5.4:+51339811 MS.gene050024:CDS
ATTGATACTGAAGACTTTGC+AGG 0.359791 5.4:-51339848 None:intergenic
GACTTGCAAGATCAATCATT+TGG 0.392633 5.4:+51339797 MS.gene050024:CDS
AAAATTTGTCTTTAAGAAGA+AGG 0.406219 5.4:+51339516 MS.gene050024:CDS
AAGAGAAAGTAGCAAAAGGA+AGG 0.448078 5.4:+51339576 MS.gene050024:CDS
AAGGTTGAGATAACTATAGA+TGG 0.449611 5.4:+51339653 MS.gene050024:CDS
AGAAGGATAAACCATGATGA+TGG 0.457113 5.4:+51339533 MS.gene050024:CDS
TATGAAGAGAAAGTAGCAAA+AGG 0.459364 5.4:+51339572 MS.gene050024:CDS
TCCAATTATACCCATCATCA+TGG 0.461024 5.4:-51339544 None:intergenic
CGAAATTGAAACTCTGAGAA+TGG 0.484934 5.4:+51339433 MS.gene050024:CDS
AGCTAACGTCTTCAATGAAG+AGG 0.537329 5.4:+51339720 MS.gene050024:CDS
GAAGGATAAACCATGATGAT+GGG 0.572923 5.4:+51339534 MS.gene050024:CDS
AGAGAAAGTAGCAAAAGGAA+GGG 0.578563 5.4:+51339577 MS.gene050024:CDS
TCAATGAGAGCAGTCTCTGA+AGG 0.608021 5.4:-51339776 None:intergenic
GAAGCTATTATAAATGTACA+TGG 0.617639 5.4:+51339609 MS.gene050024:CDS
ATTATTGAGACACTATACAA+AGG 0.688284 5.4:+51339680 MS.gene050024:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTGTCTTTAAGAAGA+AGG + chr5.4:51339516-51339535 MS.gene050024:CDS 20.0%
!!! TAATTGTTTTGTGAAGAAAA+AGG + chr5.4:51339634-51339653 MS.gene050024:CDS 20.0%
!!! TTCTTAAAGACAAATTTTGT+TGG - chr5.4:51339514-51339533 None:intergenic 20.0%
!!! TTTTTCTTCACAAAACAATT+AGG - chr5.4:51339635-51339654 None:intergenic 20.0%
! ATTATTGAGACACTATACAA+AGG + chr5.4:51339680-51339699 MS.gene050024:CDS 25.0%
! GAAGCTATTATAAATGTACA+TGG + chr5.4:51339609-51339628 MS.gene050024:CDS 25.0%
! TTCGTTCAAAATTTGATTCT+CGG + chr5.4:51339408-51339427 MS.gene050024:CDS 25.0%
AAGGTTGAGATAACTATAGA+TGG + chr5.4:51339653-51339672 MS.gene050024:CDS 30.0%
ATCATTTGGAAGTGAACAAT+TGG + chr5.4:51339811-51339830 MS.gene050024:CDS 30.0%
TATGAAGAGAAAGTAGCAAA+AGG + chr5.4:51339572-51339591 MS.gene050024:CDS 30.0%
AAGAGAAAGTAGCAAAAGGA+AGG + chr5.4:51339576-51339595 MS.gene050024:CDS 35.0%
AGAAGGATAAACCATGATGA+TGG + chr5.4:51339533-51339552 MS.gene050024:CDS 35.0%
AGAGAAAGTAGCAAAAGGAA+GGG + chr5.4:51339577-51339596 MS.gene050024:CDS 35.0%
ATTGATACTGAAGACTTTGC+AGG - chr5.4:51339851-51339870 None:intergenic 35.0%
GAAGGATAAACCATGATGAT+GGG + chr5.4:51339534-51339553 MS.gene050024:CDS 35.0%
GACTTGCAAGATCAATCATT+TGG + chr5.4:51339797-51339816 MS.gene050024:CDS 35.0%
TCCAATTATACCCATCATCA+TGG - chr5.4:51339547-51339566 None:intergenic 35.0%
! CGAAATTGAAACTCTGAGAA+TGG + chr5.4:51339433-51339452 MS.gene050024:CDS 35.0%
!! ACCATGATGATGGGTATAAT+TGG + chr5.4:51339543-51339562 MS.gene050024:CDS 35.0%
AGCTAACGTCTTCAATGAAG+AGG + chr5.4:51339720-51339739 MS.gene050024:CDS 40.0%
TCAATGAGAGCAGTCTCTGA+AGG - chr5.4:51339779-51339798 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr5.4 gene 51339401 51339874 51339401 ID=MS.gene050024
chr5.4 mRNA 51339401 51339874 51339401 ID=MS.gene050024.t1;Parent=MS.gene050024
chr5.4 exon 51339401 51339874 51339401 ID=MS.gene050024.t1.exon1;Parent=MS.gene050024.t1
chr5.4 CDS 51339401 51339874 51339401 ID=cds.MS.gene050024.t1;Parent=MS.gene050024.t1
Gene Sequence

>MS.gene050024

ATGATTCTTCGTTCAAAATTTGATTCTCGGAACGAAATTGAAACTCTGAGAATGGAAGCTGATGATATAGCTATAGAAGTTGATGCTGCAGATAGCAACAGAAATGAATTCCAACAAAATTTGTCTTTAAGAAGAAGGATAAACCATGATGATGGGTATAATTGGAAAAAGTATGAAGAGAAAGTAGCAAAAGGAAGGGAAAATCAAAGAAGCTATTATAAATGTACATGGCCTAATTGTTTTGTGAAGAAAAAGGTTGAGATAACTATAGATGGAGAAATTATTGAGACACTATACAAAGGTACACATAATTATTGTAAGCTAACGTCTTCAATGAAGAGGATCTCATCATATGAGTATCTTTATTCACTTTTACCTTCAGAGACTGCTCTCATTGACTTGCAAGATCAATCATTTGGAAGTGAACAATTGGATTCTGATGAAGAACCTGCAAAGTCTTCAGTATCAATATGA
Protein sequence

>MS.gene050024.t1

MILRSKFDSRNEIETLRMEADDIAIEVDAADSNRNEFQQNLSLRRRINHDDGYNWKKYEEKVAKGRENQRSYYKCTWPNCFVKKKVEITIDGEIIETLYKGTHNYCKLTSSMKRISSYEYLYSLLPSETALIDLQDQSFGSEQLDSDEEPAKSSVSI