AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058778

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058778.t1 MTR_1g079730 99.200 125 1 0 1 125 327 451 8.78e-90 267
MS.gene058778.t1 MTR_7g116420 78.226 124 27 0 1 124 316 439 2.98e-72 222
MS.gene058778.t1 MTR_2g062610 60.800 125 49 0 1 125 212 336 1.46e-57 181
MS.gene058778.t1 MTR_2g062610 60.800 125 49 0 1 125 219 343 2.33e-57 181
MS.gene058778.t1 MTR_5g033650 67.200 125 40 1 1 125 243 366 2.86e-57 181
MS.gene058778.t1 MTR_2g062610 60.800 125 49 0 1 125 302 426 9.22e-57 182
MS.gene058778.t1 MTR_4g105400 61.600 125 48 0 1 125 234 358 4.11e-55 176
MS.gene058778.t1 MTR_8g069575 59.200 125 51 0 1 125 287 411 7.76e-54 174
MS.gene058778.t1 MTR_8g088510 60.000 125 49 1 1 124 291 415 1.06e-52 171
MS.gene058778.t1 MTR_3g077430 60.000 125 49 1 1 125 342 465 1.64e-52 171
MS.gene058778.t1 MTR_8g069610 54.400 125 57 0 1 125 290 414 5.83e-48 159
MS.gene058778.t1 MTR_8g069600 52.000 125 60 0 1 125 269 393 1.64e-46 154
MS.gene058778.t1 MTR_8g069580 56.000 125 54 1 1 125 271 394 2.00e-46 154
MS.gene058778.t1 MTR_8g069630 51.587 126 59 2 1 125 5 129 6.94e-45 142
MS.gene058778.t1 MTR_8g069590 50.000 126 61 2 1 125 181 305 1.75e-41 139
MS.gene058778.t1 MTR_2g093840 48.800 125 63 1 1 125 237 360 4.88e-40 137
MS.gene058778.t1 MTR_3g095890 46.032 126 61 2 1 124 313 433 8.57e-38 132
MS.gene058778.t1 MTR_8g069715 45.238 126 68 1 1 125 285 410 4.17e-36 127
MS.gene058778.t1 MTR_8g069720 45.238 126 66 2 2 125 283 407 3.15e-35 125
MS.gene058778.t1 MTR_8g069660 43.651 126 70 1 1 125 275 400 5.49e-34 122
MS.gene058778.t1 MTR_8g069695 42.520 127 71 2 1 125 133 259 2.58e-33 117
MS.gene058778.t1 MTR_8g069640 41.600 125 72 1 1 124 280 404 2.92e-31 114
MS.gene058778.t1 MTR_6g012620 43.200 125 68 3 3 125 287 410 7.25e-29 108
MS.gene058778.t1 MTR_3g104070 42.857 126 69 2 3 125 297 422 1.05e-26 102
MS.gene058778.t1 MTR_1g016910 41.270 126 72 2 1 125 296 420 1.01e-24 97.4
MS.gene058778.t1 MTR_3g104030 40.336 119 69 1 6 122 229 347 5.34e-22 89.4
MS.gene058778.t1 MTR_3g104030 40.336 119 69 1 6 122 293 411 7.02e-22 89.4
MS.gene058778.t1 MTR_3g103980 39.024 123 72 2 6 125 313 435 1.04e-21 89.0
MS.gene058778.t1 MTR_3g104000 40.650 123 71 2 5 125 295 417 1.44e-21 88.6
MS.gene058778.t1 MTR_2g073050 53.521 71 32 1 55 125 1 70 2.37e-21 81.3
MS.gene058778.t1 MTR_8g012985 33.077 130 77 6 1 124 116 241 4.89e-15 68.9
MS.gene058778.t1 MTR_8g104480 31.746 126 74 4 1 119 217 337 3.11e-14 67.8
MS.gene058778.t1 MTR_7g072230 30.645 124 75 5 1 117 86 205 3.37e-13 63.5
MS.gene058778.t1 MTR_2g046390 32.800 125 75 5 1 119 247 368 2.76e-12 62.4
MS.gene058778.t1 MTR_2g046390 32.800 125 75 5 1 119 204 325 3.08e-12 62.0
MS.gene058778.t1 MTR_2g046430 33.600 125 72 6 1 118 116 236 5.18e-12 60.8
MS.gene058778.t1 MTR_2g046520 33.600 125 72 6 1 118 116 236 8.98e-12 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058778.t1 AT5G18460 76.613 124 29 0 1 124 306 429 2.95e-70 216
MS.gene058778.t1 AT1G70550 64.000 125 45 0 1 125 341 465 3.84e-56 181
MS.gene058778.t1 AT1G23340 62.400 125 47 0 1 125 285 409 4.73e-56 179
MS.gene058778.t1 AT1G23340 62.400 125 47 0 1 125 285 409 4.73e-56 179
MS.gene058778.t1 AT1G10750 64.000 125 45 0 1 125 343 467 5.69e-56 181
MS.gene058778.t1 AT5G50150 62.400 125 47 0 1 125 296 420 6.68e-56 179
MS.gene058778.t1 AT1G55360 59.200 125 51 0 1 125 298 422 4.21e-54 175
MS.gene058778.t1 AT3G13510 57.600 125 53 0 1 125 295 419 3.19e-52 170
MS.gene058778.t1 AT5G56530 58.065 124 52 0 1 124 296 419 1.11e-51 168
MS.gene058778.t1 AT5G56530 58.065 124 52 0 1 124 296 419 1.11e-51 168
MS.gene058778.t1 AT2G44210 53.968 126 57 1 1 125 290 415 4.39e-50 164
MS.gene058778.t1 AT2G44210 53.968 126 57 1 1 125 320 445 7.28e-50 164
MS.gene058778.t1 AT3G48230 57.143 126 52 2 1 125 249 373 8.43e-47 154
MS.gene058778.t1 AT2G44220 53.175 126 58 1 1 125 278 403 2.18e-45 152
MS.gene058778.t1 AT2G17750 50.806 124 60 1 1 124 273 395 6.64e-42 142
MS.gene058778.t1 AT2G19360 52.419 124 59 0 1 124 302 425 2.20e-41 142
MS.gene058778.t1 AT2G44240 51.587 126 59 2 1 125 278 402 1.41e-40 139
MS.gene058778.t1 AT2G44250 47.581 124 61 3 4 124 203 325 7.45e-34 120
MS.gene058778.t1 AT2G44250 47.967 123 60 3 5 124 287 408 1.78e-33 120
MS.gene058778.t1 AT5G19170 43.966 116 64 1 5 119 250 365 2.90e-29 109
MS.gene058778.t1 AT5G25950 40.769 130 69 4 1 125 306 432 3.20e-24 95.9
MS.gene058778.t1 AT5G25960 37.209 129 74 4 1 125 232 357 2.42e-21 87.4
MS.gene058778.t1 AT4G23390 42.149 121 59 6 6 119 281 397 1.52e-20 85.9
MS.gene058778.t1 AT2G20170 38.889 126 67 6 1 119 257 379 2.72e-19 82.0
MS.gene058778.t1 AT2G20170 38.889 126 67 6 1 119 274 396 5.88e-19 81.3
MS.gene058778.t1 AT2G20170 38.889 126 67 6 1 119 274 396 5.88e-19 81.3
MS.gene058778.t1 AT4G23365 36.364 121 67 5 5 119 282 398 2.36e-16 73.9
MS.gene058778.t1 AT4G23380 35.780 109 61 4 17 119 293 398 1.73e-15 71.6
MS.gene058778.t1 AT4G23355 35.200 125 71 5 1 119 278 398 2.44e-15 71.2
MS.gene058778.t1 AT4G23360 35.537 121 68 5 5 119 283 399 4.04e-15 70.5
MS.gene058778.t1 AT4G23370 32.031 128 75 5 1 119 277 401 3.49e-14 67.8
MS.gene058778.t1 AT2G35250 35.000 120 71 5 5 121 224 339 6.43e-14 67.0
MS.gene058778.t1 AT5G25415 31.061 132 77 4 1 121 204 332 4.39e-13 64.7
MS.gene058778.t1 AT4G17505 31.624 117 69 3 8 122 214 321 1.25e-12 63.2
MS.gene058778.t1 AT4G23350 31.200 125 76 5 1 119 280 400 5.92e-12 61.6
MS.gene058778.t1 AT4G15050 30.328 122 73 5 5 120 280 395 8.42e-12 61.2
MS.gene058778.t1 AT5G37520 31.933 119 71 5 5 120 87 198 3.11e-11 58.2
MS.gene058778.t1 AT5G04937 31.200 125 74 5 1 119 80 198 4.66e-11 57.8

Find 50 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAAGTGGCCGGAACCCATC+TGG 0.283333 1.4:-64664011 None:intergenic
CACTTCGCCGAGGATGGTTT+TGG 0.299071 1.4:+64664027 MS.gene058778:CDS
GGGAATTGGTGGATGAGTTT+TGG 0.323810 1.4:+64663865 MS.gene058778:CDS
TGGGGCACATACTTCTATTA+TGG 0.363396 1.4:+64664177 MS.gene058778:CDS
ACCTCCACCCAGATGGGTTC+CGG 0.364143 1.4:+64664003 MS.gene058778:CDS
TACTTCTATTATGGTGGGCC+TGG 0.378607 1.4:+64664186 MS.gene058778:CDS
TTGGAAAAGCAAGCTACTTT+CGG 0.382754 1.4:+64664046 MS.gene058778:CDS
TCACGCCTCCATGGTAGAAT+GGG 0.433880 1.4:+64663942 MS.gene058778:CDS
ATCCACCAATTCCCTACTCT+TGG 0.440581 1.4:-64663856 None:intergenic
AGGATCCAAGAGTAGGGAAT+TGG 0.442405 1.4:+64663851 None:intergenic
ACTAAAATTCATGGACACTT+AGG 0.451833 1.4:-64664216 None:intergenic
AAACTCCTATAGCAACGAAT+GGG 0.452494 1.4:+64664158 MS.gene058778:CDS
ATCACGCCTCCATGGTAGAA+TGG 0.456522 1.4:+64663941 MS.gene058778:CDS
CTTTCGGAACCTTGAGATTG+TGG 0.471570 1.4:+64664062 MS.gene058778:CDS
TTCTACCATGGAGGCGTGAT+CGG 0.475054 1.4:-64663938 None:intergenic
TCCGGCCACTTCGCCGAGGA+TGG 0.479065 1.4:+64664021 MS.gene058778:CDS
TTTGGCGACAACACATTGGT+AGG 0.484234 1.4:+64663883 MS.gene058778:CDS
ACAACACATTGGTAGGGTAT+TGG 0.498809 1.4:+64663890 MS.gene058778:CDS
AAGTGTGTGAATAGCTCTGC+TGG 0.506211 1.4:-64663913 None:intergenic
ACCATCCTCGGCGAAGTGGC+CGG 0.510448 1.4:-64664022 None:intergenic
GTGGCGAGGTGGTGAACTCA+CGG 0.514251 1.4:+64663965 MS.gene058778:CDS
ATCCAAGAGTAGGGAATTGG+TGG 0.515237 1.4:+64663854 MS.gene058778:CDS
TGTGCCCCATTCGTTGCTAT+AGG 0.517107 1.4:-64664163 None:intergenic
ATGAATTAGGATCCAAGAGT+AGG 0.520389 1.4:+64663844 None:intergenic
GCCGGAACCCATCTGGGTGG+AGG 0.520638 1.4:-64664004 None:intergenic
GAAGTGGCCGGAACCCATCT+GGG 0.521952 1.4:-64664010 None:intergenic
CCGACATACCTCCACCCAGA+TGG 0.537784 1.4:+64663996 MS.gene058778:CDS
ACTTCTATTATGGTGGGCCT+GGG 0.541635 1.4:+64664187 MS.gene058778:CDS
GGCACATACTTCTATTATGG+TGG 0.551475 1.4:+64664180 MS.gene058778:CDS
TGAATTAGGATCCAAGAGTA+GGG 0.555817 1.4:+64663845 None:intergenic
GCACATACTTCTATTATGGT+GGG 0.558944 1.4:+64664181 MS.gene058778:CDS
CATGGTAGAATGGGGTGGCG+AGG 0.561009 1.4:+64663951 MS.gene058778:CDS
AAAACTCCTATAGCAACGAA+TGG 0.564055 1.4:+64664157 MS.gene058778:CDS
CGACATACCTCCACCCAGAT+GGG 0.565648 1.4:+64663997 MS.gene058778:CDS
CTTAGCCGATCACGCCTCCA+TGG 0.566680 1.4:+64663933 MS.gene058778:CDS
TTGGCGACAACACATTGGTA+GGG 0.577351 1.4:+64663884 MS.gene058778:CDS
CCATCTGGGTGGAGGTATGT+CGG 0.579887 1.4:-64663996 None:intergenic
GGTAGAATGGGGTGGCGAGG+TGG 0.597596 1.4:+64663954 MS.gene058778:CDS
GTGGTGAACTCACGGACCGA+CGG 0.598866 1.4:+64663973 MS.gene058778:CDS
GCCTCCATGGTAGAATGGGG+TGG 0.605842 1.4:+64663946 MS.gene058778:CDS
GGTGGAGGTATGTCGGCCGT+CGG 0.606298 1.4:-64663989 None:intergenic
CAAAACCATCCTCGGCGAAG+TGG 0.611417 1.4:-64664026 None:intergenic
TATCAATGTCCACAATCTCA+AGG 0.616472 1.4:-64664071 None:intergenic
GGACACTTAGGATTATTCCC+AGG 0.633517 1.4:-64664204 None:intergenic
CTCGCCACCCCATTCTACCA+TGG 0.635804 1.4:-64663950 None:intergenic
AACTCCTATAGCAACGAATG+GGG 0.669417 1.4:+64664159 MS.gene058778:CDS
CACGCCTCCATGGTAGAATG+GGG 0.670342 1.4:+64663943 MS.gene058778:CDS
GCCACCCCATTCTACCATGG+AGG 0.679866 1.4:-64663947 None:intergenic
GTGGCCGGAACCCATCTGGG+TGG 0.683187 1.4:-64664007 None:intergenic
GGGTTCCGGCCACTTCGCCG+AGG 0.694192 1.4:+64664017 MS.gene058778:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAATTTGTATTTTCAGCTA+AGG - chr1.4:64664127-64664146 None:intergenic 25.0%
AAAACTCCTATAGCAACGAA+TGG + chr1.4:64664157-64664176 MS.gene058778:CDS 35.0%
AAACTCCTATAGCAACGAAT+GGG + chr1.4:64664158-64664177 MS.gene058778:CDS 35.0%
GCACATACTTCTATTATGGT+GGG + chr1.4:64664181-64664200 MS.gene058778:CDS 35.0%
TATCAATGTCCACAATCTCA+AGG - chr1.4:64664074-64664093 None:intergenic 35.0%
! TTGGAAAAGCAAGCTACTTT+CGG + chr1.4:64664046-64664065 MS.gene058778:CDS 35.0%
AACTCCTATAGCAACGAATG+GGG + chr1.4:64664159-64664178 MS.gene058778:CDS 40.0%
ACAACACATTGGTAGGGTAT+TGG + chr1.4:64663890-64663909 MS.gene058778:CDS 40.0%
GGCACATACTTCTATTATGG+TGG + chr1.4:64664180-64664199 MS.gene058778:CDS 40.0%
TGGGGCACATACTTCTATTA+TGG + chr1.4:64664177-64664196 MS.gene058778:CDS 40.0%
! TGCTTTTCCAAAACCATCCT+CGG - chr1.4:64664037-64664056 None:intergenic 40.0%
ATCCAAGAGTAGGGAATTGG+TGG + chr1.4:64663854-64663873 MS.gene058778:CDS 45.0%
ATCCACCAATTCCCTACTCT+TGG - chr1.4:64663859-64663878 None:intergenic 45.0%
CTTTCGGAACCTTGAGATTG+TGG + chr1.4:64664062-64664081 MS.gene058778:CDS 45.0%
GGACACTTAGGATTATTCCC+AGG - chr1.4:64664207-64664226 None:intergenic 45.0%
TTGGCGACAACACATTGGTA+GGG + chr1.4:64663884-64663903 MS.gene058778:CDS 45.0%
TTTGGCGACAACACATTGGT+AGG + chr1.4:64663883-64663902 MS.gene058778:CDS 45.0%
! AAGTGTGTGAATAGCTCTGC+TGG - chr1.4:64663916-64663935 None:intergenic 45.0%
!! ACTTCTATTATGGTGGGCCT+GGG + chr1.4:64664187-64664206 MS.gene058778:CDS 45.0%
!! GAGTTTTGGCGACAACACAT+TGG + chr1.4:64663879-64663898 MS.gene058778:CDS 45.0%
!! GGGAATTGGTGGATGAGTTT+TGG + chr1.4:64663865-64663884 MS.gene058778:CDS 45.0%
!! TACTTCTATTATGGTGGGCC+TGG + chr1.4:64664186-64664205 MS.gene058778:CDS 45.0%
ATCACGCCTCCATGGTAGAA+TGG + chr1.4:64663941-64663960 MS.gene058778:CDS 50.0%
TCACGCCTCCATGGTAGAAT+GGG + chr1.4:64663942-64663961 MS.gene058778:CDS 50.0%
TGTGCCCCATTCGTTGCTAT+AGG - chr1.4:64664166-64664185 None:intergenic 50.0%
! TTCTACCATGGAGGCGTGAT+CGG - chr1.4:64663941-64663960 None:intergenic 50.0%
CAAAACCATCCTCGGCGAAG+TGG - chr1.4:64664029-64664048 None:intergenic 55.0%
CACGCCTCCATGGTAGAATG+GGG + chr1.4:64663943-64663962 MS.gene058778:CDS 55.0%
CGACATACCTCCACCCAGAT+GGG + chr1.4:64663997-64664016 MS.gene058778:CDS 55.0%
! CACTTCGCCGAGGATGGTTT+TGG + chr1.4:64664027-64664046 MS.gene058778:CDS 55.0%
! CCATCTGGGTGGAGGTATGT+CGG - chr1.4:64663999-64664018 None:intergenic 55.0%
CATGGTAGAATGGGGTGGCG+AGG + chr1.4:64663951-64663970 MS.gene058778:CDS 60.0%
CCGACATACCTCCACCCAGA+TGG + chr1.4:64663996-64664015 MS.gene058778:CDS 60.0%
CTCGCCACCCCATTCTACCA+TGG - chr1.4:64663953-64663972 None:intergenic 60.0%
CTTAGCCGATCACGCCTCCA+TGG + chr1.4:64663933-64663952 MS.gene058778:CDS 60.0%
GAAGTGGCCGGAACCCATCT+GGG - chr1.4:64664013-64664032 None:intergenic 60.0%
GCCACCCCATTCTACCATGG+AGG - chr1.4:64663950-64663969 None:intergenic 60.0%
GCCTCCATGGTAGAATGGGG+TGG + chr1.4:64663946-64663965 MS.gene058778:CDS 60.0%
GTGGCGAGGTGGTGAACTCA+CGG + chr1.4:64663965-64663984 MS.gene058778:CDS 60.0%
GTGGTGAACTCACGGACCGA+CGG + chr1.4:64663973-64663992 MS.gene058778:CDS 60.0%
! ACCTCCACCCAGATGGGTTC+CGG + chr1.4:64664003-64664022 MS.gene058778:CDS 60.0%
ACCATCCTCGGCGAAGTGGC+CGG - chr1.4:64664025-64664044 None:intergenic 65.0%
CGAAGTGGCCGGAACCCATC+TGG - chr1.4:64664014-64664033 None:intergenic 65.0%
GGTAGAATGGGGTGGCGAGG+TGG + chr1.4:64663954-64663973 MS.gene058778:CDS 65.0%
! GGTGGAGGTATGTCGGCCGT+CGG - chr1.4:64663992-64664011 None:intergenic 65.0%
GCCGGAACCCATCTGGGTGG+AGG - chr1.4:64664007-64664026 None:intergenic 70.0%
GTGGCCGGAACCCATCTGGG+TGG - chr1.4:64664010-64664029 None:intergenic 70.0%
TCCGGCCACTTCGCCGAGGA+TGG + chr1.4:64664021-64664040 MS.gene058778:CDS 70.0%
GGGTTCCGGCCACTTCGCCG+AGG + chr1.4:64664017-64664036 MS.gene058778:CDS 75.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 64663853 64664230 64663853 ID=MS.gene058778
chr1.4 mRNA 64663853 64664230 64663853 ID=MS.gene058778.t1;Parent=MS.gene058778
chr1.4 exon 64663853 64664230 64663853 ID=MS.gene058778.t1.exon1;Parent=MS.gene058778.t1
chr1.4 CDS 64663853 64664230 64663853 ID=cds.MS.gene058778.t1;Parent=MS.gene058778.t1
Gene Sequence

>MS.gene058778

GATCCAAGAGTAGGGAATTGGTGGATGAGTTTTGGCGACAACACATTGGTAGGGTATTGGCCAGCAGAGCTATTCACACACTTAGCCGATCACGCCTCCATGGTAGAATGGGGTGGCGAGGTGGTGAACTCACGGACCGACGGCCGACATACCTCCACCCAGATGGGTTCCGGCCACTTCGCCGAGGATGGTTTTGGAAAAGCAAGCTACTTTCGGAACCTTGAGATTGTGGACATTGATAACACTCTTAGCTCAGTGCAAAGCATCTCAACCTTAGCTGAAAATACAAATTGTTATGATATTCAAAACTCCTATAGCAACGAATGGGGCACATACTTCTATTATGGTGGGCCTGGGAATAATCCTAAGTGTCCATGA
Protein sequence

>MS.gene058778.t1

DPRVGNWWMSFGDNTLVGYWPAELFTHLADHASMVEWGGEVVNSRTDGRHTSTQMGSGHFAEDGFGKASYFRNLEIVDIDNTLSSVQSISTLAENTNCYDIQNSYSNEWGTYFYYGGPGNNPKCP