AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene53926

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53926.t1 MTR_3g006185 97.143 175 5 0 1 175 1 175 3.07e-122 342
MS.gene53926.t1 MTR_3g006105 89.143 175 18 1 1 174 1 175 4.14e-107 304
MS.gene53926.t1 MTR_3g006125 89.205 176 18 1 1 175 82 257 1.99e-100 290
MS.gene53926.t1 MTR_3g006150 63.415 164 52 2 1 164 1 156 1.28e-63 193
MS.gene53926.t1 MTR_3g006150 47.368 76 36 1 98 173 8 79 1.58e-12 62.4
MS.gene53926.t1 MTR_3g006065 62.069 174 58 2 1 174 1 166 1.60e-63 194
MS.gene53926.t1 MTR_3g006010 75.258 97 24 0 1 97 1 97 3.83e-36 130
MS.gene53926.t1 MTR_3g006010 40.179 112 37 1 94 175 4 115 1.92e-13 67.8
MS.gene53926.t1 MTR_1g104960 45.679 162 83 4 6 167 11 167 6.35e-34 118
MS.gene53926.t1 MTR_1g104960 44.000 75 41 1 9 83 100 173 2.92e-11 59.3
MS.gene53926.t1 MTR_4g133300 45.087 173 87 4 2 174 83 247 1.65e-32 117
MS.gene53926.t1 MTR_4g133300 41.566 166 83 4 8 173 12 163 2.07e-28 106
MS.gene53926.t1 MTR_4g133470 45.087 173 87 4 2 174 83 247 2.23e-32 116
MS.gene53926.t1 MTR_4g133470 40.361 166 85 4 8 173 12 163 2.89e-26 100
MS.gene53926.t1 MTR_1g105955 42.767 159 79 2 9 167 17 163 4.80e-31 111
MS.gene53926.t1 MTR_1g105955 49.275 69 34 1 8 76 95 162 2.78e-12 62.4
MS.gene53926.t1 MTR_8g062700 43.750 160 85 3 2 161 36 190 1.60e-28 111
MS.gene53926.t1 MTR_8g062700 51.899 79 37 1 91 169 35 112 4.30e-19 84.3
MS.gene53926.t1 MTR_8g062700 43.750 160 85 3 2 161 36 190 1.65e-28 111
MS.gene53926.t1 MTR_8g062700 51.899 79 37 1 91 169 35 112 4.26e-19 84.3
MS.gene53926.t1 MTR_1g104980 40.541 148 69 3 23 170 13 141 1.57e-25 96.7
MS.gene53926.t1 MTR_7g013380 35.542 166 100 3 8 171 99 259 2.21e-24 96.7
MS.gene53926.t1 MTR_7g013380 36.047 172 103 3 2 171 7 173 3.28e-22 90.9
MS.gene53926.t1 MTR_7g013380 37.634 93 57 1 1 92 178 270 3.66e-14 68.9
MS.gene53926.t1 MTR_6g008995 38.596 171 95 5 2 171 31 192 2.42e-24 98.6
MS.gene53926.t1 MTR_5g036670 39.130 161 93 3 2 162 37 192 9.82e-24 97.4
MS.gene53926.t1 MTR_5g036670 54.054 74 33 1 94 167 39 111 9.52e-18 80.1
MS.gene53926.t1 MTR_6g008970 39.752 161 90 4 2 161 57 211 1.51e-23 97.1
MS.gene53926.t1 MTR_6g008970 48.649 74 37 1 94 167 59 131 9.95e-16 74.3
MS.gene53926.t1 MTR_1g104940 47.664 107 43 2 5 98 9 115 1.66e-22 87.4
MS.gene53926.t1 MTR_1g104940 45.205 73 39 1 98 170 14 85 5.29e-12 60.1
MS.gene53926.t1 MTR_6g008995 37.324 142 80 4 31 171 2 135 2.45e-18 81.6
MS.gene53926.t1 MTR_1g109550 37.500 144 75 3 6 149 14 142 3.36e-18 77.0
MS.gene53926.t1 MTR_1g109550 35.000 100 50 2 76 172 1 88 2.22e-13 64.3
MS.gene53926.t1 MTR_1g104937 50.538 93 41 2 6 98 10 97 3.73e-18 75.9
MS.gene53926.t1 MTR_1g104937 40.476 84 47 2 89 170 1 83 4.74e-11 57.4
MS.gene53926.t1 MTR_8g062350 33.668 199 88 6 2 161 8 201 4.14e-17 75.5
MS.gene53926.t1 MTR_8g062350 46.429 84 42 2 91 174 7 87 3.84e-14 67.8
MS.gene53926.t1 MTR_7g013410 33.813 139 83 2 23 161 12 141 3.10e-16 71.6
MS.gene53926.t1 MTR_1g105960 40.476 126 44 3 9 134 2 96 4.47e-16 70.5
MS.gene53926.t1 MTR_1g105960 51.389 72 34 1 99 170 2 72 8.57e-16 69.7
MS.gene53926.t1 MTR_1g105010 45.238 84 45 1 84 167 2 84 3.73e-14 65.9
MS.gene53926.t1 MTR_1g105010 38.636 88 53 1 1 88 9 95 7.38e-12 59.7
MS.gene53926.t1 MTR_2g097830 39.640 111 54 3 8 118 70 167 1.37e-13 65.5
MS.gene53926.t1 MTR_2g097830 41.667 72 38 1 98 169 70 137 7.47e-11 58.2
MS.gene53926.t1 MTR_3g006000 51.515 66 31 1 106 170 14 79 1.70e-13 63.2
MS.gene53926.t1 MTR_1g104950 41.573 89 44 2 32 120 1 81 1.35e-12 60.8
MS.gene53926.t1 MTR_1g093310 46.753 77 32 3 98 173 9 77 1.90e-11 57.8
MS.gene53926.t1 MTR_1g091047 49.231 65 31 2 98 161 9 72 7.15e-11 55.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene53926.t1 AT3G01320 41.875 160 87 3 2 161 51 204 1.62e-25 102
MS.gene53926.t1 AT3G01320 50.000 74 36 1 94 167 53 125 2.79e-16 76.3
MS.gene53926.t1 AT3G01320 41.875 160 87 3 2 161 51 204 1.75e-25 102
MS.gene53926.t1 AT3G01320 50.000 74 36 1 94 167 53 125 2.79e-16 76.3
MS.gene53926.t1 AT1G70030 38.889 162 88 4 2 161 5 157 3.20e-24 93.2
MS.gene53926.t1 AT5G15020 37.209 172 101 3 1 172 45 209 1.47e-23 97.1
MS.gene53926.t1 AT5G15020 38.509 161 92 3 1 161 45 198 1.61e-23 97.1
MS.gene53926.t1 AT5G15020 45.946 74 39 1 94 167 48 120 2.10e-14 70.9
MS.gene53926.t1 AT1G70060 39.375 160 93 3 2 161 8 163 1.93e-23 96.7
MS.gene53926.t1 AT1G70060 49.351 77 38 1 91 167 7 82 5.78e-16 75.1
MS.gene53926.t1 AT1G70060 39.375 160 93 3 2 161 8 163 1.93e-23 96.7
MS.gene53926.t1 AT1G70060 49.351 77 38 1 91 167 7 82 5.78e-16 75.1
MS.gene53926.t1 AT1G24190 36.875 160 96 3 2 161 8 162 8.07e-23 94.7
MS.gene53926.t1 AT1G24190 44.706 85 39 2 94 171 10 93 1.60e-15 73.9
MS.gene53926.t1 AT1G24190 36.875 160 96 3 2 161 8 162 8.63e-23 94.7
MS.gene53926.t1 AT1G24190 44.706 85 39 2 94 171 10 93 1.62e-15 73.9
MS.gene53926.t1 AT1G24190 36.875 160 96 3 2 161 8 162 8.88e-23 94.7
MS.gene53926.t1 AT1G24190 44.706 85 39 2 94 171 10 93 1.60e-15 73.9
MS.gene53926.t1 AT1G10450 38.961 154 87 3 8 161 84 230 8.05e-22 92.0
MS.gene53926.t1 AT1G10450 51.389 72 34 1 96 167 82 152 2.21e-15 73.6
MS.gene53926.t1 AT1G10450 38.961 154 87 3 8 161 33 179 1.07e-21 91.7
MS.gene53926.t1 AT1G10450 51.389 72 34 1 96 167 31 101 2.80e-15 73.2
MS.gene53926.t1 AT1G10450 38.961 154 87 3 8 161 33 179 1.07e-21 91.7
MS.gene53926.t1 AT1G10450 51.389 72 34 1 96 167 31 101 2.80e-15 73.2
MS.gene53926.t1 AT1G24230 33.136 169 92 3 4 171 10 158 1.96e-21 87.8
MS.gene53926.t1 AT1G24230 29.333 150 98 3 8 157 86 227 9.11e-14 67.4
MS.gene53926.t1 AT1G24250 29.936 157 93 2 27 167 33 188 3.72e-20 84.7
MS.gene53926.t1 AT1G24200 35.220 159 95 3 3 161 9 159 3.16e-19 80.9
MS.gene53926.t1 AT1G24200 49.351 77 38 1 91 167 7 82 8.29e-15 69.3
MS.gene53926.t1 AT1G59890 37.013 154 90 3 8 161 45 191 1.51e-18 82.8
MS.gene53926.t1 AT1G59890 54.286 70 31 1 98 167 45 113 9.20e-17 77.4
MS.gene53926.t1 AT1G59890 37.013 154 90 3 8 161 45 191 1.56e-18 82.4
MS.gene53926.t1 AT1G59890 54.286 70 31 1 98 167 45 113 9.19e-17 77.4
MS.gene53926.t1 AT1G59890 37.013 154 90 3 8 161 45 191 1.61e-18 82.4
MS.gene53926.t1 AT1G59890 54.286 70 31 1 98 167 45 113 9.75e-17 77.4
MS.gene53926.t1 AT1G59890 37.013 154 90 3 8 161 45 191 1.65e-18 82.4
MS.gene53926.t1 AT1G59890 54.286 70 31 1 98 167 45 113 9.46e-17 77.4
MS.gene53926.t1 AT5G15025 55.405 74 32 1 94 167 43 115 2.05e-18 77.0
MS.gene53926.t1 AT5G15025 47.059 85 39 2 4 88 43 121 4.82e-13 63.2
MS.gene53926.t1 AT1G23810 29.167 168 113 2 5 167 11 177 4.08e-17 76.3
MS.gene53926.t1 AT1G70030 42.241 116 56 4 2 115 16 122 1.98e-16 72.0
MS.gene53926.t1 AT1G70030 35.802 162 61 5 2 161 16 136 3.88e-16 71.6
MS.gene53926.t1 AT1G27260 32.051 156 103 3 6 160 1 154 1.24e-15 72.0
MS.gene53926.t1 AT1G27220 47.826 69 35 1 98 166 14 81 4.33e-14 67.0
MS.gene53926.t1 AT1G27220 38.384 99 60 1 3 101 9 106 1.03e-11 60.8
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 8.68e-14 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.06e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 8.68e-14 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.06e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 8.71e-14 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.07e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 8.79e-14 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.07e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 9.03e-14 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.31e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 9.28e-14 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.46e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 239 308 1.00e-13 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 234 314 5.52e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 1.00e-13 68.9
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.53e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 1.03e-13 68.6
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.69e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 1.05e-13 68.6
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.83e-13 66.6
MS.gene53926.t1 AT4G12020 47.222 72 36 1 96 167 306 375 1.05e-13 68.6
MS.gene53926.t1 AT4G12020 41.667 84 46 2 1 84 301 381 5.83e-13 66.6
MS.gene53926.t1 AT1G27250 47.692 65 33 1 98 162 21 84 5.03e-12 60.8

Find 31 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGGCATACGGATTTAATTT+TGG 0.145300 3.2:-942078 MS.gene53926:CDS
ATTTCGAAATTAAATCTTCA+TGG 0.307910 3.2:+942345 None:intergenic
GGTGTGATTCGATATTTCTT+TGG 0.344227 3.2:+942038 None:intergenic
ACAAATTATGAAGGATTTCA+AGG 0.367445 3.2:-942423 MS.gene53926:CDS
GTAGGTTTGGATTTGAGAAA+AGG 0.371809 3.2:-942466 MS.gene53926:CDS
ATTAAGAGTGTACGAGTTGT+TGG 0.382597 3.2:-942372 MS.gene53926:CDS
TAACCGGTGTCAAGCTGAAC+TGG 0.385684 3.2:+942014 None:intergenic
GCAGCAGTTAAACGTAGGTT+TGG 0.408891 3.2:-942479 MS.gene53926:CDS
AAAGTAAAAGATGTGTTTCA+TGG 0.431621 3.2:-942206 MS.gene53926:CDS
TAGGTTTGGATTTGAGAAAA+GGG 0.438311 3.2:-942465 MS.gene53926:CDS
ATTGTTAAGGATTTCAAGGC+TGG 0.451018 3.2:-942149 MS.gene53926:CDS
TCGATATTTCTTTGGCAAGA+AGG 0.460534 3.2:+942046 None:intergenic
ATATGAAATCAAACTTCCAT+TGG 0.495726 3.2:-942300 MS.gene53926:CDS
AATAATGGTAGGCTACTAAC+CGG 0.503832 3.2:+941998 None:intergenic
TCATCGTCGTCACGATCCAA+TGG 0.515446 3.2:+942284 None:intergenic
AGAGGGAATGATCTGCTTCA+AGG 0.517258 3.2:-942098 MS.gene53926:CDS
GGCTGAAAGAATTGATGCTA+GGG 0.533185 3.2:-942402 MS.gene53926:CDS
AGGCTGAAAGAATTGATGCT+AGG 0.540112 3.2:-942403 MS.gene53926:CDS
GAGGGAATGATCTGCTTCAA+GGG 0.542159 3.2:-942097 MS.gene53926:CDS
AGTTTGATTTCATATTCAGT+TGG 0.545841 3.2:+942308 None:intergenic
TGATCTGCTTCAAGGGCATA+CGG 0.554583 3.2:-942090 MS.gene53926:CDS
ATAAGTGTTGCTGCGGCAAG+AGG 0.559399 3.2:-942116 MS.gene53926:CDS
TGTGTTTCATGGTAAGAATG+AGG 0.572647 3.2:-942195 MS.gene53926:CDS
AAGATGAAGAAGCTCTCAGT+TGG 0.573928 3.2:-942521 MS.gene53926:CDS
GACGATGATGACGAACTACA+AGG 0.589561 3.2:-942269 MS.gene53926:CDS
TAAGTGTTGCTGCGGCAAGA+GGG 0.604842 3.2:-942115 MS.gene53926:CDS
AGAGTGTACGAGTTGTTGGA+CGG 0.625456 3.2:-942368 MS.gene53926:CDS
CCTCCAGTTCAGCTTGACAC+CGG 0.627356 3.2:-942017 MS.gene53926:CDS
AATTGATATAAGTGTTGCTG+CGG 0.644511 3.2:-942123 MS.gene53926:CDS
CCGGTGTCAAGCTGAACTGG+AGG 0.668666 3.2:+942017 None:intergenic
TACTCGCAGCAGTTAAACGT+AGG 0.669963 3.2:-942484 MS.gene53926:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGAGTTTTTAAAAATTGTTA+AGG - chr3.2:942369-942388 MS.gene53926:CDS 15.0%
!! AAAAATTGTTAAGGATTTCA+AGG - chr3.2:942378-942397 MS.gene53926:CDS 20.0%
!! ATTTCGAAATTAAATCTTCA+TGG + chr3.2:942189-942208 None:intergenic 20.0%
!!! ATCTTTTCTACAAATTATGA+AGG - chr3.2:942099-942118 MS.gene53926:CDS 20.0%
! AAAGTAAAAGATGTGTTTCA+TGG - chr3.2:942325-942344 MS.gene53926:CDS 25.0%
! ACAAATTATGAAGGATTTCA+AGG - chr3.2:942108-942127 MS.gene53926:CDS 25.0%
! ATATGAAATCAAACTTCCAT+TGG - chr3.2:942231-942250 MS.gene53926:CDS 25.0%
! TTTGAGAAAAGGGAAAAATA+TGG - chr3.2:942076-942095 MS.gene53926:CDS 25.0%
!! AGTTTGATTTCATATTCAGT+TGG + chr3.2:942226-942245 None:intergenic 25.0%
TAGGTTTGGATTTGAGAAAA+GGG - chr3.2:942066-942085 MS.gene53926:CDS 30.0%
! AATTGATATAAGTGTTGCTG+CGG - chr3.2:942408-942427 MS.gene53926:CDS 30.0%
ATTGTTAAGGATTTCAAGGC+TGG - chr3.2:942382-942401 MS.gene53926:CDS 35.0%
GGTGTGATTCGATATTTCTT+TGG + chr3.2:942496-942515 None:intergenic 35.0%
GTAGGTTTGGATTTGAGAAA+AGG - chr3.2:942065-942084 MS.gene53926:CDS 35.0%
TCGATATTTCTTTGGCAAGA+AGG + chr3.2:942488-942507 None:intergenic 35.0%
TGTGTTTCATGGTAAGAATG+AGG - chr3.2:942336-942355 MS.gene53926:CDS 35.0%
! ATTAAGAGTGTACGAGTTGT+TGG - chr3.2:942159-942178 MS.gene53926:CDS 35.0%
!! AGGGCATACGGATTTAATTT+TGG - chr3.2:942453-942472 MS.gene53926:CDS 35.0%
!! GGGCATACGGATTTAATTTT+GGG - chr3.2:942454-942473 MS.gene53926:CDS 35.0%
AGGCTGAAAGAATTGATGCT+AGG - chr3.2:942128-942147 MS.gene53926:CDS 40.0%
GGCTGAAAGAATTGATGCTA+GGG - chr3.2:942129-942148 MS.gene53926:CDS 40.0%
AGAGGGAATGATCTGCTTCA+AGG - chr3.2:942433-942452 MS.gene53926:CDS 45.0%
AGAGTGTACGAGTTGTTGGA+CGG - chr3.2:942163-942182 MS.gene53926:CDS 45.0%
GAGGGAATGATCTGCTTCAA+GGG - chr3.2:942434-942453 MS.gene53926:CDS 45.0%
GCAGCAGTTAAACGTAGGTT+TGG - chr3.2:942052-942071 MS.gene53926:CDS 45.0%
TACTCGCAGCAGTTAAACGT+AGG - chr3.2:942047-942066 MS.gene53926:CDS 45.0%
! GACGATGATGACGAACTACA+AGG - chr3.2:942262-942281 MS.gene53926:CDS 45.0%
! TGATCTGCTTCAAGGGCATA+CGG - chr3.2:942441-942460 MS.gene53926:CDS 45.0%
TCATCGTCGTCACGATCCAA+TGG + chr3.2:942250-942269 None:intergenic 50.0%
! ATAAGTGTTGCTGCGGCAAG+AGG - chr3.2:942415-942434 MS.gene53926:CDS 50.0%
! TAACCGGTGTCAAGCTGAAC+TGG + chr3.2:942520-942539 None:intergenic 50.0%
! TAAGTGTTGCTGCGGCAAGA+GGG - chr3.2:942416-942435 MS.gene53926:CDS 50.0%
CCTCCAGTTCAGCTTGACAC+CGG - chr3.2:942514-942533 MS.gene53926:CDS 55.0%
! CCGGTGTCAAGCTGAACTGG+AGG + chr3.2:942517-942536 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 942013 942540 942013 ID=MS.gene53926
chr3.2 mRNA 942013 942540 942013 ID=MS.gene53926.t1;Parent=MS.gene53926
chr3.2 exon 942013 942540 942013 ID=MS.gene53926.t1.exon1;Parent=MS.gene53926.t1
chr3.2 CDS 942013 942540 942013 ID=cds.MS.gene53926.t1;Parent=MS.gene53926.t1
Gene Sequence

>MS.gene53926

ATGAAGAAGCTCTCAGTTGGTGATGCATTATCGTTACTCGCAGCAGTTAAACGTAGGTTTGGATTTGAGAAAAGGGAAAAATATGGATCTTTTCTACAAATTATGAAGGATTTCAAGGCTGAAAGAATTGATGCTAGGGATGTCAAATTAAGAGTGTACGAGTTGTTGGACGGCCATGAAGATTTAATTTCGAAATTCAACATCTTCTTGCCAACTGAATATGAAATCAAACTTCCATTGGATCGTGACGACGATGATGACGAACTACAAGGTCATATGTTAGAGACAAAAGATGCATTTGCATTTCTCGAGAAAGTAAAAGATGTGTTTCATGGTAAGAATGAGGAAAAGTATAATGAGTTTTTAAAAATTGTTAAGGATTTCAAGGCTGGAAGAATTGATATAAGTGTTGCTGCGGCAAGAGGGAATGATCTGCTTCAAGGGCATACGGATTTAATTTTGGGATTCAACGCCTTCTTGCCAAAGAAATATCGAATCACACCTCCAGTTCAGCTTGACACCGGTTAG
Protein sequence

>MS.gene53926.t1

MKKLSVGDALSLLAAVKRRFGFEKREKYGSFLQIMKDFKAERIDARDVKLRVYELLDGHEDLISKFNIFLPTEYEIKLPLDRDDDDDELQGHMLETKDAFAFLEKVKDVFHGKNEEKYNEFLKIVKDFKAGRIDISVAAARGNDLLQGHTDLILGFNAFLPKKYRITPPVQLDTG