AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene063698

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063698.t1 MTR_8g104765 97.222 216 6 0 1 216 1 216 3.97e-158 436
MS.gene063698.t1 MTR_4g120830 93.056 216 6 1 1 216 1 207 1.12e-147 409
MS.gene063698.t1 MTR_4g120825 92.593 216 7 1 1 216 1 207 5.89e-147 407
MS.gene063698.t1 MTR_3g008840 39.888 178 95 4 38 213 19 186 4.29e-38 130
MS.gene063698.t1 MTR_4g101760 34.951 206 118 5 9 213 11 201 6.59e-37 128
MS.gene063698.t1 MTR_4g035905 40.588 170 87 4 44 211 36 193 8.79e-37 127
MS.gene063698.t1 MTR_5g012000 40.351 171 93 4 42 211 46 208 6.10e-36 126
MS.gene063698.t1 MTR_4g035880 40.237 169 89 3 44 211 36 193 1.53e-35 124
MS.gene063698.t1 MTR_4g035870 37.688 199 107 5 11 208 8 190 6.05e-35 123
MS.gene063698.t1 MTR_3g008820 36.932 176 99 4 38 211 18 183 6.40e-34 120
MS.gene063698.t1 MTR_4g025610 34.884 172 107 2 44 213 32 200 5.76e-33 118
MS.gene063698.t1 MTR_7g108790 34.884 172 100 3 45 216 34 193 1.53e-32 117
MS.gene063698.t1 MTR_4g025550 30.952 210 132 4 6 213 2 200 1.29e-31 115
MS.gene063698.t1 MTR_4g025590 34.302 172 108 2 44 213 3 171 1.34e-31 114
MS.gene063698.t1 MTR_3g008760 33.333 183 113 2 28 209 50 224 7.44e-31 113
MS.gene063698.t1 MTR_4g025620 33.721 172 109 2 44 213 32 200 2.02e-30 112
MS.gene063698.t1 MTR_2g043560 36.994 173 89 4 43 212 33 188 6.46e-28 105
MS.gene063698.t1 MTR_1g088540 37.419 155 85 3 61 215 3 145 2.26e-26 99.8
MS.gene063698.t1 MTR_4g035855 31.925 213 132 6 1 211 1 202 4.13e-26 100
MS.gene063698.t1 MTR_4g124855 31.884 207 113 9 7 208 11 194 4.23e-25 97.8
MS.gene063698.t1 MTR_0036s0140 32.317 164 90 6 45 207 78 221 7.49e-17 76.6
MS.gene063698.t1 MTR_3g010780 29.697 165 101 4 45 207 71 222 4.11e-16 76.6
MS.gene063698.t1 MTR_8g042900 29.518 166 101 4 45 207 76 228 3.85e-15 73.9
MS.gene063698.t1 MTR_8g023150 25.150 167 108 3 45 208 77 229 7.58e-14 70.1
MS.gene063698.t1 MTR_8g023310 25.581 172 117 3 44 213 67 229 4.10e-13 68.2
MS.gene063698.t1 MTR_3g091380 25.000 200 140 4 9 206 42 233 2.02e-12 65.9
MS.gene063698.t1 MTR_1g008140 26.506 166 113 4 45 206 82 242 2.54e-12 65.9
MS.gene063698.t1 MTR_7g112580 24.623 199 137 4 10 206 3 190 7.69e-12 64.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene063698.t1 AT2G01610 56.842 190 76 4 33 216 33 222 2.26e-70 214
MS.gene063698.t1 AT1G14890 54.106 207 77 5 9 214 29 218 1.19e-68 209
MS.gene063698.t1 AT1G23205 53.846 182 74 3 39 215 28 204 6.08e-60 187
MS.gene063698.t1 AT1G70720 44.860 214 106 4 3 215 8 210 1.62e-57 181
MS.gene063698.t1 AT1G70720 47.959 196 90 4 21 215 14 198 1.31e-56 178
MS.gene063698.t1 AT5G62350 40.642 187 103 3 27 212 21 200 5.44e-40 136
MS.gene063698.t1 AT4G25260 37.745 204 115 5 12 213 7 200 3.58e-39 134
MS.gene063698.t1 AT3G47380 39.153 189 105 4 28 213 20 201 2.31e-37 129
MS.gene063698.t1 AT4G12390 41.520 171 93 3 44 213 39 203 4.93e-36 126
MS.gene063698.t1 AT1G62770 37.968 187 106 5 29 213 20 198 5.14e-35 123
MS.gene063698.t1 AT4G25250 32.020 203 127 5 9 210 4 196 1.18e-33 119
MS.gene063698.t1 AT5G20740 36.019 211 114 6 10 216 7 200 8.75e-33 117
MS.gene063698.t1 AT5G20740 35.096 208 120 5 10 216 41 234 3.01e-32 117
MS.gene063698.t1 AT1G62760 37.209 172 97 4 41 211 144 305 3.82e-31 116
MS.gene063698.t1 AT5G51520 31.220 205 121 5 10 207 8 199 4.95e-31 113
MS.gene063698.t1 AT5G62360 35.294 170 97 4 43 211 42 199 7.33e-31 112
MS.gene063698.t1 AT4G00080 30.542 203 122 5 9 207 9 196 9.32e-26 99.8
MS.gene063698.t1 AT2G47670 32.370 173 104 4 44 215 48 208 7.30e-21 87.0
MS.gene063698.t1 AT3G62820 26.829 205 126 5 13 215 12 194 2.36e-20 85.1
MS.gene063698.t1 AT3G14300 27.059 170 108 4 45 207 271 431 9.88e-16 75.9
MS.gene063698.t1 AT3G14300 26.437 174 118 5 42 213 456 621 1.86e-11 63.2
MS.gene063698.t1 AT5G53370 26.066 211 135 7 10 216 78 271 1.08e-14 72.8
MS.gene063698.t1 AT5G53370 26.066 211 135 7 10 216 42 235 1.23e-14 72.4
MS.gene063698.t1 AT3G49220 28.293 205 115 4 10 206 97 277 4.42e-14 70.9
MS.gene063698.t1 AT3G49220 28.293 205 115 4 10 206 52 232 4.62e-14 70.9
MS.gene063698.t1 AT3G49220 28.293 205 115 4 10 206 97 277 5.26e-14 70.5
MS.gene063698.t1 AT5G62340 27.232 224 133 10 1 213 1 205 2.52e-13 66.6
MS.gene063698.t1 AT1G53830 25.301 166 112 4 44 207 61 216 6.44e-11 61.6

Find 60 sgRNAs with CRISPR-Local

Find 60 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGCTTTGGCACTTGTTAA+TGG 0.258713 4.3:-1714672 MS.gene063698:CDS
GTTAATGGTTACGCACAAAA+AGG 0.286538 4.3:-1714657 MS.gene063698:CDS
GCAACTTGAACGGATGAATT+CGG 0.350009 4.3:+1715151 None:intergenic
TCTGCTCCGGTGGCGGTTGT+TGG 0.357625 4.3:+1715200 None:intergenic
CGAAGAAGATGATTGATAAT+AGG 0.374294 4.3:+1715246 None:intergenic
GTCGGAACTGGCGCCGGTGC+CGG 0.392219 4.3:-1714855 MS.gene063698:CDS
ATCTGCTTCGCGAGTGAGAT+TGG 0.399064 4.3:+1714989 None:intergenic
CAGATTGGAGCCGTCGGAAC+TGG 0.401781 4.3:-1714867 MS.gene063698:CDS
GGCGGTTGTTGGACGGAGAT+TGG 0.404587 4.3:+1715211 None:intergenic
AGGGAAGTGTAGCATATGTC+AGG 0.436656 4.3:+1715113 None:intergenic
GTGGACTTTGGAGAAGCTTA+CGG 0.443650 4.3:+1715031 None:intergenic
AAAGTTCACGAGTAATGCTT+TGG 0.448902 4.3:-1714685 MS.gene063698:CDS
TTTGGAGAAGCTTACGGCTA+TGG 0.464721 4.3:+1715037 None:intergenic
GGGATTCTGTTGAACTGCAT+TGG 0.465344 4.3:+1715079 None:intergenic
AGAGGCGGTTCGGTGGACTT+TGG 0.468926 4.3:+1715019 None:intergenic
CTTAAACAGATGCGACAGAT+TGG 0.471352 4.3:-1714882 MS.gene063698:CDS
CTCCGGTGGCGGTTGTTGGA+CGG 0.475048 4.3:+1715204 None:intergenic
GGCGATGCGAGCGAGTTGGC+CGG 0.484500 4.3:+1715058 None:intergenic
GCGTCGTCGTTGGTGGTGGT+TGG 0.487249 4.3:+1715173 None:intergenic
GAGGAAACTGTGAGAGTGTT+GGG 0.489323 4.3:+1715268 None:intergenic
TGGAGGTTCTGCTCCGGTGG+CGG 0.492157 4.3:+1715193 None:intergenic
GGAGGAAACTGTGAGAGTGT+TGG 0.492920 4.3:+1715267 None:intergenic
AAACGAATCTGCTCCGGCAC+CGG 0.499792 4.3:+1714842 None:intergenic
TTCTGTACATCCGCTTTCAC+AGG 0.501048 4.3:+1714726 None:intergenic
TCGTCGTTGGTGGTGGTTGG+AGG 0.502344 4.3:+1715176 None:intergenic
CTCCGTCCAACAACCGCCAC+CGG 0.510383 4.3:-1715206 MS.gene063698:CDS
TGGAGAGATAAGAGGCGGTT+CGG 0.511261 4.3:+1715009 None:intergenic
GGTGGTTGGAGGTTCTGCTC+CGG 0.513292 4.3:+1715187 None:intergenic
GATGAATTCGGCGTCGTCGT+TGG 0.515433 4.3:+1715163 None:intergenic
TTCGGCGTCGTCGTTGGTGG+TGG 0.522970 4.3:+1715169 None:intergenic
AGTGAGATTGGAGAGATAAG+AGG 0.523775 4.3:+1715001 None:intergenic
GGCACCGGCGCCAGTTCCGA+CGG 0.530037 4.3:+1714857 None:intergenic
CTGCATTGGCGTAGCGAGAG+AGG 0.532228 4.3:+1715093 None:intergenic
AGAAGATGATTGATAATAGG+AGG 0.540415 4.3:+1715249 None:intergenic
GAATTCGGCGTCGTCGTTGG+TGG 0.541966 4.3:+1715166 None:intergenic
AAACAGAAACGAATCTGCTC+CGG 0.547260 4.3:+1714836 None:intergenic
GGTTGGAGGTTCTGCTCCGG+TGG 0.548791 4.3:+1715190 None:intergenic
GCGATGCGAGCGAGTTGGCC+GGG 0.559441 4.3:+1715059 None:intergenic
GGAGCCGTCGGAACTGGCGC+CGG 0.568149 4.3:-1714861 MS.gene063698:CDS
TGCATTGGCGTAGCGAGAGA+GGG 0.576173 4.3:+1715094 None:intergenic
TGTACAGAATCGTGTCTCGA+AGG 0.577511 4.3:-1714712 MS.gene063698:CDS
CTATGGCGATGCGAGCGAGT+TGG 0.577700 4.3:+1715054 None:intergenic
TACTGATGAAGAAACGTGTA+CGG 0.583108 4.3:-1714775 MS.gene063698:CDS
CGAGATTTGAGAAACAGTCA+TGG 0.583249 4.3:+1714934 None:intergenic
GATGAAGAAACGTGTACGGA+TGG 0.588482 4.3:-1714771 MS.gene063698:CDS
ACAGTCATGGAGAGCGAGTG+CGG 0.590149 4.3:+1714947 None:intergenic
AATGCAGTTCAACAGAATCC+CGG 0.598872 4.3:-1715077 MS.gene063698:CDS
AGATGAGTAACGTGCAGACG+TGG 0.606703 4.3:-1714812 MS.gene063698:CDS
AGAGATAAGAGGCGGTTCGG+TGG 0.627950 4.3:+1715012 None:intergenic
GGGAAGTGTAGCATATGTCA+GGG 0.632502 4.3:+1715114 None:intergenic
GCATCTGTTTAAGCGAGCCA+CGG 0.637289 4.3:+1714892 None:intergenic
GTGTTGCGTTGCAACTTGAA+CGG 0.641224 4.3:+1715141 None:intergenic
ATGCGACAGATTGGAGCCGT+CGG 0.644503 4.3:-1714873 MS.gene063698:CDS
TGGACGGAGATTGGAGAATG+TGG 0.645484 4.3:+1715220 None:intergenic
CGTGCAGACGTGGATGAGTG+CGG 0.674734 4.3:-1714802 MS.gene063698:CDS
GAGATTGGAGAGATAAGAGG+CGG 0.675120 4.3:+1715004 None:intergenic
AGAAGATTGTCCTGTGAAAG+CGG 0.686477 4.3:-1714736 MS.gene063698:CDS
ACGGAGATTGGAGAATGTGG+CGG 0.690066 4.3:+1715223 None:intergenic
GATGCTGTTGATGAAATCCG+TGG 0.736309 4.3:-1714909 MS.gene063698:CDS
ACTCGCGAAGCAGATTACAG+CGG 0.792244 4.3:-1714981 MS.gene063698:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AGAAGATGATTGATAATAGG+AGG + chr4.3:1714676-1714695 None:intergenic 30.0%
! CGAAGAAGATGATTGATAAT+AGG + chr4.3:1714679-1714698 None:intergenic 30.0%
AAAGTTCACGAGTAATGCTT+TGG - chr4.3:1715237-1715256 MS.gene063698:CDS 35.0%
GTTAATGGTTACGCACAAAA+AGG - chr4.3:1715265-1715284 MS.gene063698:CDS 35.0%
TACTGATGAAGAAACGTGTA+CGG - chr4.3:1715147-1715166 MS.gene063698:CDS 35.0%
! AATGCTTTGGCACTTGTTAA+TGG - chr4.3:1715250-1715269 MS.gene063698:CDS 35.0%
AAACAGAAACGAATCTGCTC+CGG + chr4.3:1715089-1715108 None:intergenic 40.0%
AATGCAGTTCAACAGAATCC+CGG - chr4.3:1714845-1714864 MS.gene063698:CDS 40.0%
AGAAGATTGTCCTGTGAAAG+CGG - chr4.3:1715186-1715205 MS.gene063698:CDS 40.0%
AGTGAGATTGGAGAGATAAG+AGG + chr4.3:1714924-1714943 None:intergenic 40.0%
CGAGATTTGAGAAACAGTCA+TGG + chr4.3:1714991-1715010 None:intergenic 40.0%
CTTAAACAGATGCGACAGAT+TGG - chr4.3:1715040-1715059 MS.gene063698:CDS 40.0%
GCAACTTGAACGGATGAATT+CGG + chr4.3:1714774-1714793 None:intergenic 40.0%
GAGATTGGAGAGATAAGAGG+CGG + chr4.3:1714921-1714940 None:intergenic 45.0%
GATGAAGAAACGTGTACGGA+TGG - chr4.3:1715151-1715170 MS.gene063698:CDS 45.0%
GGGATTCTGTTGAACTGCAT+TGG + chr4.3:1714846-1714865 None:intergenic 45.0%
GTGTTGCGTTGCAACTTGAA+CGG + chr4.3:1714784-1714803 None:intergenic 45.0%
TGTACAGAATCGTGTCTCGA+AGG - chr4.3:1715210-1715229 MS.gene063698:CDS 45.0%
TTCTGTACATCCGCTTTCAC+AGG + chr4.3:1715199-1715218 None:intergenic 45.0%
TTTGGAGAAGCTTACGGCTA+TGG + chr4.3:1714888-1714907 None:intergenic 45.0%
! AGGGAAGTGTAGCATATGTC+AGG + chr4.3:1714812-1714831 None:intergenic 45.0%
! GATGCTGTTGATGAAATCCG+TGG - chr4.3:1715013-1715032 MS.gene063698:CDS 45.0%
! GGGAAGTGTAGCATATGTCA+GGG + chr4.3:1714811-1714830 None:intergenic 45.0%
! GTGGACTTTGGAGAAGCTTA+CGG + chr4.3:1714894-1714913 None:intergenic 45.0%
!! GAGGAAACTGTGAGAGTGTT+GGG + chr4.3:1714657-1714676 None:intergenic 45.0%
ACGGAGATTGGAGAATGTGG+CGG + chr4.3:1714702-1714721 None:intergenic 50.0%
ACTCGCGAAGCAGATTACAG+CGG - chr4.3:1714941-1714960 MS.gene063698:CDS 50.0%
AGATGAGTAACGTGCAGACG+TGG - chr4.3:1715110-1715129 MS.gene063698:CDS 50.0%
ATCTGCTTCGCGAGTGAGAT+TGG + chr4.3:1714936-1714955 None:intergenic 50.0%
GCATCTGTTTAAGCGAGCCA+CGG + chr4.3:1715033-1715052 None:intergenic 50.0%
TGGACGGAGATTGGAGAATG+TGG + chr4.3:1714705-1714724 None:intergenic 50.0%
TGGAGAGATAAGAGGCGGTT+CGG + chr4.3:1714916-1714935 None:intergenic 50.0%
! GGAGGAAACTGTGAGAGTGT+TGG + chr4.3:1714658-1714677 None:intergenic 50.0%
AAACGAATCTGCTCCGGCAC+CGG + chr4.3:1715083-1715102 None:intergenic 55.0%
ACAGTCATGGAGAGCGAGTG+CGG + chr4.3:1714978-1714997 None:intergenic 55.0%
ATGCGACAGATTGGAGCCGT+CGG - chr4.3:1715049-1715068 MS.gene063698:CDS 55.0%
GATGAATTCGGCGTCGTCGT+TGG + chr4.3:1714762-1714781 None:intergenic 55.0%
! AGAGATAAGAGGCGGTTCGG+TGG + chr4.3:1714913-1714932 None:intergenic 55.0%
! TGCATTGGCGTAGCGAGAGA+GGG + chr4.3:1714831-1714850 None:intergenic 55.0%
CAGATTGGAGCCGTCGGAAC+TGG - chr4.3:1715055-1715074 MS.gene063698:CDS 60.0%
CGTGCAGACGTGGATGAGTG+CGG - chr4.3:1715120-1715139 MS.gene063698:CDS 60.0%
CTATGGCGATGCGAGCGAGT+TGG + chr4.3:1714871-1714890 None:intergenic 60.0%
GAATTCGGCGTCGTCGTTGG+TGG + chr4.3:1714759-1714778 None:intergenic 60.0%
GGCGGTTGTTGGACGGAGAT+TGG + chr4.3:1714714-1714733 None:intergenic 60.0%
GGTGGTTGGAGGTTCTGCTC+CGG + chr4.3:1714738-1714757 None:intergenic 60.0%
! CTGCATTGGCGTAGCGAGAG+AGG + chr4.3:1714832-1714851 None:intergenic 60.0%
!! AGAGGCGGTTCGGTGGACTT+TGG + chr4.3:1714906-1714925 None:intergenic 60.0%
!! TCGTCGTTGGTGGTGGTTGG+AGG + chr4.3:1714749-1714768 None:intergenic 60.0%
CTCCGTCCAACAACCGCCAC+CGG - chr4.3:1714716-1714735 MS.gene063698:CDS 65.0%
GGTTGGAGGTTCTGCTCCGG+TGG + chr4.3:1714735-1714754 None:intergenic 65.0%
TGGAGGTTCTGCTCCGGTGG+CGG + chr4.3:1714732-1714751 None:intergenic 65.0%
! CTCCGGTGGCGGTTGTTGGA+CGG + chr4.3:1714721-1714740 None:intergenic 65.0%
! TCTGCTCCGGTGGCGGTTGT+TGG + chr4.3:1714725-1714744 None:intergenic 65.0%
! TTCGGCGTCGTCGTTGGTGG+TGG + chr4.3:1714756-1714775 None:intergenic 65.0%
!! GCGTCGTCGTTGGTGGTGGT+TGG + chr4.3:1714752-1714771 None:intergenic 65.0%
! GCGATGCGAGCGAGTTGGCC+GGG + chr4.3:1714866-1714885 None:intergenic 70.0%
! GGCGATGCGAGCGAGTTGGC+CGG + chr4.3:1714867-1714886 None:intergenic 70.0%
GGAGCCGTCGGAACTGGCGC+CGG - chr4.3:1715061-1715080 MS.gene063698:CDS 75.0%
!! GGCACCGGCGCCAGTTCCGA+CGG + chr4.3:1715068-1715087 None:intergenic 75.0%
!! GTCGGAACTGGCGCCGGTGC+CGG - chr4.3:1715067-1715086 MS.gene063698:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 1714647 1715297 1714647 ID=MS.gene063698
chr4.3 mRNA 1714647 1715297 1714647 ID=MS.gene063698.t1;Parent=MS.gene063698
chr4.3 exon 1714647 1715297 1714647 ID=MS.gene063698.t1.exon1;Parent=MS.gene063698.t1
chr4.3 CDS 1714647 1715297 1714647 ID=cds.MS.gene063698.t1;Parent=MS.gene063698.t1
Gene Sequence

>MS.gene063698

ATGACAACCCAACACTCTCACAGTTTCCTCCTATTATCAATCATCTTCTTCGCCGCCACATTCTCCAATCTCCGTCCAACAACCGCCACCGGAGCAGAACCTCCAACCACCACCAACGACGACGCCGAATTCATCCGTTCAAGTTGCAACGCAACACTCTACCCTGACATATGCTACACTTCCCTCTCTCGCTACGCCAATGCAGTTCAACAGAATCCCGGCCAACTCGCTCGCATCGCCATAGCCGTAAGCTTCTCCAAAGTCCACCGAACCGCCTCTTATCTCTCCAATCTCACTCGCGAAGCAGATTACAGCGGTAGTTCACGCGCCGCACTCGCTCTCCATGACTGTTTCTCAAATCTCGACGATGCTGTTGATGAAATCCGTGGCTCGCTTAAACAGATGCGACAGATTGGAGCCGTCGGAACTGGCGCCGGTGCCGGAGCAGATTCGTTTCTGTTTCAGATGAGTAACGTGCAGACGTGGATGAGTGCGGCACTTACTGATGAAGAAACGTGTACGGATGGATTTCAAGATGTAGAAGATTGTCCTGTGAAAGCGGATGTACAGAATCGTGTCTCGAAGGTGAAAAAGTTCACGAGTAATGCTTTGGCACTTGTTAATGGTTACGCACAAAAAGGAATGCCATGA
Protein sequence

>MS.gene063698.t1

MTTQHSHSFLLLSIIFFAATFSNLRPTTATGAEPPTTTNDDAEFIRSSCNATLYPDICYTSLSRYANAVQQNPGQLARIAIAVSFSKVHRTASYLSNLTREADYSGSSRAALALHDCFSNLDDAVDEIRGSLKQMRQIGAVGTGAGAGADSFLFQMSNVQTWMSAALTDEETCTDGFQDVEDCPVKADVQNRVSKVKKFTSNALALVNGYAQKGMP