AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene030661


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene030661.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene030661.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene030661.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene030661.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene030661.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene030661.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene030661.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene030661.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene030661.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene030661.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene030661.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene030661.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene030661.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene030661.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene030661.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene030661.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene030661.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene030661.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene030661.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene030661.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene030661.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene030661.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene030661.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene030661.t1 MTR_4g128040 75.676 37 9 0 79 115 20 56 3.38e-15 66.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene030661.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030661.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030661.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030661.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030661.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene030661.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene030661.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene030661.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene030661.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene030661.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene030661.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene030661.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene030661.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene030661.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene030661.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene030661.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 36 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTTGCCGGAGCTGATTTC+CGG 0.223115 4.3:-8708906 None:intergenic
CTTTGGTTGCCAGTTGCTTC+CGG 0.239809 4.3:-8708879 None:intergenic
TTCTTCACTCCTCCGGTTGC+CGG 0.280449 4.3:-8708919 None:intergenic
TTTGGTTGCCAGTTGCTTCC+GGG 0.293951 4.3:-8708878 None:intergenic
AGCTGATTTCCGGGCGGCTT+TGG 0.313671 4.3:-8708896 None:intergenic
TCTCTCAAAGCAACTGTTCC+AGG 0.333816 4.3:-8708958 None:intergenic
ATTCCAGAGCAGCGCTGTTT+CGG 0.349346 4.3:+8709080 MS.gene030661:CDS
GAGCCGAAACAGCGCTGCTC+TGG 0.362721 4.3:-8709083 None:intergenic
AGAAGCTGCTGAAGCTTACT+TGG 0.369838 4.3:+8709110 MS.gene030661:CDS
GGTTGCCGGAGCTGATTTCC+GGG 0.374321 4.3:-8708905 None:intergenic
CAAGGCTCCCCGGAAGCAAC+TGG 0.376550 4.3:+8708870 MS.gene030661:CDS
CGGAAATCAGCTCCGGCAAC+CGG 0.399036 4.3:+8708907 MS.gene030661:CDS
GACGTTGGAATGGAAGTTTA+CGG 0.458530 4.3:-8709017 None:intergenic
CTTGCAAGCTGAATGTCCTT+AGG 0.462646 4.3:-8709192 None:intergenic
GTGTGGCTTCTTCACTCCTC+CGG 0.469362 4.3:-8708926 None:intergenic
CCACCGGCGGCAAGGCTCCC+CGG 0.480154 4.3:+8708860 MS.gene030661:CDS
GCTGCTGAAGCTTACTTGGT+TGG 0.480680 4.3:+8709114 MS.gene030661:CDS
TCGCAAGTCCACCGGCGGCA+AGG 0.488583 4.3:+8708852 MS.gene030661:CDS
AGCCGCCCGGAAATCAGCTC+CGG 0.490847 4.3:+8708900 MS.gene030661:CDS
TTGGTTGCCAGTTGCTTCCG+GGG 0.522282 4.3:-8708877 None:intergenic
AACTGGCAACCAAAGCCGCC+CGG 0.530994 4.3:+8708887 MS.gene030661:CDS
CTTCCGGGGAGCCTTGCCGC+CGG 0.543290 4.3:-8708863 None:intergenic
CCGGGGAGCCTTGCCGCCGG+TGG 0.548377 4.3:-8708860 None:intergenic
GGACTTGCGAGCAGTCTGCT+TGG 0.551577 4.3:-8708839 None:intergenic
CAGACTGCTCGCAAGTCCAC+CGG 0.562052 4.3:+8708844 MS.gene030661:CDS
GAGAGTTACAATCATGCCTA+AGG 0.570792 4.3:+8709176 MS.gene030661:CDS
AAGAAGAATCAGAGGAGAGA+GGG 0.573886 4.3:+8709212 MS.gene030661:CDS
TCACGAACAAGACGTTGGAA+TGG 0.598115 4.3:-8709027 None:intergenic
CAAGAAGAATCAGAGGAGAG+AGG 0.603703 4.3:+8709211 MS.gene030661:CDS
AAATCAGCTCCGGCAACCGG+AGG 0.609979 4.3:+8708910 MS.gene030661:CDS
CGATTTCACGAACAAGACGT+TGG 0.613448 4.3:-8709032 None:intergenic
CAGCTTGCAAGAAGAATCAG+AGG 0.621034 4.3:+8709204 MS.gene030661:CDS
ACTGCTCGCAAGTCCACCGG+CGG 0.647164 4.3:+8708847 MS.gene030661:CDS
AAGCCACACAGATTCAGACC+TGG 0.672238 4.3:+8708940 MS.gene030661:CDS
GTTCCAGGTCTGAATCTGTG+TGG 0.688220 4.3:-8708943 None:intergenic
TGCCGGAGCTGATTTCCGGG+CGG 0.740409 4.3:-8708902 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAGAATCAGAGGAGAGA+GGG + chr4.3:8709212-8709231 MS.gene030661:CDS 40.0%
GACGTTGGAATGGAAGTTTA+CGG - chr4.3:8709020-8709039 None:intergenic 40.0%
GAGAGTTACAATCATGCCTA+AGG + chr4.3:8709176-8709195 MS.gene030661:CDS 40.0%
AGAAGCTGCTGAAGCTTACT+TGG + chr4.3:8709110-8709129 MS.gene030661:CDS 45.0%
CAAGAAGAATCAGAGGAGAG+AGG + chr4.3:8709211-8709230 MS.gene030661:CDS 45.0%
CAGCTTGCAAGAAGAATCAG+AGG + chr4.3:8709204-8709223 MS.gene030661:CDS 45.0%
CGATTTCACGAACAAGACGT+TGG - chr4.3:8709035-8709054 None:intergenic 45.0%
CTTGCAAGCTGAATGTCCTT+AGG - chr4.3:8709195-8709214 None:intergenic 45.0%
TCACGAACAAGACGTTGGAA+TGG - chr4.3:8709030-8709049 None:intergenic 45.0%
TCTCTCAAAGCAACTGTTCC+AGG - chr4.3:8708961-8708980 None:intergenic 45.0%
AAGCCACACAGATTCAGACC+TGG + chr4.3:8708940-8708959 MS.gene030661:CDS 50.0%
ATTCCAGAGCAGCGCTGTTT+CGG + chr4.3:8709080-8709099 MS.gene030661:CDS 50.0%
CTTTGGTTGCCAGTTGCTTC+CGG - chr4.3:8708882-8708901 None:intergenic 50.0%
GCTGCTGAAGCTTACTTGGT+TGG + chr4.3:8709114-8709133 MS.gene030661:CDS 50.0%
GTTCCAGGTCTGAATCTGTG+TGG - chr4.3:8708946-8708965 None:intergenic 50.0%
TTTGGTTGCCAGTTGCTTCC+GGG - chr4.3:8708881-8708900 None:intergenic 50.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.3:8708929-8708948 None:intergenic 55.0%
TTCTTCACTCCTCCGGTTGC+CGG - chr4.3:8708922-8708941 None:intergenic 55.0%
TTGGTTGCCAGTTGCTTCCG+GGG - chr4.3:8708880-8708899 None:intergenic 55.0%
AAATCAGCTCCGGCAACCGG+AGG + chr4.3:8708910-8708929 MS.gene030661:CDS 60.0%
AACTGGCAACCAAAGCCGCC+CGG + chr4.3:8708887-8708906 MS.gene030661:CDS 60.0%
CAGACTGCTCGCAAGTCCAC+CGG + chr4.3:8708844-8708863 MS.gene030661:CDS 60.0%
CGGAAATCAGCTCCGGCAAC+CGG + chr4.3:8708907-8708926 MS.gene030661:CDS 60.0%
GGACTTGCGAGCAGTCTGCT+TGG - chr4.3:8708842-8708861 None:intergenic 60.0%
! AGCTGATTTCCGGGCGGCTT+TGG - chr4.3:8708899-8708918 None:intergenic 60.0%
! CGGTTGCCGGAGCTGATTTC+CGG - chr4.3:8708909-8708928 None:intergenic 60.0%
! GGTTGCCGGAGCTGATTTCC+GGG - chr4.3:8708908-8708927 None:intergenic 60.0%
ACTGCTCGCAAGTCCACCGG+CGG + chr4.3:8708847-8708866 MS.gene030661:CDS 65.0%
AGCCGCCCGGAAATCAGCTC+CGG + chr4.3:8708900-8708919 MS.gene030661:CDS 65.0%
CAAGGCTCCCCGGAAGCAAC+TGG + chr4.3:8708870-8708889 MS.gene030661:CDS 65.0%
GAGCCGAAACAGCGCTGCTC+TGG - chr4.3:8709086-8709105 None:intergenic 65.0%
! TGCCGGAGCTGATTTCCGGG+CGG - chr4.3:8708905-8708924 None:intergenic 65.0%
TCGCAAGTCCACCGGCGGCA+AGG + chr4.3:8708852-8708871 MS.gene030661:CDS 70.0%
CTTCCGGGGAGCCTTGCCGC+CGG - chr4.3:8708866-8708885 None:intergenic 75.0%
! CCACCGGCGGCAAGGCTCCC+CGG + chr4.3:8708860-8708879 MS.gene030661:CDS 80.0%
! CCGGGGAGCCTTGCCGCCGG+TGG - chr4.3:8708863-8708882 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 8708829 8709239 8708829 ID=MS.gene030661
chr4.3 mRNA 8708829 8709239 8708829 ID=MS.gene030661.t1;Parent=MS.gene030661
chr4.3 exon 8708829 8709239 8708829 ID=MS.gene030661.t1.exon1;Parent=MS.gene030661.t1
chr4.3 CDS 8708829 8709239 8708829 ID=cds.MS.gene030661.t1;Parent=MS.gene030661.t1
Gene Sequence

>MS.gene030661

ATGGCACGTACCAAGCAGACTGCTCGCAAGTCCACCGGCGGCAAGGCTCCCCGGAAGCAACTGGCAACCAAAGCCGCCCGGAAATCAGCTCCGGCAACCGGAGGAGTGAAGAAGCCACACAGATTCAGACCTGGAACAGTTGCTTTGAGAGAGATTCGTAAGTATCAGAAGAGCACTGAGCTTCTCATCCGTAAACTTCCATTCCAACGTCTTGTTCGTGAAATCGCTCAAGATTTCAAGACAGATCTGAGATTCCAGAGCAGCGCTGTTTCGGCTCTTCAAGAAGCTGCTGAAGCTTACTTGGTTGGACTCTTTGAAGACACAAATCTGTGCGCAATTCATGCTAAGAGAGTTACAATCATGCCTAAGGACATTCAGCTTGCAAGAAGAATCAGAGGAGAGAGGGCTTAG

Protein sequence

>MS.gene030661.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA