AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78922


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78922.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78922.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene78922.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78922.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78922.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78922.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene78922.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene78922.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene78922.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene78922.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene78922.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene78922.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene78922.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene78922.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene78922.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene78922.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene78922.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene78922.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene78922.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene78922.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene78922.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene78922.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene78922.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene78922.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.gene78922.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78922.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78922.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78922.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78922.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78922.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78922.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene78922.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene78922.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene78922.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene78922.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene78922.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene78922.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78922.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78922.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78922.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 39 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTTGCCGGAGCAGATTTC+CGG 0.243304 5.3:+18824491 None:intergenic
TTCTTGACTCCTCCGGTTGC+CGG 0.293014 5.3:+18824478 None:intergenic
TGAGAAGTTCAGTGCTCTTC+TGG 0.315268 5.3:+18824404 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 5.3:-18824283 MS.gene78922:CDS
GAGCAGAAACAGCGCTGCTT+TGG 0.363298 5.3:+18824314 None:intergenic
TCACGAAGTGCAACAGTTCC+AGG 0.377831 5.3:+18824439 None:intergenic
AGCAGATTTCCGGGCAGCTT+TGG 0.390197 5.3:+18824501 None:intergenic
CGGAAATCTGCTCCGGCAAC+CGG 0.392471 5.3:-18824490 MS.gene78922:CDS
CTTCCTTGGTGCCTTTCCTC+CGG 0.399049 5.3:+18824534 None:intergenic
GGTTGCCGGAGCAGATTTCC+GGG 0.407337 5.3:+18824492 None:intergenic
TTGGTGGCTAGCTGCTTCCT+TGG 0.412728 5.3:+18824520 None:intergenic
TTATCTTGTTGGTTTGTTTG+AGG 0.428809 5.3:-18824272 MS.gene78922:CDS
AGATTTCCGGGCAGCTTTGG+TGG 0.468887 5.3:+18824504 None:intergenic
AAACAGCGCTGCTTTGGAAT+CGG 0.473836 5.3:+18824320 None:intergenic
CGATTTCACGAACAAGCCTC+TGG 0.480343 5.3:+18824365 None:intergenic
AGCTAGCCACCAAAGCTGCC+CGG 0.491500 5.3:-18824510 MS.gene78922:CDS
CGAGCGAGTTGAATATCCTT+AGG 0.499677 5.3:+18824205 None:intergenic
GTGTGGCTTCTTGACTCCTC+CGG 0.501667 5.3:+18824471 None:intergenic
AGCTGCCCGGAAATCTGCTC+CGG 0.505877 5.3:-18824497 MS.gene78922:CDS
TCGCAAATCCACCGGAGGAA+AGG 0.508505 5.3:-18824545 MS.gene78922:CDS
CCTTGGTGCCTTTCCTCCGG+TGG 0.517647 5.3:+18824537 None:intergenic
AGAGCACTGAACTTCTCATA+AGG 0.521842 5.3:-18824399 MS.gene78922:CDS
AGTAACTCTCTTAGCATGAA+TGG 0.521941 5.3:+18824234 None:intergenic
GAGAGTTACTATCATGCCTA+AGG 0.550012 5.3:-18824221 MS.gene78922:CDS
GCTTGTTCGTGAAATCGCTC+AGG 0.551065 5.3:-18824359 MS.gene78922:CDS
CAACTCGCTCGCAGAATCAG+AGG 0.556058 5.3:-18824193 MS.gene78922:CDS
CAGTGCTCTTCTGGTACTTG+CGG 0.559165 5.3:+18824413 None:intergenic
TCACGAACAAGCCTCTGGAA+TGG 0.576771 5.3:+18824370 None:intergenic
TCGCAGAATCAGAGGCGAGA+GGG 0.584947 5.3:-18824185 MS.gene78922:CDS
CTCGCAGAATCAGAGGCGAG+AGG 0.599896 5.3:-18824186 MS.gene78922:CDS
AAATCTGCTCCGGCAACCGG+AGG 0.607496 5.3:-18824487 MS.gene78922:CDS
TAAGGAAGCTTCCATTCCAG+AGG 0.622048 5.3:-18824381 MS.gene78922:CDS
AAGCCACACAGATTCCGTCC+TGG 0.622196 5.3:-18824457 MS.gene78922:CDS
CAAACCGCTCGCAAATCCAC+CGG 0.629023 5.3:-18824553 MS.gene78922:CDS
TCCTCCGGTGGATTTGCGAG+CGG 0.642208 5.3:+18824549 None:intergenic
CCACCGGAGGAAAGGCACCA+AGG 0.647774 5.3:-18824537 MS.gene78922:CDS
ACCGCTCGCAAATCCACCGG+AGG 0.676829 5.3:-18824550 MS.gene78922:CDS
GAAGTGCAACAGTTCCAGGA+CGG 0.690156 5.3:+18824443 None:intergenic
GTTCCAGGACGGAATCTGTG+TGG 0.699556 5.3:+18824454 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCTTGTTGGTTTGTTTG+AGG - chr5.3:18824476-18824495 MS.gene78922:CDS 30.0%
AGTAACTCTCTTAGCATGAA+TGG + chr5.3:18824517-18824536 None:intergenic 35.0%
GAGAGTTACTATCATGCCTA+AGG - chr5.3:18824527-18824546 MS.gene78922:CDS 40.0%
!! AGAGCACTGAACTTCTCATA+AGG - chr5.3:18824349-18824368 MS.gene78922:CDS 40.0%
GCTGCTGAAGCTTATCTTGT+TGG - chr5.3:18824465-18824484 MS.gene78922:CDS 45.0%
TAAGGAAGCTTCCATTCCAG+AGG - chr5.3:18824367-18824386 MS.gene78922:CDS 45.0%
TGAGAAGTTCAGTGCTCTTC+TGG + chr5.3:18824347-18824366 None:intergenic 45.0%
! CGAGCGAGTTGAATATCCTT+AGG + chr5.3:18824546-18824565 None:intergenic 45.0%
!! AAACAGCGCTGCTTTGGAAT+CGG + chr5.3:18824431-18824450 None:intergenic 45.0%
CAGTGCTCTTCTGGTACTTG+CGG + chr5.3:18824338-18824357 None:intergenic 50.0%
CGATTTCACGAACAAGCCTC+TGG + chr5.3:18824386-18824405 None:intergenic 50.0%
GAAGTGCAACAGTTCCAGGA+CGG + chr5.3:18824308-18824327 None:intergenic 50.0%
GCTTGTTCGTGAAATCGCTC+AGG - chr5.3:18824389-18824408 MS.gene78922:CDS 50.0%
TCACGAAGTGCAACAGTTCC+AGG + chr5.3:18824312-18824331 None:intergenic 50.0%
! TCACGAACAAGCCTCTGGAA+TGG + chr5.3:18824381-18824400 None:intergenic 50.0%
AAGCCACACAGATTCCGTCC+TGG - chr5.3:18824291-18824310 MS.gene78922:CDS 55.0%
AGCAGATTTCCGGGCAGCTT+TGG + chr5.3:18824250-18824269 None:intergenic 55.0%
CAAACCGCTCGCAAATCCAC+CGG - chr5.3:18824195-18824214 MS.gene78922:CDS 55.0%
CAACTCGCTCGCAGAATCAG+AGG - chr5.3:18824555-18824574 MS.gene78922:CDS 55.0%
GAGCAGAAACAGCGCTGCTT+TGG + chr5.3:18824437-18824456 None:intergenic 55.0%
GTGTGGCTTCTTGACTCCTC+CGG + chr5.3:18824280-18824299 None:intergenic 55.0%
GTTCCAGGACGGAATCTGTG+TGG + chr5.3:18824297-18824316 None:intergenic 55.0%
TCGCAAATCCACCGGAGGAA+AGG - chr5.3:18824203-18824222 MS.gene78922:CDS 55.0%
TCGCAGAATCAGAGGCGAGA+GGG - chr5.3:18824563-18824582 MS.gene78922:CDS 55.0%
TTCTTGACTCCTCCGGTTGC+CGG + chr5.3:18824273-18824292 None:intergenic 55.0%
! AGATTTCCGGGCAGCTTTGG+TGG + chr5.3:18824247-18824266 None:intergenic 55.0%
! TTGGTGGCTAGCTGCTTCCT+TGG + chr5.3:18824231-18824250 None:intergenic 55.0%
!! CTTCCTTGGTGCCTTTCCTC+CGG + chr5.3:18824217-18824236 None:intergenic 55.0%
AAATCTGCTCCGGCAACCGG+AGG - chr5.3:18824261-18824280 MS.gene78922:CDS 60.0%
AGCTAGCCACCAAAGCTGCC+CGG - chr5.3:18824238-18824257 MS.gene78922:CDS 60.0%
AGCTGCCCGGAAATCTGCTC+CGG - chr5.3:18824251-18824270 MS.gene78922:CDS 60.0%
CGGAAATCTGCTCCGGCAAC+CGG - chr5.3:18824258-18824277 MS.gene78922:CDS 60.0%
CGGTTGCCGGAGCAGATTTC+CGG + chr5.3:18824260-18824279 None:intergenic 60.0%
CTCGCAGAATCAGAGGCGAG+AGG - chr5.3:18824562-18824581 MS.gene78922:CDS 60.0%
GGTTGCCGGAGCAGATTTCC+GGG + chr5.3:18824259-18824278 None:intergenic 60.0%
! TCCTCCGGTGGATTTGCGAG+CGG + chr5.3:18824202-18824221 None:intergenic 60.0%
ACCGCTCGCAAATCCACCGG+AGG - chr5.3:18824198-18824217 MS.gene78922:CDS 65.0%
!! CCACCGGAGGAAAGGCACCA+AGG - chr5.3:18824211-18824230 MS.gene78922:CDS 65.0%
!! CCTTGGTGCCTTTCCTCCGG+TGG + chr5.3:18824214-18824233 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 18824180 18824590 18824180 ID=MS.gene78922
chr5.3 mRNA 18824180 18824590 18824180 ID=MS.gene78922.t1;Parent=MS.gene78922
chr5.3 exon 18824180 18824590 18824180 ID=MS.gene78922.t1.exon1;Parent=MS.gene78922.t1
chr5.3 CDS 18824180 18824590 18824180 ID=cds.MS.gene78922.t1;Parent=MS.gene78922.t1
Gene Sequence

>MS.gene78922

ATGGCTCGTACAAAACAAACCGCTCGCAAATCCACCGGAGGAAAGGCACCAAGGAAGCAGCTAGCCACCAAAGCTGCCCGGAAATCTGCTCCGGCAACCGGAGGAGTCAAGAAGCCACACAGATTCCGTCCTGGAACTGTTGCACTTCGTGAGATCCGCAAGTACCAGAAGAGCACTGAACTTCTCATAAGGAAGCTTCCATTCCAGAGGCTTGTTCGTGAAATCGCTCAGGATTTCAAAACAGATCTCCGATTCCAAAGCAGCGCTGTTTCTGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAGGATACTAATCTATGTGCCATTCATGCTAAGAGAGTTACTATCATGCCTAAGGATATTCAACTCGCTCGCAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene78922.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA