AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene78924


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene78924.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene78924.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene78924.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78924.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78924.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene78924.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene78924.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene78924.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene78924.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene78924.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene78924.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene78924.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene78924.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene78924.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene78924.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene78924.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene78924.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene78924.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene78924.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene78924.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene78924.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene78924.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene78924.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene78924.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.gene78924.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78924.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78924.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78924.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78924.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene78924.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene78924.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene78924.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene78924.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene78924.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene78924.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene78924.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene78924.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78924.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78924.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene78924.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 34 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGGTTGCCGGAGCAGATTTC+CGG 0.243304 5.3:-18804979 None:intergenic
TTGGTGGCTAGCTGCTTTCT+TGG 0.277587 5.3:-18804950 None:intergenic
TTCTTGACTCCTCCGGTTGC+CGG 0.293014 5.3:-18804992 None:intergenic
TGAGAAGTTCAGTGCTCTTC+TGG 0.315268 5.3:-18805066 None:intergenic
GCTGCTGAAGCTTATCTTGT+TGG 0.357332 5.3:+18805187 MS.gene78924:CDS
TCACGAAGTGCAACAGTTCC+AGG 0.377831 5.3:-18805031 None:intergenic
AGCAGATTTCCGGGCAGCTT+TGG 0.390197 5.3:-18804969 None:intergenic
CGGAAATCTGCTCCGGCAAC+CGG 0.392471 5.3:+18804980 MS.gene78924:CDS
GGTTGCCGGAGCAGATTTCC+GGG 0.407337 5.3:-18804978 None:intergenic
TTATCTTGTTGGTTTGTTTG+AGG 0.428809 5.3:+18805198 MS.gene78924:CDS
CGATTTCACGAACAAGTCTC+TGG 0.432729 5.3:-18805105 None:intergenic
GAGCGGAAACAGCACTACTT+TGG 0.466016 5.3:-18805156 None:intergenic
AGATTTCCGGGCAGCTTTGG+TGG 0.468887 5.3:-18804966 None:intergenic
AGCTAGCCACCAAAGCTGCC+CGG 0.491500 5.3:+18804960 MS.gene78924:CDS
CGAGCGAGTTGAATATCCTT+AGG 0.499677 5.3:-18805265 None:intergenic
GTGTGGCTTCTTGACTCCTC+CGG 0.501667 5.3:-18804999 None:intergenic
AAACAGCACTACTTTGGAAT+CGG 0.503585 5.3:-18805150 None:intergenic
AGCTGCCCGGAAATCTGCTC+CGG 0.505877 5.3:+18804973 MS.gene78924:CDS
AGAGCACTGAACTTCTCATA+AGG 0.521842 5.3:+18805071 MS.gene78924:CDS
AGTAACTCTCTTAGCATGAA+TGG 0.521941 5.3:-18805236 None:intergenic
GAGAGTTACTATCATGCCTA+AGG 0.550012 5.3:+18805249 MS.gene78924:CDS
ACTTGTTCGTGAAATCGCTC+AGG 0.551065 5.3:+18805111 MS.gene78924:CDS
CAACTCGCTCGCAGAATCAG+AGG 0.556058 5.3:+18805277 MS.gene78924:CDS
CAGTGCTCTTCTGGTACTTG+CGG 0.559165 5.3:-18805057 None:intergenic
TTCAGCAGCTTCTTGAAGAG+CGG 0.576635 5.3:-18805173 None:intergenic
CAAACTGCTCGCAAATCCAC+CGG 0.583641 5.3:+18804917 MS.gene78924:CDS
TCGCAGAATCAGAGGCGAGA+GGG 0.584947 5.3:+18805285 MS.gene78924:CDS
TCACGAACAAGTCTCTGGAA+TGG 0.590006 5.3:-18805100 None:intergenic
CTCGCAGAATCAGAGGCGAG+AGG 0.599896 5.3:+18805284 MS.gene78924:CDS
AAATCTGCTCCGGCAACCGG+AGG 0.607496 5.3:+18804983 MS.gene78924:CDS
AAGCCACACAGATTCCGTCC+TGG 0.622196 5.3:+18805013 MS.gene78924:CDS
GAAGTGCAACAGTTCCAGGA+CGG 0.690156 5.3:-18805027 None:intergenic
GTTCCAGGACGGAATCTGTG+TGG 0.699556 5.3:-18805016 None:intergenic
ACTGCTCGCAAATCCACCGG+AGG 0.707120 5.3:+18804920 MS.gene78924:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCTTGTTGGTTTGTTTG+AGG + chr5.3:18805198-18805217 MS.gene78924:CDS 30.0%
AGTAACTCTCTTAGCATGAA+TGG - chr5.3:18805239-18805258 None:intergenic 35.0%
!! AAACAGCACTACTTTGGAAT+CGG - chr5.3:18805153-18805172 None:intergenic 35.0%
GAGAGTTACTATCATGCCTA+AGG + chr5.3:18805249-18805268 MS.gene78924:CDS 40.0%
!! AGAGCACTGAACTTCTCATA+AGG + chr5.3:18805071-18805090 MS.gene78924:CDS 40.0%
ACTTGTTCGTGAAATCGCTC+AGG + chr5.3:18805111-18805130 MS.gene78924:CDS 45.0%
CGATTTCACGAACAAGTCTC+TGG - chr5.3:18805108-18805127 None:intergenic 45.0%
GCTGCTGAAGCTTATCTTGT+TGG + chr5.3:18805187-18805206 MS.gene78924:CDS 45.0%
TGAGAAGTTCAGTGCTCTTC+TGG - chr5.3:18805069-18805088 None:intergenic 45.0%
TTCAGCAGCTTCTTGAAGAG+CGG - chr5.3:18805176-18805195 None:intergenic 45.0%
! CGAGCGAGTTGAATATCCTT+AGG - chr5.3:18805268-18805287 None:intergenic 45.0%
! TCACGAACAAGTCTCTGGAA+TGG - chr5.3:18805103-18805122 None:intergenic 45.0%
!!! CTTTCTTGGTGCTTTTCCTC+CGG - chr5.3:18804939-18804958 None:intergenic 45.0%
CAAACTGCTCGCAAATCCAC+CGG + chr5.3:18804917-18804936 MS.gene78924:CDS 50.0%
CAGTGCTCTTCTGGTACTTG+CGG - chr5.3:18805060-18805079 None:intergenic 50.0%
GAAGTGCAACAGTTCCAGGA+CGG - chr5.3:18805030-18805049 None:intergenic 50.0%
GAGCGGAAACAGCACTACTT+TGG - chr5.3:18805159-18805178 None:intergenic 50.0%
TCACGAAGTGCAACAGTTCC+AGG - chr5.3:18805034-18805053 None:intergenic 50.0%
! TTGGTGGCTAGCTGCTTTCT+TGG - chr5.3:18804953-18804972 None:intergenic 50.0%
AAGCCACACAGATTCCGTCC+TGG + chr5.3:18805013-18805032 MS.gene78924:CDS 55.0%
AGCAGATTTCCGGGCAGCTT+TGG - chr5.3:18804972-18804991 None:intergenic 55.0%
CAACTCGCTCGCAGAATCAG+AGG + chr5.3:18805277-18805296 MS.gene78924:CDS 55.0%
GTGTGGCTTCTTGACTCCTC+CGG - chr5.3:18805002-18805021 None:intergenic 55.0%
GTTCCAGGACGGAATCTGTG+TGG - chr5.3:18805019-18805038 None:intergenic 55.0%
TCGCAGAATCAGAGGCGAGA+GGG + chr5.3:18805285-18805304 MS.gene78924:CDS 55.0%
TTCTTGACTCCTCCGGTTGC+CGG - chr5.3:18804995-18805014 None:intergenic 55.0%
! AGATTTCCGGGCAGCTTTGG+TGG - chr5.3:18804969-18804988 None:intergenic 55.0%
!!! TCTTGGTGCTTTTCCTCCGG+TGG - chr5.3:18804936-18804955 None:intergenic 55.0%
AAATCTGCTCCGGCAACCGG+AGG + chr5.3:18804983-18805002 MS.gene78924:CDS 60.0%
ACTGCTCGCAAATCCACCGG+AGG + chr5.3:18804920-18804939 MS.gene78924:CDS 60.0%
AGCTAGCCACCAAAGCTGCC+CGG + chr5.3:18804960-18804979 MS.gene78924:CDS 60.0%
AGCTGCCCGGAAATCTGCTC+CGG + chr5.3:18804973-18804992 MS.gene78924:CDS 60.0%
CGGAAATCTGCTCCGGCAAC+CGG + chr5.3:18804980-18804999 MS.gene78924:CDS 60.0%
CGGTTGCCGGAGCAGATTTC+CGG - chr5.3:18804982-18805001 None:intergenic 60.0%
CTCGCAGAATCAGAGGCGAG+AGG + chr5.3:18805284-18805303 MS.gene78924:CDS 60.0%
GGTTGCCGGAGCAGATTTCC+GGG - chr5.3:18804981-18805000 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr5.3 gene 18804902 18805312 18804902 ID=MS.gene78924
chr5.3 mRNA 18804902 18805312 18804902 ID=MS.gene78924.t1;Parent=MS.gene78924
chr5.3 exon 18804902 18805312 18804902 ID=MS.gene78924.t1.exon1;Parent=MS.gene78924.t1
chr5.3 CDS 18804902 18805312 18804902 ID=cds.MS.gene78924.t1;Parent=MS.gene78924.t1
Gene Sequence

>MS.gene78924

ATGGCTCGTACAAAGCAAACTGCTCGCAAATCCACCGGAGGAAAAGCACCAAGAAAGCAGCTAGCCACCAAAGCTGCCCGGAAATCTGCTCCGGCAACCGGAGGAGTCAAGAAGCCACACAGATTCCGTCCTGGAACTGTTGCACTTCGTGAGATCCGCAAGTACCAGAAGAGCACTGAACTTCTCATAAGGAAGCTTCCATTCCAGAGACTTGTTCGTGAAATCGCTCAGGATTTCAAAACAGATCTCCGATTCCAAAGTAGTGCTGTTTCCGCTCTTCAAGAAGCTGCTGAAGCTTATCTTGTTGGTTTGTTTGAGGATACTAATCTCTGTGCCATTCATGCTAAGAGAGTTACTATCATGCCTAAGGATATTCAACTCGCTCGCAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene78924.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA