AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05905


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05905.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene05905.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene05905.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene05905.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene05905.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene05905.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene05905.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene05905.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene05905.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene05905.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene05905.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene05905.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene05905.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene05905.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene05905.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene05905.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene05905.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene05905.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene05905.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene05905.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene05905.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene05905.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene05905.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene05905.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.gene05905.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene05905.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene05905.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene05905.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene05905.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene05905.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene05905.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene05905.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene05905.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene05905.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene05905.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene05905.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene05905.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene05905.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene05905.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene05905.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
CGATTTCTCTAACCAATCTT+TGG 0.224743 4.4:-3129964 None:intergenic
GCCGCTGAAGCTTATCTTGT+TGG 0.348800 4.4:+3130046 MS.gene05905:CDS
TTGAATATCCTTAGGCATAA+TGG 0.349539 4.4:-3130116 None:intergenic
AGCTGATTTCCGAGCGGCTT+TGG 0.355177 4.4:-3129828 None:intergenic
TTCTTCACTCCTCCGGTGGC+TGG 0.371943 4.4:-3129851 None:intergenic
TCACGAAGAGCAACAGTTCC+AGG 0.402245 4.4:-3129890 None:intergenic
GAAGCTTCCATTCCAAAGAT+TGG 0.412914 4.4:+3129952 MS.gene05905:CDS
CTTGCAAGTTGAATATCCTT+AGG 0.413826 4.4:-3130124 None:intergenic
AGGATTTCAAAACTGATCTC+AGG 0.429009 4.4:+3129990 MS.gene05905:CDS
GGATTTGCGAGCGGTTTGTT+TGG 0.441284 4.4:-3129771 None:intergenic
AGAGCACTGAGCTTCTCATC+AGG 0.458709 4.4:+3129930 MS.gene05905:CDS
TTGGTGGCGAGTTGTTTCCT+TGG 0.473034 4.4:-3129809 None:intergenic
GGCTTCTTGAAGAGCAGAAA+CGG 0.474881 4.4:-3130026 None:intergenic
TTTCCTTGGAGCTTTGCCTC+CGG 0.476973 4.4:-3129795 None:intergenic
CCTTGGAGCTTTGCCTCCGG+TGG 0.489182 4.4:-3129792 None:intergenic
TGATTTCCGAGCGGCTTTGG+TGG 0.495094 4.4:-3129825 None:intergenic
GTGTGGCTTCTTCACTCCTC+CGG 0.509508 4.4:-3129858 None:intergenic
TCTCTAACCAATCTTTGGAA+TGG 0.520211 4.4:-3129959 None:intergenic
CGGAAATCAGCTCCAGCCAC+CGG 0.530295 4.4:+3129839 MS.gene05905:CDS
GAGAGTTACCATTATGCCTA+AGG 0.535535 4.4:+3130108 MS.gene05905:CDS
AACTCGCCACCAAAGCCGCT+CGG 0.570459 4.4:+3129819 MS.gene05905:CDS
CCACCGGAGGCAAAGCTCCA+AGG 0.572363 4.4:+3129792 MS.gene05905:CDS
CAGTGCTCTTCTGATACTTG+CGG 0.590815 4.4:-3129916 None:intergenic
AAGAAGAATCAGAGGCGAGA+GGG 0.597241 4.4:+3130144 MS.gene05905:CDS
ATTGGTTAGAGAAATCGCTC+AGG 0.600201 4.4:+3129970 MS.gene05905:CDS
AGCATGAATAGCGCAAAGGT+TGG 0.613099 4.4:-3130083 None:intergenic
AAGCCACACAGATTCCGTCC+TGG 0.622196 4.4:+3129872 MS.gene05905:CDS
CAAACCGCTCGCAAATCCAC+CGG 0.629023 4.4:+3129776 MS.gene05905:CDS
TGGCTTCTTCACTCCTCCGG+TGG 0.631443 4.4:-3129855 None:intergenic
AAATCAGCTCCAGCCACCGG+AGG 0.637716 4.4:+3129842 MS.gene05905:CDS
GCCTCCGGTGGATTTGCGAG+CGG 0.639769 4.4:-3129780 None:intergenic
ACCGCTCGCAAATCCACCGG+AGG 0.648108 4.4:+3129779 MS.gene05905:CDS
CAAGAAGAATCAGAGGCGAG+AGG 0.648850 4.4:+3130143 MS.gene05905:CDS
TCTTAGCATGAATAGCGCAA+AGG 0.658330 4.4:-3130087 None:intergenic
CAACTTGCAAGAAGAATCAG+AGG 0.660238 4.4:+3130136 MS.gene05905:CDS
ACCAACAAGATAAGCTTCAG+CGG 0.667251 4.4:-3130047 None:intergenic
GAAGAGCAACAGTTCCAGGA+CGG 0.681197 4.4:-3129886 None:intergenic
GTTCCAGGACGGAATCTGTG+TGG 0.699556 4.4:-3129875 None:intergenic
GGCTGGAGCTGATTTCCGAG+CGG 0.733993 4.4:-3129834 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTGAATATCCTTAGGCATAA+TGG - chr4.4:3130119-3130138 None:intergenic 30.0%
AGGATTTCAAAACTGATCTC+AGG + chr4.4:3129990-3130009 MS.gene05905:CDS 35.0%
CGATTTCTCTAACCAATCTT+TGG - chr4.4:3129967-3129986 None:intergenic 35.0%
! CTTGCAAGTTGAATATCCTT+AGG - chr4.4:3130127-3130146 None:intergenic 35.0%
! TCTCTAACCAATCTTTGGAA+TGG - chr4.4:3129962-3129981 None:intergenic 35.0%
ACCAACAAGATAAGCTTCAG+CGG - chr4.4:3130050-3130069 None:intergenic 40.0%
ATTGGTTAGAGAAATCGCTC+AGG + chr4.4:3129970-3129989 MS.gene05905:CDS 40.0%
CAACTTGCAAGAAGAATCAG+AGG + chr4.4:3130136-3130155 MS.gene05905:CDS 40.0%
GAAGCTTCCATTCCAAAGAT+TGG + chr4.4:3129952-3129971 MS.gene05905:CDS 40.0%
GAGAGTTACCATTATGCCTA+AGG + chr4.4:3130108-3130127 MS.gene05905:CDS 40.0%
TCTTAGCATGAATAGCGCAA+AGG - chr4.4:3130090-3130109 None:intergenic 40.0%
AAGAAGAATCAGAGGCGAGA+GGG + chr4.4:3130144-3130163 MS.gene05905:CDS 45.0%
AGCATGAATAGCGCAAAGGT+TGG - chr4.4:3130086-3130105 None:intergenic 45.0%
CAGTGCTCTTCTGATACTTG+CGG - chr4.4:3129919-3129938 None:intergenic 45.0%
GGCTTCTTGAAGAGCAGAAA+CGG - chr4.4:3130029-3130048 None:intergenic 45.0%
CAAGAAGAATCAGAGGCGAG+AGG + chr4.4:3130143-3130162 MS.gene05905:CDS 50.0%
GAAGAGCAACAGTTCCAGGA+CGG - chr4.4:3129889-3129908 None:intergenic 50.0%
GCCGCTGAAGCTTATCTTGT+TGG + chr4.4:3130046-3130065 MS.gene05905:CDS 50.0%
TCACGAAGAGCAACAGTTCC+AGG - chr4.4:3129893-3129912 None:intergenic 50.0%
TTTCCTTGGAGCTTTGCCTC+CGG - chr4.4:3129798-3129817 None:intergenic 50.0%
! GGATTTGCGAGCGGTTTGTT+TGG - chr4.4:3129774-3129793 None:intergenic 50.0%
!! AGAGCACTGAGCTTCTCATC+AGG + chr4.4:3129930-3129949 MS.gene05905:CDS 50.0%
!! TTGGTGGCGAGTTGTTTCCT+TGG - chr4.4:3129812-3129831 None:intergenic 50.0%
AAGCCACACAGATTCCGTCC+TGG + chr4.4:3129872-3129891 MS.gene05905:CDS 55.0%
CAAACCGCTCGCAAATCCAC+CGG + chr4.4:3129776-3129795 MS.gene05905:CDS 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.4:3129861-3129880 None:intergenic 55.0%
GTTCCAGGACGGAATCTGTG+TGG - chr4.4:3129878-3129897 None:intergenic 55.0%
! AGCTGATTTCCGAGCGGCTT+TGG - chr4.4:3129831-3129850 None:intergenic 55.0%
! TGATTTCCGAGCGGCTTTGG+TGG - chr4.4:3129828-3129847 None:intergenic 55.0%
AAATCAGCTCCAGCCACCGG+AGG + chr4.4:3129842-3129861 MS.gene05905:CDS 60.0%
AACTCGCCACCAAAGCCGCT+CGG + chr4.4:3129819-3129838 MS.gene05905:CDS 60.0%
CGGAAATCAGCTCCAGCCAC+CGG + chr4.4:3129839-3129858 MS.gene05905:CDS 60.0%
TGGCTTCTTCACTCCTCCGG+TGG - chr4.4:3129858-3129877 None:intergenic 60.0%
TTCTTCACTCCTCCGGTGGC+TGG - chr4.4:3129854-3129873 None:intergenic 60.0%
! GGCTGGAGCTGATTTCCGAG+CGG - chr4.4:3129837-3129856 None:intergenic 60.0%
ACCGCTCGCAAATCCACCGG+AGG + chr4.4:3129779-3129798 MS.gene05905:CDS 65.0%
CCACCGGAGGCAAAGCTCCA+AGG + chr4.4:3129792-3129811 MS.gene05905:CDS 65.0%
CCTTGGAGCTTTGCCTCCGG+TGG - chr4.4:3129795-3129814 None:intergenic 65.0%
! GCCTCCGGTGGATTTGCGAG+CGG - chr4.4:3129783-3129802 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 3129761 3130171 3129761 ID=MS.gene05905
chr4.4 mRNA 3129761 3130171 3129761 ID=MS.gene05905.t1;Parent=MS.gene05905
chr4.4 exon 3129761 3130171 3129761 ID=MS.gene05905.t1.exon1;Parent=MS.gene05905.t1
chr4.4 CDS 3129761 3130171 3129761 ID=cds.MS.gene05905.t1;Parent=MS.gene05905.t1
Gene Sequence

>MS.gene05905

ATGGCTCGTACCAAACAAACCGCTCGCAAATCCACCGGAGGCAAAGCTCCAAGGAAACAACTCGCCACCAAAGCCGCTCGGAAATCAGCTCCAGCCACCGGAGGAGTGAAGAAGCCACACAGATTCCGTCCTGGAACTGTTGCTCTTCGTGAGATCCGCAAGTATCAGAAGAGCACTGAGCTTCTCATCAGGAAGCTTCCATTCCAAAGATTGGTTAGAGAAATCGCTCAGGATTTCAAAACTGATCTCAGGTTTCAGAGTAGCGCCGTTTCTGCTCTTCAAGAAGCCGCTGAAGCTTATCTTGTTGGTTTGTTTGAAGATACCAACCTTTGCGCTATTCATGCTAAGAGAGTTACCATTATGCCTAAGGATATTCAACTTGCAAGAAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene05905.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA