AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene038612


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene038612.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene038612.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene038612.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene038612.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene038612.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene038612.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene038612.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene038612.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene038612.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene038612.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene038612.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene038612.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene038612.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene038612.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene038612.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene038612.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene038612.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene038612.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene038612.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene038612.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene038612.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene038612.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene038612.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene038612.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.gene038612.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene038612.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene038612.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene038612.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene038612.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene038612.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene038612.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene038612.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene038612.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene038612.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene038612.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene038612.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene038612.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene038612.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene038612.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene038612.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 41 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAGAAGCCACACCGTTTC+AGG 0.224781 8.3:-38668961 MS.gene038612:CDS
TCACGGAGTGCGACGGTTCC+TGG 0.249130 8.3:+38668938 None:intergenic
TGAGTAGTTCGGTGCTCTTC+TGG 0.344215 8.3:+38668903 None:intergenic
GCGGCGGAGGCTTATCTTGT+TGG 0.386513 8.3:-38668782 MS.gene038612:CDS
CTTCCTTGGTGCTTTGCCGC+CGG 0.391014 8.3:+38669033 None:intergenic
TTTGTTGCGAGTTGCTTCCT+TGG 0.401679 8.3:+38669019 None:intergenic
TTCTTCACTCCGCCGGTCGC+CGG 0.410833 8.3:+38668977 None:intergenic
CCTTGGTGCTTTGCCGCCGG+TGG 0.443251 8.3:+38669036 None:intergenic
TTATCTTGTTGGATTGTTTG+AGG 0.444671 8.3:-38668771 MS.gene038612:CDS
GGCGCTGCAAGAAGCGGCGG+AGG 0.459160 8.3:-38668795 MS.gene038612:CDS
CGGAAATCTGCTCCGGCGAC+CGG 0.465307 8.3:-38668989 MS.gene038612:CDS
CGACGGTTCCTGGCCTGAAA+CGG 0.480580 8.3:+38668948 None:intergenic
GACGCTGGAAAGGAAGCTTC+CGG 0.481198 8.3:+38668879 None:intergenic
CTAGCAAGCTGAATATCCTT+AGG 0.499598 8.3:+38668704 None:intergenic
AAGCCACACCGTTTCAGGCC+AGG 0.512079 8.3:-38668956 MS.gene038612:CDS
CTAAGGATATTCAGCTTGCT+AGG 0.512436 8.3:-38668703 MS.gene038612:CDS
AGCCGCTCGGAAATCTGCTC+CGG 0.521558 8.3:-38668996 MS.gene038612:CDS
AAGCTTCCGGATGAGTAGTT+CGG 0.529555 8.3:+38668892 None:intergenic
ACACAGCAGAGCTCTGAAAA+CGG 0.532576 8.3:+38668819 None:intergenic
GTGTGGCTTCTTCACTCCGC+CGG 0.542673 8.3:+38668970 None:intergenic
CGGTGCTCTTCTGGTACTTG+CGG 0.546004 8.3:+38668912 None:intergenic
GCGTGTTACTATCATGCCTA+AGG 0.550012 8.3:-38668720 MS.gene038612:CDS
AAATCTGCTCCGGCGACCGG+CGG 0.555426 8.3:-38668986 MS.gene038612:CDS
TCTGGTACTTGCGGATCTCA+CGG 0.559013 8.3:+38668921 None:intergenic
AGAGCACCGAACTACTCATC+CGG 0.565108 8.3:-38668898 MS.gene038612:CDS
CAAACTGCACGCAAATCCAC+CGG 0.574254 8.3:-38669052 MS.gene038612:CDS
TCTTGTTCGTGAGATCGCTC+AGG 0.579084 8.3:-38668858 MS.gene038612:CDS
TCACGAACAAGACGCTGGAA+AGG 0.582899 8.3:+38668869 None:intergenic
AACTCGCAACAAAAGCCGCT+CGG 0.592966 8.3:-38669009 MS.gene038612:CDS
CGATCTCACGAACAAGACGC+TGG 0.602860 8.3:+38668864 None:intergenic
TGTGTCGGCGCTGCAAGAAG+CGG 0.603200 8.3:-38668801 MS.gene038612:CDS
GTCGGCGCTGCAAGAAGCGG+CGG 0.613578 8.3:-38668798 MS.gene038612:CDS
AAGATCAAGCACGCTCGCCA+CGG 0.626947 8.3:+38668675 None:intergenic
CCACCGGCGGCAAAGCACCA+AGG 0.632902 8.3:-38669036 MS.gene038612:CDS
GCGGATCTCACGGAGTGCGA+CGG 0.634415 8.3:+38668931 None:intergenic
GTTCCTGGCCTGAAACGGTG+TGG 0.654320 8.3:+38668953 None:intergenic
ACTGCACGCAAATCCACCGG+CGG 0.661692 8.3:-38669049 MS.gene038612:CDS
CAGCTTGCTAGGCGTATCCG+TGG 0.666195 8.3:-38668692 MS.gene038612:CDS
GATCGCTCAGGATTTCAAGA+CGG 0.679659 8.3:-38668846 MS.gene038612:CDS
GCTTAGCATGAATAGCGCAA+AGG 0.690434 8.3:+38668741 None:intergenic
CGCCGGAGCAGATTTCCGAG+CGG 0.721476 8.3:+38668994 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TTATCTTGTTGGATTGTTTG+AGG - chr8.3:38668975-38668994 MS.gene038612:CDS 30.0%
CTAGCAAGCTGAATATCCTT+AGG + chr8.3:38669045-38669064 None:intergenic 40.0%
! CTAAGGATATTCAGCTTGCT+AGG - chr8.3:38669043-38669062 MS.gene038612:CDS 40.0%
AAGCTTCCGGATGAGTAGTT+CGG + chr8.3:38668857-38668876 None:intergenic 45.0%
GATCGCTCAGGATTTCAAGA+CGG - chr8.3:38668900-38668919 MS.gene038612:CDS 45.0%
GCTTAGCATGAATAGCGCAA+AGG + chr8.3:38669008-38669027 None:intergenic 45.0%
TTTGTTGCGAGTTGCTTCCT+TGG + chr8.3:38668730-38668749 None:intergenic 45.0%
! GCGTGTTACTATCATGCCTA+AGG - chr8.3:38669026-38669045 MS.gene038612:CDS 45.0%
! TTTTCAGAGCTCTGCTGTGT+CGG - chr8.3:38668930-38668949 MS.gene038612:CDS 45.0%
!! ACACAGCAGAGCTCTGAAAA+CGG + chr8.3:38668930-38668949 None:intergenic 45.0%
AACTCGCAACAAAAGCCGCT+CGG - chr8.3:38668737-38668756 MS.gene038612:CDS 50.0%
CAAACTGCACGCAAATCCAC+CGG - chr8.3:38668694-38668713 MS.gene038612:CDS 50.0%
TCACGAACAAGACGCTGGAA+AGG + chr8.3:38668880-38668899 None:intergenic 50.0%
TCTGGTACTTGCGGATCTCA+CGG + chr8.3:38668828-38668847 None:intergenic 50.0%
TCTTGTTCGTGAGATCGCTC+AGG - chr8.3:38668888-38668907 MS.gene038612:CDS 50.0%
TGAAGAAGCCACACCGTTTC+AGG - chr8.3:38668785-38668804 MS.gene038612:CDS 50.0%
!! AGAGCACCGAACTACTCATC+CGG - chr8.3:38668848-38668867 MS.gene038612:CDS 50.0%
!! TGAGTAGTTCGGTGCTCTTC+TGG + chr8.3:38668846-38668865 None:intergenic 50.0%
CGATCTCACGAACAAGACGC+TGG + chr8.3:38668885-38668904 None:intergenic 55.0%
CGGTGCTCTTCTGGTACTTG+CGG + chr8.3:38668837-38668856 None:intergenic 55.0%
GACGCTGGAAAGGAAGCTTC+CGG + chr8.3:38668870-38668889 None:intergenic 55.0%
AAGCCACACCGTTTCAGGCC+AGG - chr8.3:38668790-38668809 MS.gene038612:CDS 60.0%
ACTGCACGCAAATCCACCGG+CGG - chr8.3:38668697-38668716 MS.gene038612:CDS 60.0%
AGCCGCTCGGAAATCTGCTC+CGG - chr8.3:38668750-38668769 MS.gene038612:CDS 60.0%
CGACGGTTCCTGGCCTGAAA+CGG + chr8.3:38668801-38668820 None:intergenic 60.0%
GCGGCGGAGGCTTATCTTGT+TGG - chr8.3:38668964-38668983 MS.gene038612:CDS 60.0%
GTGTGGCTTCTTCACTCCGC+CGG + chr8.3:38668779-38668798 None:intergenic 60.0%
GTTCCTGGCCTGAAACGGTG+TGG + chr8.3:38668796-38668815 None:intergenic 60.0%
! TGTGTCGGCGCTGCAAGAAG+CGG - chr8.3:38668945-38668964 MS.gene038612:CDS 60.0%
!! CAGCTTGCTAGGCGTATCCG+TGG - chr8.3:38669054-38669073 MS.gene038612:CDS 60.0%
!! CTTCCTTGGTGCTTTGCCGC+CGG + chr8.3:38668716-38668735 None:intergenic 60.0%
AAATCTGCTCCGGCGACCGG+CGG - chr8.3:38668760-38668779 MS.gene038612:CDS 65.0%
CGCCGGAGCAGATTTCCGAG+CGG + chr8.3:38668755-38668774 None:intergenic 65.0%
CGGAAATCTGCTCCGGCGAC+CGG - chr8.3:38668757-38668776 MS.gene038612:CDS 65.0%
GCGGATCTCACGGAGTGCGA+CGG + chr8.3:38668818-38668837 None:intergenic 65.0%
TCACGGAGTGCGACGGTTCC+TGG + chr8.3:38668811-38668830 None:intergenic 65.0%
TTCTTCACTCCGCCGGTCGC+CGG + chr8.3:38668772-38668791 None:intergenic 65.0%
GTCGGCGCTGCAAGAAGCGG+CGG - chr8.3:38668948-38668967 MS.gene038612:CDS 70.0%
! CCACCGGCGGCAAAGCACCA+AGG - chr8.3:38668710-38668729 MS.gene038612:CDS 70.0%
!! CCTTGGTGCTTTGCCGCCGG+TGG + chr8.3:38668713-38668732 None:intergenic 70.0%
GGCGCTGCAAGAAGCGGCGG+AGG - chr8.3:38668951-38668970 MS.gene038612:CDS 75.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 38668679 38669089 38668679 ID=MS.gene038612
chr8.3 mRNA 38668679 38669089 38668679 ID=MS.gene038612.t1;Parent=MS.gene038612
chr8.3 exon 38668679 38669089 38668679 ID=MS.gene038612.t1.exon1;Parent=MS.gene038612.t1
chr8.3 CDS 38668679 38669089 38668679 ID=cds.MS.gene038612.t1;Parent=MS.gene038612.t1
Gene Sequence

>MS.gene038612

ATGGCACGTACAAAGCAAACTGCACGCAAATCCACCGGCGGCAAAGCACCAAGGAAGCAACTCGCAACAAAAGCCGCTCGGAAATCTGCTCCGGCGACCGGCGGAGTGAAGAAGCCACACCGTTTCAGGCCAGGAACCGTCGCACTCCGTGAGATCCGCAAGTACCAGAAGAGCACCGAACTACTCATCCGGAAGCTTCCTTTCCAGCGTCTTGTTCGTGAGATCGCTCAGGATTTCAAGACGGATCTCCGTTTTCAGAGCTCTGCTGTGTCGGCGCTGCAAGAAGCGGCGGAGGCTTATCTTGTTGGATTGTTTGAGGATACTAACCTTTGCGCTATTCATGCTAAGCGTGTTACTATCATGCCTAAGGATATTCAGCTTGCTAGGCGTATCCGTGGCGAGCGTGCTTGA

Protein sequence

>MS.gene038612.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA