AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28434


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28434.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28434.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene28434.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28434.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28434.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28434.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene28434.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene28434.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene28434.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene28434.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene28434.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene28434.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene28434.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene28434.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene28434.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene28434.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene28434.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene28434.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene28434.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene28434.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene28434.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene28434.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene28434.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene28434.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.gene28434.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28434.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28434.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28434.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28434.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28434.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28434.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene28434.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene28434.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene28434.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene28434.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene28434.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene28434.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28434.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28434.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28434.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
CCTTTGTGGCAAGCTGCTTC+CGG 0.216226 4.4:-8735733 None:intergenic
CTTTGTGGCAAGCTGCTTCC+GGG 0.250177 4.4:-8735732 None:intergenic
CAGTGCTGTTTCTGCTCTTC+AGG 0.258870 4.4:+8735943 MS.gene28434:CDS
TCTTGCAAGTTGAATGTCCT+TGG 0.320782 4.4:-8736047 None:intergenic
TCTCTCAAAGCAACTGTTCC+AGG 0.333816 4.4:-8735812 None:intergenic
CTTGCAAGTTGAATGTCCTT+GGG 0.355623 4.4:-8736046 None:intergenic
GGAAGCTGCTGAAGCTTACT+TGG 0.372633 4.4:+8735964 MS.gene28434:CDS
TGATTTCCGAGCGGCCTTTG+TGG 0.410237 4.4:-8735747 None:intergenic
GAGCAGAAACAGCACTGCTC+TGG 0.422418 4.4:-8735937 None:intergenic
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 4.4:-8735773 None:intergenic
GACGTTGGAATGGAAGTTTA+CGG 0.458530 4.4:-8735871 None:intergenic
CGGAAATCAGCTCCGGCGAC+CGG 0.461897 4.4:+8735761 MS.gene28434:CDS
GGACTTGCGAGCTGTTTGCT+TGG 0.471270 4.4:-8735693 None:intergenic
CCACCGGCGGCAAGGCTCCC+CGG 0.480154 4.4:+8735714 MS.gene28434:CDS
GCTGCTGAAGCTTACTTGGT+TGG 0.483475 4.4:+8735968 MS.gene28434:CDS
GGCCGCTCGGAAATCAGCTC+CGG 0.498921 4.4:+8735754 MS.gene28434:CDS
GTGTGGCTTCTTCACTCCTC+CGG 0.499925 4.4:-8735780 None:intergenic
CAGTGCTCTTCTGATACTTA+CGG 0.501233 4.4:-8735838 None:intergenic
CTTCCGGGGAGCCTTGCCGC+CGG 0.507682 4.4:-8735717 None:intergenic
AGCTTGCCACAAAGGCCGCT+CGG 0.528264 4.4:+8735741 MS.gene28434:CDS
TCGCAAGTCCACCGGCGGCA+AGG 0.530180 4.4:+8735706 MS.gene28434:CDS
CCGGGGAGCCTTGCCGCCGG+TGG 0.548377 4.4:-8735714 None:intergenic
CCGGAAGCAGCTTGCCACAA+AGG 0.551090 4.4:+8735733 MS.gene28434:CDS
TTTGTGGCAAGCTGCTTCCG+GGG 0.553488 4.4:-8735731 None:intergenic
CAAACAGCTCGCAAGTCCAC+CGG 0.573307 4.4:+8735698 MS.gene28434:CDS
AAGAAGAATCAGAGGCGAGA+GGG 0.597241 4.4:+8736066 MS.gene28434:CDS
TCACGAACAAGACGTTGGAA+TGG 0.598115 4.4:-8735881 None:intergenic
AAATCAGCTCCGGCGACCGG+AGG 0.599225 4.4:+8735764 MS.gene28434:CDS
CGATTTCACGAACAAGACGT+TGG 0.613448 4.4:-8735886 None:intergenic
GAGAGTTACAATCATGCCCA+AGG 0.637894 4.4:+8736030 MS.gene28434:CDS
CAAGAAGAATCAGAGGCGAG+AGG 0.648850 4.4:+8736065 MS.gene28434:CDS
ACAGCTCGCAAGTCCACCGG+CGG 0.655092 4.4:+8735701 MS.gene28434:CDS
CAACTTGCAAGAAGAATCAG+AGG 0.655500 4.4:+8736058 MS.gene28434:CDS
AAGCCACACAGATTCAGACC+TGG 0.672238 4.4:+8735794 MS.gene28434:CDS
GTTCCAGGTCTGAATCTGTG+TGG 0.688220 4.4:-8735797 None:intergenic
CGCCGGAGCTGATTTCCGAG+CGG 0.728257 4.4:-8735756 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
CAACTTGCAAGAAGAATCAG+AGG + chr4.4:8736058-8736077 MS.gene28434:CDS 40.0%
CAGTGCTCTTCTGATACTTA+CGG - chr4.4:8735841-8735860 None:intergenic 40.0%
GACGTTGGAATGGAAGTTTA+CGG - chr4.4:8735874-8735893 None:intergenic 40.0%
! CTTGCAAGTTGAATGTCCTT+GGG - chr4.4:8736049-8736068 None:intergenic 40.0%
! TCTTGCAAGTTGAATGTCCT+TGG - chr4.4:8736050-8736069 None:intergenic 40.0%
AAGAAGAATCAGAGGCGAGA+GGG + chr4.4:8736066-8736085 MS.gene28434:CDS 45.0%
CGATTTCACGAACAAGACGT+TGG - chr4.4:8735889-8735908 None:intergenic 45.0%
GAGAGTTACAATCATGCCCA+AGG + chr4.4:8736030-8736049 MS.gene28434:CDS 45.0%
TCACGAACAAGACGTTGGAA+TGG - chr4.4:8735884-8735903 None:intergenic 45.0%
TCTCTCAAAGCAACTGTTCC+AGG - chr4.4:8735815-8735834 None:intergenic 45.0%
AAGCCACACAGATTCAGACC+TGG + chr4.4:8735794-8735813 MS.gene28434:CDS 50.0%
CAAGAAGAATCAGAGGCGAG+AGG + chr4.4:8736065-8736084 MS.gene28434:CDS 50.0%
GCTGCTGAAGCTTACTTGGT+TGG + chr4.4:8735968-8735987 MS.gene28434:CDS 50.0%
GGAAGCTGCTGAAGCTTACT+TGG + chr4.4:8735964-8735983 MS.gene28434:CDS 50.0%
GTTCCAGGTCTGAATCTGTG+TGG - chr4.4:8735800-8735819 None:intergenic 50.0%
!! CAGTGCTGTTTCTGCTCTTC+AGG + chr4.4:8735943-8735962 MS.gene28434:CDS 50.0%
CAAACAGCTCGCAAGTCCAC+CGG + chr4.4:8735698-8735717 MS.gene28434:CDS 55.0%
CCTTTGTGGCAAGCTGCTTC+CGG - chr4.4:8735736-8735755 None:intergenic 55.0%
CTTTGTGGCAAGCTGCTTCC+GGG - chr4.4:8735735-8735754 None:intergenic 55.0%
GAGCAGAAACAGCACTGCTC+TGG - chr4.4:8735940-8735959 None:intergenic 55.0%
GGACTTGCGAGCTGTTTGCT+TGG - chr4.4:8735696-8735715 None:intergenic 55.0%
GTGTGGCTTCTTCACTCCTC+CGG - chr4.4:8735783-8735802 None:intergenic 55.0%
TGATTTCCGAGCGGCCTTTG+TGG - chr4.4:8735750-8735769 None:intergenic 55.0%
TTTGTGGCAAGCTGCTTCCG+GGG - chr4.4:8735734-8735753 None:intergenic 55.0%
AGCTTGCCACAAAGGCCGCT+CGG + chr4.4:8735741-8735760 MS.gene28434:CDS 60.0%
CCGGAAGCAGCTTGCCACAA+AGG + chr4.4:8735733-8735752 MS.gene28434:CDS 60.0%
TTCTTCACTCCTCCGGTCGC+CGG - chr4.4:8735776-8735795 None:intergenic 60.0%
AAATCAGCTCCGGCGACCGG+AGG + chr4.4:8735764-8735783 MS.gene28434:CDS 65.0%
ACAGCTCGCAAGTCCACCGG+CGG + chr4.4:8735701-8735720 MS.gene28434:CDS 65.0%
CGGAAATCAGCTCCGGCGAC+CGG + chr4.4:8735761-8735780 MS.gene28434:CDS 65.0%
GGCCGCTCGGAAATCAGCTC+CGG + chr4.4:8735754-8735773 MS.gene28434:CDS 65.0%
! CGCCGGAGCTGATTTCCGAG+CGG - chr4.4:8735759-8735778 None:intergenic 65.0%
TCGCAAGTCCACCGGCGGCA+AGG + chr4.4:8735706-8735725 MS.gene28434:CDS 70.0%
CTTCCGGGGAGCCTTGCCGC+CGG - chr4.4:8735720-8735739 None:intergenic 75.0%
! CCACCGGCGGCAAGGCTCCC+CGG + chr4.4:8735714-8735733 MS.gene28434:CDS 80.0%
! CCGGGGAGCCTTGCCGCCGG+TGG - chr4.4:8735717-8735736 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 8735683 8736093 8735683 ID=MS.gene28434
chr4.4 mRNA 8735683 8736093 8735683 ID=MS.gene28434.t1;Parent=MS.gene28434
chr4.4 exon 8735683 8736093 8735683 ID=MS.gene28434.t1.exon1;Parent=MS.gene28434.t1
chr4.4 CDS 8735683 8736093 8735683 ID=cds.MS.gene28434.t1;Parent=MS.gene28434.t1
Gene Sequence

>MS.gene28434

ATGGCACGCACCAAGCAAACAGCTCGCAAGTCCACCGGCGGCAAGGCTCCCCGGAAGCAGCTTGCCACAAAGGCCGCTCGGAAATCAGCTCCGGCGACCGGAGGAGTGAAGAAGCCACACAGATTCAGACCTGGAACAGTTGCTTTGAGAGAGATCCGTAAGTATCAGAAGAGCACTGAGCTTCTCATCCGTAAACTTCCATTCCAACGTCTTGTTCGTGAAATCGCTCAAGATTTCAAGACAGATCTTAGATTCCAGAGCAGTGCTGTTTCTGCTCTTCAGGAAGCTGCTGAAGCTTACTTGGTTGGACTATTTGAAGACACAAATCTGTGCGCAATTCATGCTAAGAGAGTTACAATCATGCCCAAGGACATTCAACTTGCAAGAAGAATCAGAGGCGAGAGGGCTTAG

Protein sequence

>MS.gene28434.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA