AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene28432


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene28432.t1 MTR_7g059070 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_5g029820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_5g029770 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_4g065990 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_4g088150 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_2g035230 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_8g092720 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_8g063500 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_8g103245 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_8g092820 100.000 136 0 0 1 136 1 136 4.79e-96 272
MS.gene28432.t1 MTR_7g013610 100.000 136 0 0 1 136 100 235 1.10e-95 275
MS.gene28432.t1 MTR_4g097175 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28432.t1 MTR_1g023630 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28432.t1 MTR_8g061940 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene28432.t1 MTR_8g099430 96.324 136 5 0 1 136 1 136 1.38e-92 264
MS.gene28432.t1 MTR_4g097170 96.324 136 5 0 1 136 42 177 2.29e-91 262
MS.gene28432.t1 MTR_2g082310 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene28432.t1 MTR_2g082340 89.706 136 14 0 1 136 1 136 1.38e-86 248
MS.gene28432.t1 MTR_2g082370 85.616 146 11 1 1 136 1 146 1.74e-82 238
MS.gene28432.t1 MTR_2g082400 84.559 136 19 2 1 135 1 135 6.38e-75 219
MS.gene28432.t1 MTR_7g013600 86.607 112 15 0 25 136 2 113 1.01e-65 195
MS.gene28432.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 6.48e-56 171
MS.gene28432.t1 MTR_1g023630 73.504 117 15 3 1 111 1 107 3.81e-52 160
MS.gene28432.t1 MTR_5g024630 67.241 116 35 2 1 116 1 113 1.63e-45 144
MS.gene28432.t1 MTR_7g023880 58.647 133 41 3 3 134 18 137 5.46e-43 139
MS.gene28432.t1 MTR_5g024530 68.182 110 12 2 19 128 68 154 4.56e-42 137
MS.gene28432.t1 MTR_0197s0100 100.000 66 0 0 1 66 1 66 1.45e-40 132
MS.gene28432.t1 MTR_8g027840 55.102 98 43 1 37 133 28 125 4.83e-30 105
MS.gene28432.t1 MTR_8g105150 53.846 91 10 1 37 127 11 69 1.43e-25 92.4
MS.gene28432.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 4.60e-20 80.9
MS.gene28432.t1 MTR_5g089120 76.190 42 10 0 82 123 6 47 6.07e-18 73.6
MS.gene28432.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.76e-15 66.2
MS.gene28432.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.gene28432.t1 AT5G65360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28432.t1 AT5G10390 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28432.t1 AT5G10400 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28432.t1 AT3G27360 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28432.t1 AT1G09200 99.265 136 1 0 1 136 1 136 1.55e-95 271
MS.gene28432.t1 AT5G10980 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40040 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40030 97.059 136 4 0 1 136 1 136 3.44e-93 265
MS.gene28432.t1 AT4G40030 97.059 136 4 0 1 136 29 164 6.76e-93 266
MS.gene28432.t1 AT5G65350 94.853 136 7 0 1 136 1 136 5.09e-91 260
MS.gene28432.t1 AT1G75600 93.382 136 9 0 1 136 1 136 1.20e-89 256
MS.gene28432.t1 AT1G13370 93.382 136 9 0 1 136 1 136 5.32e-89 254
MS.gene28432.t1 AT1G19890 89.781 137 13 1 1 136 1 137 1.03e-83 241
MS.gene28432.t1 AT5G12910 71.111 135 34 2 1 135 1 130 9.51e-67 198
MS.gene28432.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28432.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28432.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110
MS.gene28432.t1 AT1G01370 53.982 113 49 2 24 134 63 174 2.86e-31 110

Find 38 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTTGGTTGCCAGCTGCTTC+CGG 0.174491 4.4:+8750048 None:intergenic
CGGTCGCCGGAGCTGATTTC+CGG 0.242180 4.4:+8750021 None:intergenic
TTTGGTTGCCAGCTGCTTCC+GGG 0.259335 4.4:+8750049 None:intergenic
AGCTGATTTCCGGGCGGCTT+TGG 0.313671 4.4:+8750031 None:intergenic
TCTCTCAAAGCAACTGTTCC+AGG 0.333816 4.4:+8749969 None:intergenic
CAGTGCTGTATCTGCTCTTC+AGG 0.340320 4.4:-8749838 MS.gene28432:CDS
GGTCGCCGGAGCTGATTTCC+GGG 0.345559 4.4:+8750022 None:intergenic
GGAAGCTGCTGAGGCTTACT+TGG 0.361475 4.4:-8749817 MS.gene28432:CDS
CAAGGCTCCCCGGAAGCAGC+TGG 0.396825 4.4:-8750057 MS.gene28432:CDS
TTCTTCACTCCTCCGGTCGC+CGG 0.442119 4.4:+8750008 None:intergenic
GCTGCTGAGGCTTACTTGGT+TGG 0.450601 4.4:-8749813 MS.gene28432:CDS
GACGTTGGAATGGAAGTTTA+CGG 0.458530 4.4:+8749910 None:intergenic
CTTGCAAGCTGAATGTCCTT+AGG 0.462646 4.4:+8749735 None:intergenic
CGGAAATCAGCTCCGGCGAC+CGG 0.464380 4.4:-8750020 MS.gene28432:CDS
CCACCGGCGGCAAGGCTCCC+CGG 0.480154 4.4:-8750067 MS.gene28432:CDS
TCGCAAGTCCACCGGCGGCA+AGG 0.488583 4.4:-8750075 MS.gene28432:CDS
AGCTGGCAACCAAAGCCGCC+CGG 0.490048 4.4:-8750040 MS.gene28432:CDS
AGCCGCCCGGAAATCAGCTC+CGG 0.497667 4.4:-8750027 MS.gene28432:CDS
GTGTGGCTTCTTCACTCCTC+CGG 0.499925 4.4:+8750001 None:intergenic
CAGTGCTCTTCTGATACTTA+CGG 0.501233 4.4:+8749943 None:intergenic
CTTCCGGGGAGCCTTGCCGC+CGG 0.507682 4.4:+8750064 None:intergenic
TTGGTTGCCAGCTGCTTCCG+GGG 0.508384 4.4:+8750050 None:intergenic
TGCTCTTCAGGAAGCTGCTG+AGG 0.517538 4.4:-8749826 MS.gene28432:CDS
CCGGGGAGCCTTGCCGCCGG+TGG 0.548377 4.4:+8750067 None:intergenic
GGACTTGCGAGCAGTCTGCT+TGG 0.551577 4.4:+8750088 None:intergenic
CAGACTGCTCGCAAGTCCAC+CGG 0.562052 4.4:-8750083 MS.gene28432:CDS
GAGAGTTACAATCATGCCTA+AGG 0.570792 4.4:-8749751 MS.gene28432:CDS
AAGAAGAATCAGAGGAGAGA+GGG 0.573886 4.4:-8749715 MS.gene28432:CDS
TCACGAACAAGACGTTGGAA+TGG 0.591294 4.4:+8749900 None:intergenic
AAATCAGCTCCGGCGACCGG+AGG 0.599225 4.4:-8750017 MS.gene28432:CDS
CAAGAAGAATCAGAGGAGAG+AGG 0.603703 4.4:-8749716 MS.gene28432:CDS
CAATTTCACGAACAAGACGT+TGG 0.614742 4.4:+8749895 None:intergenic
CAGCTTGCAAGAAGAATCAG+AGG 0.621034 4.4:-8749723 MS.gene28432:CDS
AAGATTTCAAGACAGATCTG+AGG 0.632208 4.4:-8749869 MS.gene28432:CDS
ACTGCTCGCAAGTCCACCGG+CGG 0.647164 4.4:-8750080 MS.gene28432:CDS
AAGCCACACAGATTCAGACC+TGG 0.672238 4.4:-8749987 MS.gene28432:CDS
GTTCCAGGTCTGAATCTGTG+TGG 0.688220 4.4:+8749984 None:intergenic
CGCCGGAGCTGATTTCCGGG+CGG 0.701307 4.4:+8750025 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGATTTCAAGACAGATCTG+AGG - chr4.4:8749939-8749958 MS.gene28432:CDS 35.0%
AAGAAGAATCAGAGGAGAGA+GGG - chr4.4:8750093-8750112 MS.gene28432:CDS 40.0%
CAATTTCACGAACAAGACGT+TGG + chr4.4:8749916-8749935 None:intergenic 40.0%
CAGTGCTCTTCTGATACTTA+CGG + chr4.4:8749868-8749887 None:intergenic 40.0%
GACGTTGGAATGGAAGTTTA+CGG + chr4.4:8749901-8749920 None:intergenic 40.0%
GAGAGTTACAATCATGCCTA+AGG - chr4.4:8750057-8750076 MS.gene28432:CDS 40.0%
CAAGAAGAATCAGAGGAGAG+AGG - chr4.4:8750092-8750111 MS.gene28432:CDS 45.0%
CAGCTTGCAAGAAGAATCAG+AGG - chr4.4:8750085-8750104 MS.gene28432:CDS 45.0%
CTTGCAAGCTGAATGTCCTT+AGG + chr4.4:8750076-8750095 None:intergenic 45.0%
TCACGAACAAGACGTTGGAA+TGG + chr4.4:8749911-8749930 None:intergenic 45.0%
TCTCTCAAAGCAACTGTTCC+AGG + chr4.4:8749842-8749861 None:intergenic 45.0%
AAGCCACACAGATTCAGACC+TGG - chr4.4:8749821-8749840 MS.gene28432:CDS 50.0%
CAGTGCTGTATCTGCTCTTC+AGG - chr4.4:8749970-8749989 MS.gene28432:CDS 50.0%
GTTCCAGGTCTGAATCTGTG+TGG + chr4.4:8749827-8749846 None:intergenic 50.0%
CTTTGGTTGCCAGCTGCTTC+CGG + chr4.4:8749763-8749782 None:intergenic 55.0%
GCTGCTGAGGCTTACTTGGT+TGG - chr4.4:8749995-8750014 MS.gene28432:CDS 55.0%
GGAAGCTGCTGAGGCTTACT+TGG - chr4.4:8749991-8750010 MS.gene28432:CDS 55.0%
GTGTGGCTTCTTCACTCCTC+CGG + chr4.4:8749810-8749829 None:intergenic 55.0%
TGCTCTTCAGGAAGCTGCTG+AGG - chr4.4:8749982-8750001 MS.gene28432:CDS 55.0%
TTTGGTTGCCAGCTGCTTCC+GGG + chr4.4:8749762-8749781 None:intergenic 55.0%
CAGACTGCTCGCAAGTCCAC+CGG - chr4.4:8749725-8749744 MS.gene28432:CDS 60.0%
GGACTTGCGAGCAGTCTGCT+TGG + chr4.4:8749723-8749742 None:intergenic 60.0%
TTCTTCACTCCTCCGGTCGC+CGG + chr4.4:8749803-8749822 None:intergenic 60.0%
TTGGTTGCCAGCTGCTTCCG+GGG + chr4.4:8749761-8749780 None:intergenic 60.0%
! AGCTGATTTCCGGGCGGCTT+TGG + chr4.4:8749780-8749799 None:intergenic 60.0%
AAATCAGCTCCGGCGACCGG+AGG - chr4.4:8749791-8749810 MS.gene28432:CDS 65.0%
ACTGCTCGCAAGTCCACCGG+CGG - chr4.4:8749728-8749747 MS.gene28432:CDS 65.0%
AGCCGCCCGGAAATCAGCTC+CGG - chr4.4:8749781-8749800 MS.gene28432:CDS 65.0%
AGCTGGCAACCAAAGCCGCC+CGG - chr4.4:8749768-8749787 MS.gene28432:CDS 65.0%
CGGAAATCAGCTCCGGCGAC+CGG - chr4.4:8749788-8749807 MS.gene28432:CDS 65.0%
! CGGTCGCCGGAGCTGATTTC+CGG + chr4.4:8749790-8749809 None:intergenic 65.0%
! GGTCGCCGGAGCTGATTTCC+GGG + chr4.4:8749789-8749808 None:intergenic 65.0%
CAAGGCTCCCCGGAAGCAGC+TGG - chr4.4:8749751-8749770 MS.gene28432:CDS 70.0%
TCGCAAGTCCACCGGCGGCA+AGG - chr4.4:8749733-8749752 MS.gene28432:CDS 70.0%
! CGCCGGAGCTGATTTCCGGG+CGG + chr4.4:8749786-8749805 None:intergenic 70.0%
CTTCCGGGGAGCCTTGCCGC+CGG + chr4.4:8749747-8749766 None:intergenic 75.0%
! CCACCGGCGGCAAGGCTCCC+CGG - chr4.4:8749741-8749760 MS.gene28432:CDS 80.0%
! CCGGGGAGCCTTGCCGCCGG+TGG + chr4.4:8749744-8749763 None:intergenic 85.0%


Chromosome Type Strat End Strand Name
chr4.4 gene 8749710 8750120 8749710 ID=MS.gene28432
chr4.4 mRNA 8749710 8750120 8749710 ID=MS.gene28432.t1;Parent=MS.gene28432
chr4.4 exon 8749710 8750120 8749710 ID=MS.gene28432.t1.exon1;Parent=MS.gene28432.t1
chr4.4 CDS 8749710 8750120 8749710 ID=cds.MS.gene28432.t1;Parent=MS.gene28432.t1
Gene Sequence

>MS.gene28432

ATGGCACGTACCAAGCAGACTGCTCGCAAGTCCACCGGCGGCAAGGCTCCCCGGAAGCAGCTGGCAACCAAAGCCGCCCGGAAATCAGCTCCGGCGACCGGAGGAGTGAAGAAGCCACACAGATTCAGACCTGGAACAGTTGCTTTGAGAGAGATCCGTAAGTATCAGAAGAGCACTGAGCTTCTCATCCGTAAACTTCCATTCCAACGTCTTGTTCGTGAAATTGCTCAAGATTTCAAGACAGATCTGAGGTTTCAGAGCAGTGCTGTATCTGCTCTTCAGGAAGCTGCTGAGGCTTACTTGGTTGGTCTCTTTGAAGACACAAATCTGTGCGCAATTCATGCTAAGAGAGTTACAATCATGCCTAAGGACATTCAGCTTGCAAGAAGAATCAGAGGAGAGAGGGCTTAG

Protein sequence

>MS.gene28432.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPATGGVKKPHRFRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSSAVSALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA