AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067716

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067716.t1 MTR_4g053440 92.982 171 8 2 1 168 1 170 5.51e-114 320
MS.gene067716.t1 MTR_2g086190 56.725 171 50 5 1 168 1 150 4.26e-58 178
MS.gene067716.t1 MTR_7g104320 51.124 178 67 4 1 168 1 168 7.31e-58 178
MS.gene067716.t1 MTR_1g060380 47.674 172 70 3 1 168 1 156 1.64e-46 149
MS.gene067716.t1 MTR_2g098160 41.279 172 84 4 7 168 8 172 3.35e-41 136
MS.gene067716.t1 MTR_0249s0070 41.420 169 92 4 3 168 5 169 1.14e-39 132
MS.gene067716.t1 MTR_0249s0070 41.420 169 92 4 3 168 13 177 1.26e-39 132
MS.gene067716.t1 MTR_7g092400 41.520 171 92 3 3 168 93 260 4.79e-37 128
MS.gene067716.t1 MTR_7g114920 39.355 155 63 4 13 165 5 130 1.36e-31 110
MS.gene067716.t1 MTR_4g065570 40.141 142 78 2 28 168 2 137 1.45e-31 110
MS.gene067716.t1 MTR_1g100773 37.908 153 75 4 13 165 5 137 2.25e-29 105
MS.gene067716.t1 MTR_3g028010 32.051 156 86 3 13 168 28 163 1.36e-23 91.3
MS.gene067716.t1 MTR_8g036980 56.452 62 27 0 107 168 90 151 1.75e-22 88.2
MS.gene067716.t1 MTR_2g054650 37.013 154 61 6 13 165 6 124 3.21e-19 79.0
MS.gene067716.t1 MTR_3g025570 54.545 44 20 0 103 146 4 47 5.98e-12 59.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067716.t1 AT2G27580 56.069 173 61 3 1 168 1 163 1.66e-55 172
MS.gene067716.t1 AT2G27580 56.069 173 61 3 1 168 1 163 1.66e-55 172
MS.gene067716.t1 AT2G36320 48.256 172 74 3 1 168 1 161 6.72e-50 158
MS.gene067716.t1 AT1G12440 47.134 157 78 2 12 168 17 168 5.57e-45 146
MS.gene067716.t1 AT1G12440 47.134 157 78 2 12 168 17 168 5.57e-45 146
MS.gene067716.t1 AT1G12440 47.134 157 78 2 12 168 17 168 5.57e-45 146
MS.gene067716.t1 AT3G52800 49.425 174 78 3 1 168 1 170 2.28e-44 144
MS.gene067716.t1 AT3G52800 49.425 174 78 3 1 168 1 170 2.28e-44 144
MS.gene067716.t1 AT4G12040 46.061 165 75 5 12 168 17 175 3.87e-42 139
MS.gene067716.t1 AT4G12040 46.061 165 75 5 12 168 17 175 3.87e-42 139
MS.gene067716.t1 AT4G22820 42.945 163 81 2 12 168 20 176 1.81e-41 137
MS.gene067716.t1 AT4G22820 42.945 163 81 2 12 168 20 176 1.81e-41 137
MS.gene067716.t1 AT1G51200 45.062 162 80 4 12 168 16 173 1.57e-38 129
MS.gene067716.t1 AT1G51200 45.062 162 80 4 12 168 16 173 1.57e-38 129
MS.gene067716.t1 AT1G51200 45.062 162 80 4 12 168 16 173 1.57e-38 129
MS.gene067716.t1 AT1G51200 45.062 162 80 4 12 168 16 173 1.57e-38 129
MS.gene067716.t1 AT3G12630 33.766 154 74 4 19 168 31 160 4.67e-24 92.4
MS.gene067716.t1 AT4G25380 33.548 155 69 5 14 168 10 130 3.57e-22 86.7
MS.gene067716.t1 AT4G14225 32.484 157 67 3 13 168 7 125 6.85e-20 80.5

Find 51 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACGTTCTTCATCTGCAAAAT+TGG 0.253435 4.2:+48952501 MS.gene067716:CDS
TTGGTAGCAGCTGCTGCTGC+TGG 0.317391 4.2:+48952637 MS.gene067716:CDS
GCTAACAACTGCGGTTTCTT+TGG 0.331458 4.2:+48952418 MS.gene067716:CDS
AGCTGCTGCTGCTGGACCTT+CGG 0.364840 4.2:+48952645 MS.gene067716:CDS
CTGCAAATCACGGTAACATT+TGG 0.366800 4.2:-48952467 None:intergenic
AGCTTCTCTCCCTTCACCAC+TGG 0.384998 4.2:-48952847 None:intergenic
CACCTATTCGGCTGAACCTT+CGG 0.394413 4.2:-48952679 None:intergenic
AACCCACAACCGTGCTGCTC+TGG 0.397126 4.2:-48952781 None:intergenic
CTGCATGTCCCACACCTATT+CGG 0.411935 4.2:-48952691 None:intergenic
TATCCAGAGCAGCACGGTTG+TGG 0.413974 4.2:+48952778 MS.gene067716:CDS
TGGGACATGCAGACGGCGCG+TGG 0.435856 4.2:+48952702 MS.gene067716:CDS
CTCCGAAGGTTCAGCCGAAT+AGG 0.450701 4.2:+48952677 MS.gene067716:CDS
GAACAAAGATCTTGCATGGC+AGG 0.456135 4.2:-48952445 None:intergenic
AGACGGCGCGTGGGGCTGAC+AGG 0.473736 4.2:+48952712 MS.gene067716:CDS
ACTGTTGAGAAATCAACGTT+TGG 0.474698 4.2:-48952531 None:intergenic
ATCTACACCGTCGGTGGAGT+TGG 0.485728 4.2:+48952618 MS.gene067716:CDS
ATCCAGAGCAGCACGGTTGT+GGG 0.506412 4.2:+48952779 MS.gene067716:CDS
TTACCGTGATTTGCAGATGA+AGG 0.514621 4.2:+48952474 MS.gene067716:CDS
TGCTGCTGCTGGACCTTCGG+AGG 0.533143 4.2:+48952648 MS.gene067716:CDS
ACTACAACCGACGGTGGAGA+TGG 0.535288 4.2:-48952589 None:intergenic
GAAGGCGAATCCAGTGGTGA+AGG 0.546816 4.2:+48952837 MS.gene067716:CDS
TGACGTTGTGTGGGACCCAC+AGG 0.547943 4.2:+48952755 MS.gene067716:CDS
CAGGATTTAAGTGTCGGTGC+GGG 0.548307 4.2:+48952731 MS.gene067716:CDS
CGGTGCGGGTTGACGTTGTG+TGG 0.556113 4.2:+48952745 MS.gene067716:CDS
GGCTGACAGGATTTAAGTGT+CGG 0.567077 4.2:+48952725 MS.gene067716:CDS
TTCTTCATCTACACCGTCGG+TGG 0.570610 4.2:+48952612 MS.gene067716:CDS
AAGGTTCAGCCGAATAGGTG+TGG 0.577700 4.2:+48952682 MS.gene067716:CDS
GGGACATGCAGACGGCGCGT+GGG 0.582538 4.2:+48952703 MS.gene067716:CDS
TTTGGAACAAAGATCTTGCA+TGG 0.583675 4.2:-48952449 None:intergenic
CGTGCTGCTCTGGATACCTG+TGG 0.592216 4.2:-48952771 None:intergenic
GGACATGCAGACGGCGCGTG+GGG 0.594994 4.2:+48952704 MS.gene067716:CDS
TTCGGAGGCTGAACCTCCGA+AGG 0.599093 4.2:+48952663 MS.gene067716:CDS
TTCGGAGGTTCAGCCTCCGA+AGG 0.601392 4.2:-48952661 None:intergenic
GTTCCTTCATCTGCAAATCA+CGG 0.602813 4.2:-48952477 None:intergenic
GCTGCTACCAACTCCACCGA+CGG 0.606305 4.2:-48952625 None:intergenic
TATTCATCCATCTCCACCGT+CGG 0.610000 4.2:+48952582 MS.gene067716:CDS
AAGGCGAATCCAGTGGTGAA+GGG 0.610190 4.2:+48952838 MS.gene067716:CDS
AGTTTCTTCATCTACACCGT+CGG 0.614293 4.2:+48952609 MS.gene067716:CDS
ACAGGATTTAAGTGTCGGTG+CGG 0.618927 4.2:+48952730 MS.gene067716:CDS
AGGTTCAGCCGAATAGGTGT+GGG 0.622585 4.2:+48952683 MS.gene067716:CDS
ATAGGTGTGGGACATGCAGA+CGG 0.622886 4.2:+48952695 MS.gene067716:CDS
TAATTCTTCTTGTCTAGACA+CGG 0.623144 4.2:+48952555 MS.gene067716:CDS
GGTGCGGGTTGACGTTGTGT+GGG 0.623964 4.2:+48952746 MS.gene067716:CDS
GGGAAGGGAGGAAATCAAGA+AGG 0.646119 4.2:+48952819 MS.gene067716:CDS
GTGCTGCTCTGGATACCTGT+GGG 0.649764 4.2:-48952770 None:intergenic
CTATTCGGCTGAACCTTCGG+AGG 0.656302 4.2:-48952676 None:intergenic
AATCAAGAAGGCGAATCCAG+TGG 0.674327 4.2:+48952831 MS.gene067716:CDS
CACAGGTATCCAGAGCAGCA+CGG 0.679673 4.2:+48952772 MS.gene067716:CDS
GATGAAGAAACTACAACCGA+CGG 0.679990 4.2:-48952598 None:intergenic
CGTCTCTGTGCTAACAACTG+CGG 0.696402 4.2:+48952409 MS.gene067716:CDS
GAAGAAACTACAACCGACGG+TGG 0.716652 4.2:-48952595 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TAATTCTTCTTGTCTAGACA+CGG + chr4.2:48952555-48952574 MS.gene067716:CDS 30.0%
ACGTTCTTCATCTGCAAAAT+TGG + chr4.2:48952501-48952520 MS.gene067716:CDS 35.0%
ACTGTTGAGAAATCAACGTT+TGG - chr4.2:48952534-48952553 None:intergenic 35.0%
! TTTGGAACAAAGATCTTGCA+TGG - chr4.2:48952452-48952471 None:intergenic 35.0%
!! GGTTGTGGGTTTGATTTTAA+GGG + chr4.2:48952793-48952812 MS.gene067716:CDS 35.0%
!! GTTGTGGGTTTGATTTTAAG+GGG + chr4.2:48952794-48952813 MS.gene067716:CDS 35.0%
AGTTTCTTCATCTACACCGT+CGG + chr4.2:48952609-48952628 MS.gene067716:CDS 40.0%
CTGCAAATCACGGTAACATT+TGG - chr4.2:48952470-48952489 None:intergenic 40.0%
GATGAAGAAACTACAACCGA+CGG - chr4.2:48952601-48952620 None:intergenic 40.0%
GTTCCTTCATCTGCAAATCA+CGG - chr4.2:48952480-48952499 None:intergenic 40.0%
! TTACCGTGATTTGCAGATGA+AGG + chr4.2:48952474-48952493 MS.gene067716:CDS 40.0%
!! CGGTTGTGGGTTTGATTTTA+AGG + chr4.2:48952792-48952811 MS.gene067716:CDS 40.0%
!! GGGTTTGATTTTAAGGGGAT+GGG + chr4.2:48952799-48952818 MS.gene067716:CDS 40.0%
!! TGATTTTAAGGGGATGGGAA+GGG + chr4.2:48952804-48952823 MS.gene067716:CDS 40.0%
!! TGGGTTTGATTTTAAGGGGA+TGG + chr4.2:48952798-48952817 MS.gene067716:CDS 40.0%
!! TTGATTTTAAGGGGATGGGA+AGG + chr4.2:48952803-48952822 MS.gene067716:CDS 40.0%
AATCAAGAAGGCGAATCCAG+TGG + chr4.2:48952831-48952850 MS.gene067716:CDS 45.0%
GAACAAAGATCTTGCATGGC+AGG - chr4.2:48952448-48952467 None:intergenic 45.0%
GCTAACAACTGCGGTTTCTT+TGG + chr4.2:48952418-48952437 MS.gene067716:CDS 45.0%
GGCTGACAGGATTTAAGTGT+CGG + chr4.2:48952725-48952744 MS.gene067716:CDS 45.0%
TATTCATCCATCTCCACCGT+CGG + chr4.2:48952582-48952601 MS.gene067716:CDS 45.0%
!! ACAGGATTTAAGTGTCGGTG+CGG + chr4.2:48952730-48952749 MS.gene067716:CDS 45.0%
AAGGCGAATCCAGTGGTGAA+GGG + chr4.2:48952838-48952857 MS.gene067716:CDS 50.0%
AAGGTTCAGCCGAATAGGTG+TGG + chr4.2:48952682-48952701 MS.gene067716:CDS 50.0%
AGGTTCAGCCGAATAGGTGT+GGG + chr4.2:48952683-48952702 MS.gene067716:CDS 50.0%
ATAGGTGTGGGACATGCAGA+CGG + chr4.2:48952695-48952714 MS.gene067716:CDS 50.0%
CACCTATTCGGCTGAACCTT+CGG - chr4.2:48952682-48952701 None:intergenic 50.0%
CGTCTCTGTGCTAACAACTG+CGG + chr4.2:48952409-48952428 MS.gene067716:CDS 50.0%
CTGCATGTCCCACACCTATT+CGG - chr4.2:48952694-48952713 None:intergenic 50.0%
GAAGAAACTACAACCGACGG+TGG - chr4.2:48952598-48952617 None:intergenic 50.0%
GGGAAGGGAGGAAATCAAGA+AGG + chr4.2:48952819-48952838 MS.gene067716:CDS 50.0%
TTCTTCATCTACACCGTCGG+TGG + chr4.2:48952612-48952631 MS.gene067716:CDS 50.0%
!! CAGGATTTAAGTGTCGGTGC+GGG + chr4.2:48952731-48952750 MS.gene067716:CDS 50.0%
!! TTTTAAGGGGATGGGAAGGG+AGG + chr4.2:48952807-48952826 MS.gene067716:CDS 50.0%
ACTACAACCGACGGTGGAGA+TGG - chr4.2:48952592-48952611 None:intergenic 55.0%
AGCTTCTCTCCCTTCACCAC+TGG - chr4.2:48952850-48952869 None:intergenic 55.0%
ATCCAGAGCAGCACGGTTGT+GGG + chr4.2:48952779-48952798 MS.gene067716:CDS 55.0%
ATCTACACCGTCGGTGGAGT+TGG + chr4.2:48952618-48952637 MS.gene067716:CDS 55.0%
CACAGGTATCCAGAGCAGCA+CGG + chr4.2:48952772-48952791 MS.gene067716:CDS 55.0%
CTATTCGGCTGAACCTTCGG+AGG - chr4.2:48952679-48952698 None:intergenic 55.0%
CTCCGAAGGTTCAGCCGAAT+AGG + chr4.2:48952677-48952696 MS.gene067716:CDS 55.0%
GAAGGCGAATCCAGTGGTGA+AGG + chr4.2:48952837-48952856 MS.gene067716:CDS 55.0%
TATCCAGAGCAGCACGGTTG+TGG + chr4.2:48952778-48952797 MS.gene067716:CDS 55.0%
! GTGCTGCTCTGGATACCTGT+GGG - chr4.2:48952773-48952792 None:intergenic 55.0%
AGCTGCTGCTGCTGGACCTT+CGG + chr4.2:48952645-48952664 MS.gene067716:CDS 60.0%
GCTGCTACCAACTCCACCGA+CGG - chr4.2:48952628-48952647 None:intergenic 60.0%
TGACGTTGTGTGGGACCCAC+AGG + chr4.2:48952755-48952774 MS.gene067716:CDS 60.0%
TTCGGAGGCTGAACCTCCGA+AGG + chr4.2:48952663-48952682 MS.gene067716:CDS 60.0%
TTCGGAGGTTCAGCCTCCGA+AGG - chr4.2:48952664-48952683 None:intergenic 60.0%
! AACCCACAACCGTGCTGCTC+TGG - chr4.2:48952784-48952803 None:intergenic 60.0%
! CGTGCTGCTCTGGATACCTG+TGG - chr4.2:48952774-48952793 None:intergenic 60.0%
! GGTGCGGGTTGACGTTGTGT+GGG + chr4.2:48952746-48952765 MS.gene067716:CDS 60.0%
! TTGGTAGCAGCTGCTGCTGC+TGG + chr4.2:48952637-48952656 MS.gene067716:CDS 60.0%
TGCTGCTGCTGGACCTTCGG+AGG + chr4.2:48952648-48952667 MS.gene067716:CDS 65.0%
! CGGTGCGGGTTGACGTTGTG+TGG + chr4.2:48952745-48952764 MS.gene067716:CDS 65.0%
GGACATGCAGACGGCGCGTG+GGG + chr4.2:48952704-48952723 MS.gene067716:CDS 70.0%
GGGACATGCAGACGGCGCGT+GGG + chr4.2:48952703-48952722 MS.gene067716:CDS 70.0%
TGGGACATGCAGACGGCGCG+TGG + chr4.2:48952702-48952721 MS.gene067716:CDS 70.0%
AGACGGCGCGTGGGGCTGAC+AGG + chr4.2:48952712-48952731 MS.gene067716:CDS 75.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 48952376 48952882 48952376 ID=MS.gene067716
chr4.2 mRNA 48952376 48952882 48952376 ID=MS.gene067716.t1;Parent=MS.gene067716
chr4.2 exon 48952376 48952882 48952376 ID=MS.gene067716.t1.exon1;Parent=MS.gene067716.t1
chr4.2 CDS 48952376 48952882 48952376 ID=cds.MS.gene067716.t1;Parent=MS.gene067716.t1
Gene Sequence

>MS.gene067716

ATGGCTGAAGAACATAGATGTCAAGCTGCTCAACGTCTCTGTGCTAACAACTGCGGTTTCTTTGGAAGTCCTGCCATGCAAGATCTTTGTTCCAAATGTTACCGTGATTTGCAGATGAAGGAACAACGTTCTTCATCTGCAAAATTGGTTTTAAACCAAACGTTGATTTCTCAACAGTCTAATTCTTCTTGTCTAGACACGGAGATTATTCATCCATCTCCACCGTCGGTTGTAGTTTCTTCATCTACACCGTCGGTGGAGTTGGTAGCAGCTGCTGCTGCTGGACCTTCGGAGGCTGAACCTCCGAAGGTTCAGCCGAATAGGTGTGGGACATGCAGACGGCGCGTGGGGCTGACAGGATTTAAGTGTCGGTGCGGGTTGACGTTGTGTGGGACCCACAGGTATCCAGAGCAGCACGGTTGTGGGTTTGATTTTAAGGGGATGGGAAGGGAGGAAATCAAGAAGGCGAATCCAGTGGTGAAGGGAGAGAAGCTGAATAAGATCTGA
Protein sequence

>MS.gene067716.t1

MAEEHRCQAAQRLCANNCGFFGSPAMQDLCSKCYRDLQMKEQRSSSAKLVLNQTLISQQSNSSCLDTEIIHPSPPSVVVSSSTPSVELVAAAAAGPSEAEPPKVQPNRCGTCRRRVGLTGFKCRCGLTLCGTHRYPEQHGCGFDFKGMGREEIKKANPVVKGEKLNKI