AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01272

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01272.t1 MTR_2g010600 85.256 156 23 0 1 156 7 162 2.16e-102 290
MS.gene01272.t1 MTR_4g050762 85.811 148 21 0 9 156 15 162 1.39e-97 279
MS.gene01272.t1 MTR_2g012370 85.811 148 21 0 9 156 15 162 1.39e-97 279
MS.gene01272.t1 MTR_2g010590 83.333 156 23 2 1 156 7 159 4.84e-93 266
MS.gene01272.t1 MTR_2g010630 70.779 154 38 4 8 156 14 165 2.64e-76 224
MS.gene01272.t1 MTR_2g010650 67.500 160 42 6 3 156 10 165 3.23e-73 217
MS.gene01272.t1 MTR_2g010610 69.595 148 21 3 9 156 15 138 3.58e-70 208
MS.gene01272.t1 MTR_2g435490 56.954 151 63 1 6 156 16 164 2.66e-66 200
MS.gene01272.t1 MTR_2g010700 59.146 164 57 5 1 156 7 168 6.10e-64 193
MS.gene01272.t1 MTR_2g010640 58.125 160 60 5 1 156 7 163 4.37e-60 183
MS.gene01272.t1 MTR_2g010670 58.750 160 58 5 2 156 8 164 8.39e-58 177
MS.gene01272.t1 MTR_2g010690 55.000 160 64 5 2 156 8 164 7.61e-55 170
MS.gene01272.t1 MTR_2g010580 46.250 160 77 4 2 156 9 164 9.89e-51 160
MS.gene01272.t1 MTR_4g092540 47.134 157 78 4 1 156 7 159 4.42e-48 153
MS.gene01272.t1 MTR_4g128750 51.111 135 63 2 23 156 41 173 1.21e-44 144
MS.gene01272.t1 MTR_4g128770 45.652 138 71 3 22 156 70 206 3.25e-41 137
MS.gene01272.t1 MTR_1g067290 38.686 137 79 4 22 155 73 207 1.72e-32 115
MS.gene01272.t1 MTR_8g078770 37.681 138 82 4 22 156 36 172 1.36e-26 99.0
MS.gene01272.t1 MTR_5g018770 32.667 150 75 4 22 156 47 185 1.05e-24 94.4
MS.gene01272.t1 MTR_4g092515 52.000 100 41 3 3 97 9 106 3.85e-24 91.3
MS.gene01272.t1 MTR_5g018755 30.851 94 60 3 68 156 10 103 4.74e-13 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01272.t1 AT4G33720 59.615 156 60 2 1 156 11 163 4.70e-66 199
MS.gene01272.t1 AT2G14580 62.025 158 52 4 2 156 9 161 1.76e-64 194
MS.gene01272.t1 AT5G26130 58.333 156 64 1 1 156 12 166 2.62e-63 192
MS.gene01272.t1 AT2G14610 58.861 158 57 4 2 156 9 161 6.22e-62 188
MS.gene01272.t1 AT4G33710 61.702 141 53 1 16 156 27 166 1.97e-59 182
MS.gene01272.t1 AT3G19690 54.430 158 65 4 1 156 9 161 3.16e-58 179
MS.gene01272.t1 AT4G25790 53.676 136 60 2 22 156 77 210 1.65e-50 160
MS.gene01272.t1 AT5G57625 52.593 135 61 2 23 156 75 207 8.79e-49 156
MS.gene01272.t1 AT2G19990 49.635 137 67 1 20 156 42 176 1.69e-48 154
MS.gene01272.t1 AT1G50060 54.305 151 63 4 7 156 16 161 2.15e-48 154
MS.gene01272.t1 AT3G09590 48.905 137 66 2 22 156 52 186 4.39e-45 146
MS.gene01272.t1 AT4G25780 50.725 138 64 3 22 156 54 190 6.62e-45 146
MS.gene01272.t1 AT4G30320 45.695 151 78 3 7 156 14 161 1.09e-44 144
MS.gene01272.t1 AT4G33730 52.174 138 61 4 20 156 39 172 2.08e-44 144
MS.gene01272.t1 AT1G50050 56.291 151 61 4 7 156 16 162 5.52e-44 142
MS.gene01272.t1 AT5G02730 45.985 137 70 2 22 156 59 193 1.60e-40 135
MS.gene01272.t1 AT1G50050 52.903 155 64 4 7 154 8 160 4.94e-39 132
MS.gene01272.t1 AT1G01310 45.588 136 70 3 22 156 87 219 1.04e-38 132
MS.gene01272.t1 AT4G31470 46.324 136 69 3 22 156 53 185 1.94e-38 129
MS.gene01272.t1 AT5G66590 45.000 140 68 3 23 156 49 185 4.11e-37 126
MS.gene01272.t1 AT4G07820 43.662 142 75 4 15 156 24 160 5.09e-36 122
MS.gene01272.t1 AT2G19970 38.971 136 70 6 20 146 35 166 3.50e-24 92.8
MS.gene01272.t1 AT2G19980 37.324 142 73 6 20 156 35 165 8.57e-23 89.0

Find 41 sgRNAs with CRISPR-Local

Find 42 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CATAGTCTGTTGGTGAGTTT+TGG 0.180317 2.2:+70897917 None:intergenic
CCGGTGGTGGTGGCCGTTAC+GGG 0.193193 2.2:-70897771 MS.gene01272:CDS
TTAGGCTTATTTCTCATTAT+TGG 0.210544 2.2:-70897955 MS.gene01272:CDS
TCCGGTGGTGGTGGCCGTTA+CGG 0.303334 2.2:-70897772 MS.gene01272:CDS
TATTAAACATGCACTTAGTA+TGG 0.322729 2.2:+70897502 None:intergenic
TTGGTGTTGCAAATGTTGTT+TGG 0.348141 2.2:-70897864 MS.gene01272:CDS
GCCATTATACTCAGGTGGTT+TGG 0.358578 2.2:-70897630 MS.gene01272:CDS
GTTACTATTATAGTTATAAT+CGG 0.390895 2.2:+70897678 None:intergenic
TCCAAACCACCTGAGTATAA+TGG 0.398812 2.2:+70897629 None:intergenic
TGGTGTTGCAAATGTTGTTT+GGG 0.411343 2.2:-70897863 MS.gene01272:CDS
CTGACGTCTTGCTTCGTTGT+GGG 0.413555 2.2:+70897888 None:intergenic
CCCGTAACGGCCACCACCAC+CGG 0.429882 2.2:+70897771 None:intergenic
TGGAGAAACACAAAGCGTAT+TGG 0.455942 2.2:-70897610 MS.gene01272:CDS
GCACAGATGCAGTGAGGTTG+TGG 0.462999 2.2:-70897714 MS.gene01272:CDS
ATTATTATCACATTTCACTT+TGG 0.463790 2.2:+70897582 None:intergenic
TTGATCCACTCCGGTGGTGG+TGG 0.492178 2.2:-70897781 MS.gene01272:CDS
GTGAAATGTGATAATAATAG+AGG 0.492513 2.2:-70897577 MS.gene01272:CDS
GAGAATCTAGCGTGGAGCTC+CGG 0.500119 2.2:-70897748 MS.gene01272:CDS
ATCTGTGCCACTCATGTCGC+CGG 0.501762 2.2:+70897729 None:intergenic
CCTGACGTCTTGCTTCGTTG+TGG 0.534137 2.2:+70897887 None:intergenic
CGATTGATCCACTCCGGTGG+TGG 0.538844 2.2:-70897784 MS.gene01272:CDS
CACAGATGCAGTGAGGTTGT+GGG 0.544377 2.2:-70897713 MS.gene01272:CDS
CGGTGGTGGTGGCCGTTACG+GGG 0.566376 2.2:-70897770 MS.gene01272:CDS
CCACAACGAAGCAAGACGTC+AGG 0.568340 2.2:-70897887 MS.gene01272:CDS
TGGGCGTTCACATAGTCTGT+TGG 0.581596 2.2:+70897907 None:intergenic
TGGAGCTCCGGCGACATGAG+TGG 0.603470 2.2:-70897736 MS.gene01272:CDS
AGACTATGCTAATCAACGCA+AGG 0.607234 2.2:-70897815 MS.gene01272:CDS
GATCCACCAGGCAACTATGT+TGG 0.607501 2.2:-70897532 MS.gene01272:CDS
AACGGCCACCACCACCGGAG+TGG 0.614459 2.2:+70897776 None:intergenic
TGACCAACATAGTTGCCTGG+TGG 0.614666 2.2:+70897529 None:intergenic
GACTATGCTAATCAACGCAA+GGG 0.626800 2.2:-70897814 MS.gene01272:CDS
GTGTGGCCATTATACTCAGG+TGG 0.627875 2.2:-70897635 MS.gene01272:CDS
GATTGTCGATTGATCCACTC+CGG 0.648727 2.2:-70897790 MS.gene01272:CDS
AGTGTGTGGCCATTATACTC+AGG 0.651003 2.2:-70897638 MS.gene01272:CDS
AACGAAGCAAGACGTCAGGT+TGG 0.655351 2.2:-70897883 MS.gene01272:CDS
ACGCTAGATTCTCCCCGTAA+CGG 0.657514 2.2:+70897758 None:intergenic
ACTTGCAATTACGATCCACC+AGG 0.660677 2.2:-70897544 MS.gene01272:CDS
GTTACGGGGAGAATCTAGCG+TGG 0.716019 2.2:-70897756 MS.gene01272:CDS
TGTCGATTGATCCACTCCGG+TGG 0.719544 2.2:-70897787 MS.gene01272:CDS
TGTGCTGCTAATAAAGTGTG+TGG 0.730769 2.2:-70897652 MS.gene01272:CDS
TGAGTGGCACAGATGCAGTG+AGG 0.786885 2.2:-70897720 MS.gene01272:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GTTACTATTATAGTTATAAT+CGG + chr2.2:70897805-70897824 None:intergenic 15.0%
!! ATTATTATCACATTTCACTT+TGG + chr2.2:70897901-70897920 None:intergenic 20.0%
! GTGAAATGTGATAATAATAG+AGG - chr2.2:70897903-70897922 MS.gene01272:CDS 25.0%
!! TTAGGCTTATTTCTCATTAT+TGG - chr2.2:70897525-70897544 MS.gene01272:CDS 25.0%
!! ATAGTCTGTTGGTGAGTTTT+GGG + chr2.2:70897565-70897584 None:intergenic 35.0%
!! TGGTGTTGCAAATGTTGTTT+GGG - chr2.2:70897617-70897636 MS.gene01272:CDS 35.0%
!! TTGGTGTTGCAAATGTTGTT+TGG - chr2.2:70897616-70897635 MS.gene01272:CDS 35.0%
AGACTATGCTAATCAACGCA+AGG - chr2.2:70897665-70897684 MS.gene01272:CDS 40.0%
GACTATGCTAATCAACGCAA+GGG - chr2.2:70897666-70897685 MS.gene01272:CDS 40.0%
TCCAAACCACCTGAGTATAA+TGG + chr2.2:70897854-70897873 None:intergenic 40.0%
TGGAGAAACACAAAGCGTAT+TGG - chr2.2:70897870-70897889 MS.gene01272:CDS 40.0%
! TGTGCTGCTAATAAAGTGTG+TGG - chr2.2:70897828-70897847 MS.gene01272:CDS 40.0%
! TTTTGACCAACATAGTTGCC+TGG + chr2.2:70897957-70897976 None:intergenic 40.0%
!! CATAGTCTGTTGGTGAGTTT+TGG + chr2.2:70897566-70897585 None:intergenic 40.0%
ACTTGCAATTACGATCCACC+AGG - chr2.2:70897936-70897955 MS.gene01272:CDS 45.0%
AGTGTGTGGCCATTATACTC+AGG - chr2.2:70897842-70897861 MS.gene01272:CDS 45.0%
GCCATTATACTCAGGTGGTT+TGG - chr2.2:70897850-70897869 MS.gene01272:CDS 45.0%
! GATTGTCGATTGATCCACTC+CGG - chr2.2:70897690-70897709 MS.gene01272:CDS 45.0%
AACGAAGCAAGACGTCAGGT+TGG - chr2.2:70897597-70897616 MS.gene01272:CDS 50.0%
ACGCTAGATTCTCCCCGTAA+CGG + chr2.2:70897725-70897744 None:intergenic 50.0%
CACAGATGCAGTGAGGTTGT+GGG - chr2.2:70897767-70897786 MS.gene01272:CDS 50.0%
CTGACGTCTTGCTTCGTTGT+GGG + chr2.2:70897595-70897614 None:intergenic 50.0%
GATCCACCAGGCAACTATGT+TGG - chr2.2:70897948-70897967 MS.gene01272:CDS 50.0%
GTGTGGCCATTATACTCAGG+TGG - chr2.2:70897845-70897864 MS.gene01272:CDS 50.0%
TGACCAACATAGTTGCCTGG+TGG + chr2.2:70897954-70897973 None:intergenic 50.0%
TGGGCGTTCACATAGTCTGT+TGG + chr2.2:70897576-70897595 None:intergenic 50.0%
CCACAACGAAGCAAGACGTC+AGG - chr2.2:70897593-70897612 MS.gene01272:CDS 55.0%
CCTGACGTCTTGCTTCGTTG+TGG + chr2.2:70897596-70897615 None:intergenic 55.0%
GAGAATCTAGCGTGGAGCTC+CGG - chr2.2:70897732-70897751 MS.gene01272:CDS 55.0%
GCACAGATGCAGTGAGGTTG+TGG - chr2.2:70897766-70897785 MS.gene01272:CDS 55.0%
GTTACGGGGAGAATCTAGCG+TGG - chr2.2:70897724-70897743 MS.gene01272:CDS 55.0%
TGAGTGGCACAGATGCAGTG+AGG - chr2.2:70897760-70897779 MS.gene01272:CDS 55.0%
! ATCTGTGCCACTCATGTCGC+CGG + chr2.2:70897754-70897773 None:intergenic 55.0%
! TGTCGATTGATCCACTCCGG+TGG - chr2.2:70897693-70897712 MS.gene01272:CDS 55.0%
CGATTGATCCACTCCGGTGG+TGG - chr2.2:70897696-70897715 MS.gene01272:CDS 60.0%
! TTGATCCACTCCGGTGGTGG+TGG - chr2.2:70897699-70897718 MS.gene01272:CDS 60.0%
TGGAGCTCCGGCGACATGAG+TGG - chr2.2:70897744-70897763 MS.gene01272:CDS 65.0%
!! TCCGGTGGTGGTGGCCGTTA+CGG - chr2.2:70897708-70897727 MS.gene01272:CDS 65.0%
AACGGCCACCACCACCGGAG+TGG + chr2.2:70897707-70897726 None:intergenic 70.0%
CCCGTAACGGCCACCACCAC+CGG + chr2.2:70897712-70897731 None:intergenic 70.0%
!! CCGGTGGTGGTGGCCGTTAC+GGG - chr2.2:70897709-70897728 MS.gene01272:CDS 70.0%
!! CGGTGGTGGTGGCCGTTACG+GGG - chr2.2:70897710-70897729 MS.gene01272:CDS 70.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 70897516 70897986 70897516 ID=MS.gene01272
chr2.2 mRNA 70897516 70897986 70897516 ID=MS.gene01272.t1;Parent=MS.gene01272
chr2.2 exon 70897516 70897986 70897516 ID=MS.gene01272.t1.exon1;Parent=MS.gene01272.t1
chr2.2 CDS 70897516 70897986 70897516 ID=cds.MS.gene01272.t1;Parent=MS.gene01272.t1
Gene Sequence

>MS.gene01272

ATGTTTGTCTTAGGCTTATTTCTCATTATTGGTCACGTTGCACATGCCCAAAACTCACCAACAGACTATGTGAACGCCCACAACGAAGCAAGACGTCAGGTTGGTGTTGCAAATGTTGTTTGGGACAATAACGTTGCTGCTTTTGCACAAGACTATGCTAATCAACGCAAGGGTGATTGTCGATTGATCCACTCCGGTGGTGGTGGCCGTTACGGGGAGAATCTAGCGTGGAGCTCCGGCGACATGAGTGGCACAGATGCAGTGAGGTTGTGGGTGAATGAGAGAGCCGATTATAACTATAATAGTAACACATGTGCTGCTAATAAAGTGTGTGGCCATTATACTCAGGTGGTTTGGAGAAACACAAAGCGTATTGGATGTGCCAAAGTGAAATGTGATAATAATAGAGGAACATTCATTACTTGCAATTACGATCCACCAGGCAACTATGTTGGTCAAAAGCCATACTAA
Protein sequence

>MS.gene01272.t1

MFVLGLFLIIGHVAHAQNSPTDYVNAHNEARRQVGVANVVWDNNVAAFAQDYANQRKGDCRLIHSGGGGRYGENLAWSSGDMSGTDAVRLWVNERADYNYNSNTCAANKVCGHYTQVVWRNTKRIGCAKVKCDNNRGTFITCNYDPPGNYVGQKPY