AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene00525

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00525.t1 MTR_1g017570 97.241 145 4 0 1 145 1 145 1.28e-101 287
MS.gene00525.t1 MTR_3g103360 58.333 144 56 2 1 144 1 140 7.77e-50 156
MS.gene00525.t1 MTR_4g097440 47.154 123 47 3 22 128 23 143 8.44e-20 80.9
MS.gene00525.t1 MTR_5g015090 45.082 122 51 3 31 139 22 140 5.91e-18 75.9
MS.gene00525.t1 MTR_8g086020 41.584 101 53 2 45 143 18 114 1.11e-14 67.4
MS.gene00525.t1 MTR_1g087040 37.273 110 62 2 34 143 4 106 1.64e-13 63.9
MS.gene00525.t1 MTR_1g022495 41.111 90 51 1 35 124 7 94 2.37e-12 61.2
MS.gene00525.t1 MTR_3g117120 43.902 82 44 1 43 124 15 94 2.61e-12 60.8
MS.gene00525.t1 MTR_4g070860 43.750 80 43 1 45 124 17 94 3.11e-12 60.8
MS.gene00525.t1 MTR_7g029400 44.156 77 43 0 59 135 83 159 1.52e-11 59.7
MS.gene00525.t1 MTR_8g015250 42.857 77 44 0 59 135 73 149 2.26e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene00525.t1 AT3G49760 38.849 139 77 2 9 139 13 151 1.26e-20 82.8
MS.gene00525.t1 AT2G22850 45.783 83 45 0 57 139 126 208 2.25e-15 70.5
MS.gene00525.t1 AT2G22850 45.783 83 45 0 57 139 126 208 2.25e-15 70.5
MS.gene00525.t1 AT2G18160 43.750 80 45 0 45 124 16 95 5.69e-14 65.9
MS.gene00525.t1 AT1G75390 41.667 84 49 0 45 128 26 109 3.21e-13 63.9
MS.gene00525.t1 AT4G37730 51.471 68 33 0 57 124 194 261 3.83e-13 65.5
MS.gene00525.t1 AT1G75390 41.463 82 48 0 43 124 24 105 9.87e-13 61.2
MS.gene00525.t1 AT1G59530 39.344 122 68 2 18 139 14 129 9.91e-12 59.3
MS.gene00525.t1 AT5G15830 38.835 103 59 2 26 128 44 142 9.92e-12 60.1

Find 45 sgRNAs with CRISPR-Local

Find 53 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTCCCTCATGGCAACACTTT+TGG 0.232653 1.2:+5302842 MS.gene00525:CDS
CGATTTGAACCGGTTGAGAA+TGG 0.382249 1.2:+5302728 MS.gene00525:CDS
TTGTGAACCGGACCCTGGAC+TGG 0.414459 1.2:-5302586 None:intergenic
ACCGGTTGAGAATGGAAAAC+CGG 0.420192 1.2:+5302736 MS.gene00525:CDS
GGTCCGGCTCACGTGTGTTC+CGG 0.430584 1.2:+5302491 MS.gene00525:CDS
TAAGGAGAATGCAATCAAAC+CGG 0.448119 1.2:+5302649 MS.gene00525:CDS
ACCTCACGAACGATTTGAAC+CGG 0.459693 1.2:+5302718 MS.gene00525:CDS
ATTGCATGGTTAACCCTAGC+TGG 0.474346 1.2:-5302770 None:intergenic
GGACCGGATACTCCTCTTCA+TGG 0.477097 1.2:-5302473 None:intergenic
ACGACTTGATCCTTGTGAAC+CGG 0.478619 1.2:-5302598 None:intergenic
GTGAACATGGTTTCATGAAC+CGG 0.479700 1.2:-5302510 None:intergenic
CCTGGACTGGATGGATCAAC+CGG 0.484260 1.2:-5302573 None:intergenic
CCGGTTGATCCATCCAGTCC+AGG 0.489171 1.2:+5302573 MS.gene00525:CDS
GATCCTTGTGAACCGGACCC+TGG 0.490890 1.2:-5302591 None:intergenic
GATCAACCGGTTGGTTAATG+AGG 0.507162 1.2:-5302560 None:intergenic
GAACCGGAACACACGTGAGC+CGG 0.519769 1.2:-5302494 None:intergenic
GATCCATCCAGTCCAGGGTC+CGG 0.524687 1.2:+5302579 MS.gene00525:CDS
CTTCCATGAAGAGGAGTATC+CGG 0.526400 1.2:+5302470 MS.gene00525:CDS
GGAACACACGTGAGCCGGAC+CGG 0.528631 1.2:-5302489 None:intergenic
GTTCACACAAGGCGAAATAG+AGG 0.540753 1.2:+5302527 MS.gene00525:CDS
ATCCAAAAGTGTTGCCATGA+GGG 0.543780 1.2:-5302844 None:intergenic
TATTTCGCCTTGTGTGAACA+TGG 0.548387 1.2:-5302523 None:intergenic
CCGGTTGAGAATGGAAAACC+GGG 0.557045 1.2:+5302737 MS.gene00525:CDS
AATCAAACCGGGAGTCGGCT+AGG 0.560261 1.2:+5302661 MS.gene00525:CDS
ATCAGAATCAATGTCCCTCA+TGG 0.566320 1.2:+5302830 MS.gene00525:CDS
GAACCGGACCCTGGACTGGA+TGG 0.582397 1.2:-5302582 None:intergenic
ATGAAGAGGAGTATCCGGTC+CGG 0.588642 1.2:+5302475 MS.gene00525:CDS
AGCAATGTCCTTCCATGAAG+AGG 0.590028 1.2:+5302461 None:intergenic
AGTCCAGGGTCCGGTTCACA+AGG 0.591544 1.2:+5302588 MS.gene00525:CDS
ACCGGTTCAAATCGTTCGTG+AGG 0.594738 1.2:-5302719 None:intergenic
CGGATACTCCTCTTCATGGA+AGG 0.596073 1.2:-5302469 None:intergenic
CGGTTGATCCATCCAGTCCA+GGG 0.598027 1.2:+5302574 MS.gene00525:CDS
GACTGGATGGATCAACCGGT+TGG 0.601414 1.2:-5302569 None:intergenic
GTGACCGCCTAGCCGACTCC+CGG 0.602249 1.2:-5302668 None:intergenic
TAATATGAGATTGTATTGCA+TGG 0.609971 1.2:-5302784 None:intergenic
ATCAACCGGTTGGTTAATGA+GGG 0.611428 1.2:-5302559 None:intergenic
AATGCAATCAAACCGGGAGT+CGG 0.621410 1.2:+5302656 MS.gene00525:CDS
ATACAATCTCATATTATCAA+CGG 0.623568 1.2:+5302791 MS.gene00525:CDS
AAGGAGAATGCAATCAAACC+GGG 0.631263 1.2:+5302650 MS.gene00525:CDS
CATGAAACCATGTTCACACA+AGG 0.636957 1.2:+5302516 MS.gene00525:CDS
GATCCAAAAGTGTTGCCATG+AGG 0.664933 1.2:-5302845 None:intergenic
TTCACAAGGATCAAGTCGTG+CGG 0.675020 1.2:+5302602 MS.gene00525:CDS
AGTCGGCTAGGCGGTCACGT+TGG 0.676204 1.2:+5302673 MS.gene00525:CDS
GGTCACGTTGGAGAAAGAAG+CGG 0.707696 1.2:+5302685 MS.gene00525:CDS
CAAACCGGGAGTCGGCTAGG+CGG 0.728540 1.2:+5302664 MS.gene00525:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATACAATCTCATATTATCAA+CGG + chr1.2:5302791-5302810 MS.gene00525:CDS 20.0%
! TAATATGAGATTGTATTGCA+TGG - chr1.2:5302787-5302806 None:intergenic 25.0%
! CAACACTTTTGGATCTATAT+CGG + chr1.2:5302853-5302872 MS.gene00525:CDS 30.0%
!!! TTCTCCTTATTTTTCTCTCA+CGG - chr1.2:5302638-5302657 None:intergenic 30.0%
TAAGGAGAATGCAATCAAAC+CGG + chr1.2:5302649-5302668 MS.gene00525:CDS 35.0%
! ATTTTCCCTCATTAACCAAC+CGG + chr1.2:5302554-5302573 MS.gene00525:CDS 35.0%
!!! TCTCCTTATTTTTCTCTCAC+GGG - chr1.2:5302637-5302656 None:intergenic 35.0%
AAGGAGAATGCAATCAAACC+GGG + chr1.2:5302650-5302669 MS.gene00525:CDS 40.0%
ATCAGAATCAATGTCCCTCA+TGG + chr1.2:5302830-5302849 MS.gene00525:CDS 40.0%
CAACCCGTGAGAGAAAAATA+AGG + chr1.2:5302631-5302650 MS.gene00525:CDS 40.0%
CATGAAACCATGTTCACACA+AGG + chr1.2:5302516-5302535 MS.gene00525:CDS 40.0%
GGGAACTAAAAAACCAGCTA+GGG + chr1.2:5302757-5302776 MS.gene00525:CDS 40.0%
GTGAACATGGTTTCATGAAC+CGG - chr1.2:5302513-5302532 None:intergenic 40.0%
TATTTCGCCTTGTGTGAACA+TGG - chr1.2:5302526-5302545 None:intergenic 40.0%
! ATCAACCGGTTGGTTAATGA+GGG - chr1.2:5302562-5302581 None:intergenic 40.0%
!! ATCCAAAAGTGTTGCCATGA+GGG - chr1.2:5302847-5302866 None:intergenic 40.0%
!!! CTAGCTGGTTTTTTAGTTCC+CGG - chr1.2:5302758-5302777 None:intergenic 40.0%
AATGCAATCAAACCGGGAGT+CGG + chr1.2:5302656-5302675 MS.gene00525:CDS 45.0%
ACCGGTTGAGAATGGAAAAC+CGG + chr1.2:5302736-5302755 MS.gene00525:CDS 45.0%
ACCTCACGAACGATTTGAAC+CGG + chr1.2:5302718-5302737 MS.gene00525:CDS 45.0%
ACGACTTGATCCTTGTGAAC+CGG - chr1.2:5302601-5302620 None:intergenic 45.0%
ATTGCATGGTTAACCCTAGC+TGG - chr1.2:5302773-5302792 None:intergenic 45.0%
CGATTTGAACCGGTTGAGAA+TGG + chr1.2:5302728-5302747 MS.gene00525:CDS 45.0%
CGGGAACTAAAAAACCAGCT+AGG + chr1.2:5302756-5302775 MS.gene00525:CDS 45.0%
GTTCACACAAGGCGAAATAG+AGG + chr1.2:5302527-5302546 MS.gene00525:CDS 45.0%
TTCACAAGGATCAAGTCGTG+CGG + chr1.2:5302602-5302621 MS.gene00525:CDS 45.0%
! GATCAACCGGTTGGTTAATG+AGG - chr1.2:5302563-5302582 None:intergenic 45.0%
!! CTTCCATGAAGAGGAGTATC+CGG + chr1.2:5302470-5302489 MS.gene00525:CDS 45.0%
!! GATCCAAAAGTGTTGCCATG+AGG - chr1.2:5302848-5302867 None:intergenic 45.0%
CCGGTTGAGAATGGAAAACC+GGG + chr1.2:5302737-5302756 MS.gene00525:CDS 50.0%
CGGATACTCCTCTTCATGGA+AGG - chr1.2:5302472-5302491 None:intergenic 50.0%
GGTCACGTTGGAGAAAGAAG+CGG + chr1.2:5302685-5302704 MS.gene00525:CDS 50.0%
! ACCGGTTCAAATCGTTCGTG+AGG - chr1.2:5302722-5302741 None:intergenic 50.0%
! CCCGGTTTTCCATTCTCAAC+CGG - chr1.2:5302740-5302759 None:intergenic 50.0%
! GTCCCTCATGGCAACACTTT+TGG + chr1.2:5302842-5302861 MS.gene00525:CDS 50.0%
!! ATGAAGAGGAGTATCCGGTC+CGG + chr1.2:5302475-5302494 MS.gene00525:CDS 50.0%
AATCAAACCGGGAGTCGGCT+AGG + chr1.2:5302661-5302680 MS.gene00525:CDS 55.0%
CGGTTGATCCATCCAGTCCA+GGG + chr1.2:5302574-5302593 MS.gene00525:CDS 55.0%
GACTGGATGGATCAACCGGT+TGG - chr1.2:5302572-5302591 None:intergenic 55.0%
GGACCGGATACTCCTCTTCA+TGG - chr1.2:5302476-5302495 None:intergenic 55.0%
! CCTGGACTGGATGGATCAAC+CGG - chr1.2:5302576-5302595 None:intergenic 55.0%
AGTCCAGGGTCCGGTTCACA+AGG + chr1.2:5302588-5302607 MS.gene00525:CDS 60.0%
CCGGTTGATCCATCCAGTCC+AGG + chr1.2:5302573-5302592 MS.gene00525:CDS 60.0%
GAACCGGAACACACGTGAGC+CGG - chr1.2:5302497-5302516 None:intergenic 60.0%
GATCCATCCAGTCCAGGGTC+CGG + chr1.2:5302579-5302598 MS.gene00525:CDS 60.0%
GATCCTTGTGAACCGGACCC+TGG - chr1.2:5302594-5302613 None:intergenic 60.0%
TTGTGAACCGGACCCTGGAC+TGG - chr1.2:5302589-5302608 None:intergenic 60.0%
AGTCGGCTAGGCGGTCACGT+TGG + chr1.2:5302673-5302692 MS.gene00525:CDS 65.0%
CAAACCGGGAGTCGGCTAGG+CGG + chr1.2:5302664-5302683 MS.gene00525:CDS 65.0%
GGAACACACGTGAGCCGGAC+CGG - chr1.2:5302492-5302511 None:intergenic 65.0%
GGTCCGGCTCACGTGTGTTC+CGG + chr1.2:5302491-5302510 MS.gene00525:CDS 65.0%
! GAACCGGACCCTGGACTGGA+TGG - chr1.2:5302585-5302604 None:intergenic 65.0%
! GTGACCGCCTAGCCGACTCC+CGG - chr1.2:5302671-5302690 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 5302465 5302902 5302465 ID=MS.gene00525
chr1.2 mRNA 5302465 5302902 5302465 ID=MS.gene00525.t1;Parent=MS.gene00525
chr1.2 exon 5302465 5302902 5302465 ID=MS.gene00525.t1.exon1;Parent=MS.gene00525.t1
chr1.2 CDS 5302465 5302902 5302465 ID=cds.MS.gene00525.t1;Parent=MS.gene00525.t1
Gene Sequence

>MS.gene00525

ATGTCCTTCCATGAAGAGGAGTATCCGGTCCGGCTCACGTGTGTTCCGGTTCATGAAACCATGTTCACACAAGGCGAAATAGAGGAGTTATTTTCCCTCATTAACCAACCGGTTGATCCATCCAGTCCAGGGTCCGGTTCACAAGGATCAAGTCGTGCGGTTTACTCAACCCGTGAGAGAAAAATAAGGAGAATGCAATCAAACCGGGAGTCGGCTAGGCGGTCACGTTGGAGAAAGAAGCGGCACGTAGAGAACCTCACGAACGATTTGAACCGGTTGAGAATGGAAAACCGGGAACTAAAAAACCAGCTAGGGTTAACCATGCAATACAATCTCATATTATCAACGGAGAATGAACGTCTAAGATCAGAATCAATGTCCCTCATGGCAACACTTTTGGATCTATATCGGACTTTAGAGACAATAATTTCACAATAG
Protein sequence

>MS.gene00525.t1

MSFHEEEYPVRLTCVPVHETMFTQGEIEELFSLINQPVDPSSPGSGSQGSSRAVYSTRERKIRRMQSNRESARRSRWRKKRHVENLTNDLNRLRMENRELKNQLGLTMQYNLILSTENERLRSESMSLMATLLDLYRTLETIISQ