AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46097

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46097.t1 MTR_2g067740 74.286 175 44 1 1 174 1 175 2.65e-80 237
MS.gene46097.t1 MTR_3g012010 40.351 114 53 5 58 160 98 207 7.05e-14 68.2
MS.gene46097.t1 MTR_3g009410 45.333 75 36 2 58 131 98 168 1.91e-13 67.0
MS.gene46097.t1 MTR_7g022980 35.200 125 61 5 55 174 63 172 2.49e-13 66.2
MS.gene46097.t1 MTR_5g008280 39.474 114 53 7 57 160 45 152 4.04e-13 66.6
MS.gene46097.t1 MTR_7g023010 35.833 120 57 5 60 174 68 172 2.00e-12 63.9
MS.gene46097.t1 MTR_7g022960 32.258 124 64 5 56 174 84 192 2.72e-11 60.8
MS.gene46097.t1 MTR_8g466760 34.921 126 65 5 10 122 41 162 5.40e-11 60.1
MS.gene46097.t1 MTR_5g008310 44.944 89 41 3 58 144 72 154 9.25e-11 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.gene46097.t1 AT1G24625 39.423 104 57 3 35 137 34 132 1.27e-13 66.2
MS.gene46097.t1 AT5G01860 51.667 60 21 1 58 117 65 116 2.47e-11 60.5
MS.gene46097.t1 AT1G67030 41.176 85 40 4 56 138 37 113 3.99e-11 59.3

Find 49 sgRNAs with CRISPR-Local

Find 59 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAATAATAATGTGGGATT+TGG 0.232948 7.2:+41579926 MS.gene46097:CDS
CATTATTATTCAATGGAGTT+TGG 0.238799 7.2:-41579916 None:intergenic
CCATATCCCTTCACTGTTGC+AGG 0.257859 7.2:+41579794 MS.gene46097:CDS
CTCATGGATCTTGAGGGATT+TGG 0.283300 7.2:-41579594 None:intergenic
CCTGCAACAGTGAAGGGATA+TGG 0.307330 7.2:-41579794 None:intergenic
TATGGGTGATAAATTGAATA+TGG 0.313679 7.2:-41579776 None:intergenic
CATCCAAGTCCATGATAAAA+AGG 0.315893 7.2:-41579824 None:intergenic
CAGTTAGGAACGTTTGGACT+TGG 0.323515 7.2:+41579737 MS.gene46097:CDS
GAAATTCAGTTAGGAACGTT+TGG 0.326708 7.2:+41579731 MS.gene46097:CDS
GCAAGCTATGACAACCCATT+TGG 0.366612 7.2:+41579866 MS.gene46097:CDS
CAAGCACTCTTTCACGCCTA+TGG 0.371336 7.2:-41579694 None:intergenic
ATTATTATTCAATGGAGTTT+GGG 0.374191 7.2:-41579915 None:intergenic
TCATAGCTTGCATGGGCAAC+AGG 0.381549 7.2:-41579854 None:intergenic
TTCTTGTTGCAAAACTTACA+TGG 0.408494 7.2:-41579632 None:intergenic
CAAGCTATGACAACCCATTT+GGG 0.409161 7.2:+41579867 MS.gene46097:CDS
ATGTCAGAAACATTACGATT+TGG 0.419616 7.2:+41579452 MS.gene46097:CDS
AATCCCACATTATTATTCAA+TGG 0.425603 7.2:-41579923 None:intergenic
TCAGCTCCTCATGGATCTTG+AGG 0.451104 7.2:-41579601 None:intergenic
AGTTTAGGAGGAGGGAGAAG+TGG 0.456414 7.2:+41579560 MS.gene46097:CDS
CAGCTCCTCATGGATCTTGA+GGG 0.457928 7.2:-41579600 None:intergenic
GGATGATCAATAACTCTGCT+TGG 0.462130 7.2:+41579888 MS.gene46097:CDS
GAGTTATTGATCATCCCAAA+TGG 0.474296 7.2:-41579881 None:intergenic
CTGCAACAGTGAAGGGATAT+GGG 0.476975 7.2:-41579793 None:intergenic
AGTTAGGAACGTTTGGACTT+GGG 0.487977 7.2:+41579738 MS.gene46097:CDS
GGTATTCCCTCAGCTCCTCA+TGG 0.496808 7.2:-41579610 None:intergenic
GGCACCTTGGTGTCCTCCCA+AGG 0.506085 7.2:-41579672 None:intergenic
GATGATCAATAACTCTGCTT+GGG 0.511350 7.2:+41579889 MS.gene46097:CDS
GTTAGGAACGTTTGGACTTG+GGG 0.515954 7.2:+41579739 MS.gene46097:CDS
CTTGCATGGGCAACAGGTTG+AGG 0.519092 7.2:-41579848 None:intergenic
AGTTATTGATCATCCCAAAT+GGG 0.522275 7.2:-41579880 None:intergenic
AACTCCATTGAATAATAATG+TGG 0.522954 7.2:+41579919 MS.gene46097:CDS
ATGGGTTGTCATAGCTTGCA+TGG 0.525223 7.2:-41579862 None:intergenic
TTAGGAGGAGGGAGAAGTGG+AGG 0.528661 7.2:+41579563 MS.gene46097:CDS
AAGCACTCTTTCACGCCTAT+GGG 0.549509 7.2:-41579693 None:intergenic
TCTTGTTGCAAAACTTACAT+GGG 0.552429 7.2:-41579631 None:intergenic
TGAACTTAATAATCAGCTGT+AGG 0.555696 7.2:+41579955 MS.gene46097:CDS
TTTCTCTGAGTTTAGGAGGA+GGG 0.556294 7.2:+41579552 MS.gene46097:CDS
TGACGACCCTGCAACAGTGA+AGG 0.582185 7.2:-41579801 None:intergenic
CAAGATCCATGAGGAGCTGA+GGG 0.584633 7.2:+41579604 MS.gene46097:CDS
TTTCACGCCTATGGGCACCT+TGG 0.587966 7.2:-41579685 None:intergenic
GACGACCCTGCAACAGTGAA+GGG 0.590012 7.2:-41579800 None:intergenic
ACTCCATTGAATAATAATGT+GGG 0.592846 7.2:+41579920 MS.gene46097:CDS
GAGGACACCAAGGTGCCCAT+AGG 0.592853 7.2:+41579678 MS.gene46097:CDS
TCAAGATCCATGAGGAGCTG+AGG 0.596229 7.2:+41579603 MS.gene46097:CDS
TCAAGTTCTCAAGCCTTGGG+AGG 0.602598 7.2:+41579659 MS.gene46097:CDS
TGGGTTGTCATAGCTTGCAT+GGG 0.610755 7.2:-41579861 None:intergenic
CATATCCCTTCACTGTTGCA+GGG 0.613658 7.2:+41579795 MS.gene46097:CDS
CAAGCCTTGGGAGGACACCA+AGG 0.644910 7.2:+41579668 MS.gene46097:CDS
CAAATCCCTCAAGATCCATG+AGG 0.742811 7.2:+41579595 MS.gene46097:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTATTATTCAATGGAGTTT+GGG - chr7.2:41579918-41579937 None:intergenic 20.0%
!! ATTGAAAAAGAAATTCAGTT+AGG + chr7.2:41579722-41579741 MS.gene46097:CDS 20.0%
! AACTCCATTGAATAATAATG+TGG + chr7.2:41579919-41579938 MS.gene46097:CDS 25.0%
! AATCCCACATTATTATTCAA+TGG - chr7.2:41579926-41579945 None:intergenic 25.0%
! ACTCCATTGAATAATAATGT+GGG + chr7.2:41579920-41579939 MS.gene46097:CDS 25.0%
! CATTATTATTCAATGGAGTT+TGG - chr7.2:41579919-41579938 None:intergenic 25.0%
! TATGGGTGATAAATTGAATA+TGG - chr7.2:41579779-41579798 None:intergenic 25.0%
! TTGAATAATAATGTGGGATT+TGG + chr7.2:41579926-41579945 MS.gene46097:CDS 25.0%
!!! TTTAGCTTTTTGTTATCTGT+TGG - chr7.2:41579488-41579507 None:intergenic 25.0%
AGTTATTGATCATCCCAAAT+GGG - chr7.2:41579883-41579902 None:intergenic 30.0%
ATGTCAGAAACATTACGATT+TGG + chr7.2:41579452-41579471 MS.gene46097:CDS 30.0%
TCTTGTTGCAAAACTTACAT+GGG - chr7.2:41579634-41579653 None:intergenic 30.0%
TTCTTGTTGCAAAACTTACA+TGG - chr7.2:41579635-41579654 None:intergenic 30.0%
CATCCAAGTCCATGATAAAA+AGG - chr7.2:41579827-41579846 None:intergenic 35.0%
GAAATTCAGTTAGGAACGTT+TGG + chr7.2:41579731-41579750 MS.gene46097:CDS 35.0%
GAGTTATTGATCATCCCAAA+TGG - chr7.2:41579884-41579903 None:intergenic 35.0%
GATGATCAATAACTCTGCTT+GGG + chr7.2:41579889-41579908 MS.gene46097:CDS 35.0%
! CTTTTTATCATGGACTTGGA+TGG + chr7.2:41579825-41579844 MS.gene46097:CDS 35.0%
! TCACCTTTTTATCATGGACT+TGG + chr7.2:41579821-41579840 MS.gene46097:CDS 35.0%
! TCATTTTCTCTGAGTTTAGG+AGG + chr7.2:41579548-41579567 MS.gene46097:CDS 35.0%
!! ACGTCATTTTCTCTGAGTTT+AGG + chr7.2:41579545-41579564 MS.gene46097:CDS 35.0%
!!! TTTTCAAGTTCTCAAGCCTT+GGG + chr7.2:41579656-41579675 MS.gene46097:CDS 35.0%
AGTTAGGAACGTTTGGACTT+GGG + chr7.2:41579738-41579757 MS.gene46097:CDS 40.0%
CAAAAAGCTAAAGCGCAAGA+TGG + chr7.2:41579496-41579515 MS.gene46097:CDS 40.0%
CAAGCTATGACAACCCATTT+GGG + chr7.2:41579867-41579886 MS.gene46097:CDS 40.0%
GGATGATCAATAACTCTGCT+TGG + chr7.2:41579888-41579907 MS.gene46097:CDS 40.0%
TTTCTCTGAGTTTAGGAGGA+GGG + chr7.2:41579552-41579571 MS.gene46097:CDS 40.0%
! TTTTCTCTGAGTTTAGGAGG+AGG + chr7.2:41579551-41579570 MS.gene46097:CDS 40.0%
!!! GTTTTCAAGTTCTCAAGCCT+TGG + chr7.2:41579655-41579674 MS.gene46097:CDS 40.0%
AAGCACTCTTTCACGCCTAT+GGG - chr7.2:41579696-41579715 None:intergenic 45.0%
CAAATCCCTCAAGATCCATG+AGG + chr7.2:41579595-41579614 MS.gene46097:CDS 45.0%
CAGTTAGGAACGTTTGGACT+TGG + chr7.2:41579737-41579756 MS.gene46097:CDS 45.0%
CATATCCCTTCACTGTTGCA+GGG + chr7.2:41579795-41579814 MS.gene46097:CDS 45.0%
CTCATGGATCTTGAGGGATT+TGG - chr7.2:41579597-41579616 None:intergenic 45.0%
CTGCAACAGTGAAGGGATAT+GGG - chr7.2:41579796-41579815 None:intergenic 45.0%
GCAAGCTATGACAACCCATT+TGG + chr7.2:41579866-41579885 MS.gene46097:CDS 45.0%
GTTAGGAACGTTTGGACTTG+GGG + chr7.2:41579739-41579758 MS.gene46097:CDS 45.0%
! ATGGGTTGTCATAGCTTGCA+TGG - chr7.2:41579865-41579884 None:intergenic 45.0%
! GGGTCGTCACCTTTTTATCA+TGG + chr7.2:41579815-41579834 MS.gene46097:CDS 45.0%
! TGGGTTGTCATAGCTTGCAT+GGG - chr7.2:41579864-41579883 None:intergenic 45.0%
AGTTTAGGAGGAGGGAGAAG+TGG + chr7.2:41579560-41579579 MS.gene46097:CDS 50.0%
CAAGATCCATGAGGAGCTGA+GGG + chr7.2:41579604-41579623 MS.gene46097:CDS 50.0%
CAAGCACTCTTTCACGCCTA+TGG - chr7.2:41579697-41579716 None:intergenic 50.0%
CAGCTCCTCATGGATCTTGA+GGG - chr7.2:41579603-41579622 None:intergenic 50.0%
CCATATCCCTTCACTGTTGC+AGG + chr7.2:41579794-41579813 MS.gene46097:CDS 50.0%
CCTGCAACAGTGAAGGGATA+TGG - chr7.2:41579797-41579816 None:intergenic 50.0%
TCAAGATCCATGAGGAGCTG+AGG + chr7.2:41579603-41579622 MS.gene46097:CDS 50.0%
TCAAGTTCTCAAGCCTTGGG+AGG + chr7.2:41579659-41579678 MS.gene46097:CDS 50.0%
TCAGCTCCTCATGGATCTTG+AGG - chr7.2:41579604-41579623 None:intergenic 50.0%
! TCATAGCTTGCATGGGCAAC+AGG - chr7.2:41579857-41579876 None:intergenic 50.0%
CTTGCATGGGCAACAGGTTG+AGG - chr7.2:41579851-41579870 None:intergenic 55.0%
GACGACCCTGCAACAGTGAA+GGG - chr7.2:41579803-41579822 None:intergenic 55.0%
GGTATTCCCTCAGCTCCTCA+TGG - chr7.2:41579613-41579632 None:intergenic 55.0%
TGACGACCCTGCAACAGTGA+AGG - chr7.2:41579804-41579823 None:intergenic 55.0%
TTAGGAGGAGGGAGAAGTGG+AGG + chr7.2:41579563-41579582 MS.gene46097:CDS 55.0%
TTTCACGCCTATGGGCACCT+TGG - chr7.2:41579688-41579707 None:intergenic 55.0%
CAAGCCTTGGGAGGACACCA+AGG + chr7.2:41579668-41579687 MS.gene46097:CDS 60.0%
! GAGGACACCAAGGTGCCCAT+AGG + chr7.2:41579678-41579697 MS.gene46097:CDS 60.0%
!! GGCACCTTGGTGTCCTCCCA+AGG - chr7.2:41579675-41579694 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 41579452 41579976 41579452 ID=MS.gene46097
chr7.2 mRNA 41579452 41579976 41579452 ID=MS.gene46097.t1;Parent=MS.gene46097
chr7.2 exon 41579452 41579976 41579452 ID=MS.gene46097.t1.exon1;Parent=MS.gene46097.t1
chr7.2 CDS 41579452 41579976 41579452 ID=cds.MS.gene46097.t1;Parent=MS.gene46097.t1
Gene Sequence

>MS.gene46097

ATGTCAGAAACATTACGATTTGGTGATGATGTTCCAACAGATAACAAAAAGCTAAAGCGCAAGATGGATGATGCTATAGCTGCTGATTCAGAGACGTCATTTTCTCTGAGTTTAGGAGGAGGGAGAAGTGGAGGATCTTCATCCAAATCCCTCAAGATCCATGAGGAGCTGAGGGAATACCCATGTAAGTTTTGCAACAAGAAGTTTTCAAGTTCTCAAGCCTTGGGAGGACACCAAGGTGCCCATAGGCGTGAAAGAGTGCTTGCGAAAATTGAAAAAGAAATTCAGTTAGGAACGTTTGGACTTGGGGATCATCATTTGTGTCCATATTCAATTTATCACCCATATCCCTTCACTGTTGCAGGGTCGTCACCTTTTTATCATGGACTTGGATGGCCTCAACCTGTTGCCCATGCAAGCTATGACAACCCATTTGGGATGATCAATAACTCTGCTTGGGCTACCCAAACTCCATTGAATAATAATGTGGGATTTGGAAATTATGAACTTAATAATCAGCTGTAG
Protein sequence

>MS.gene46097.t1

MSETLRFGDDVPTDNKKLKRKMDDAIAADSETSFSLSLGGGRSGGSSSKSLKIHEELREYPCKFCNKKFSSSQALGGHQGAHRRERVLAKIEKEIQLGTFGLGDHHLCPYSIYHPYPFTVAGSSPFYHGLGWPQPVAHASYDNPFGMINNSAWATQTPLNNNVGFGNYELNNQL