AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene09159

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09159.t1 MTR_4g057635 95.781 237 9 1 12 248 89 324 1.04e-139 395
MS.gene09159.t1 MTR_2g095520 41.767 249 114 8 12 246 89 320 1.16e-25 102
MS.gene09159.t1 MTR_5g014990 73.171 41 11 0 12 52 89 129 1.53e-13 69.3
MS.gene09159.t1 MTR_1g017140 75.610 41 9 1 3 42 79 119 8.62e-13 67.4
MS.gene09159.t1 MTR_3g103570 38.710 93 53 1 6 94 83 175 1.31e-12 67.0
MS.gene09159.t1 MTR_6g009430 67.500 40 13 0 12 51 88 127 1.75e-12 66.2
MS.gene09159.t1 MTR_3g461490 70.000 40 12 0 12 51 88 127 2.27e-12 65.9
MS.gene09159.t1 MTR_3g045430 56.140 57 17 1 12 68 89 137 1.07e-11 63.9
MS.gene09159.t1 MTR_4g082290 52.308 65 30 1 2 65 77 141 1.64e-11 63.9
MS.gene09159.t1 MTR_4g082230 52.308 65 30 1 2 65 77 141 1.87e-11 63.5
MS.gene09159.t1 MTR_6g090405 64.286 42 15 0 1 42 78 119 2.66e-11 62.4
MS.gene09159.t1 MTR_1g076150 75.676 37 9 0 4 40 28 64 3.95e-11 61.2
MS.gene09159.t1 MTR_3g074520 60.870 46 18 0 8 53 84 129 4.89e-11 62.4
MS.gene09159.t1 MTR_8g031360 49.231 65 27 1 1 65 79 137 7.11e-11 61.6
MS.gene09159.t1 MTR_1g017000 80.000 30 6 0 12 41 89 118 8.05e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene09159.t1 AT4G37780 60.784 51 20 0 6 56 83 133 1.51e-14 72.0
MS.gene09159.t1 AT5G65790 62.000 50 19 0 6 55 83 132 1.32e-13 70.1
MS.gene09159.t1 AT5G57620 76.744 43 9 1 3 44 79 121 1.43e-13 69.7
MS.gene09159.t1 AT1G22640 42.857 70 27 1 7 76 11 67 1.73e-13 67.4
MS.gene09159.t1 AT3G49690 70.455 44 13 0 6 49 83 126 2.26e-13 68.9
MS.gene09159.t1 AT5G56110 68.182 44 14 0 8 51 84 127 4.08e-13 68.2
MS.gene09159.t1 AT5G15310 50.000 56 28 0 4 59 1 56 2.72e-12 65.1
MS.gene09159.t1 AT3G61250 44.595 74 35 1 1 68 77 150 3.72e-12 65.1
MS.gene09159.t1 AT5G23000 77.778 36 8 0 6 41 83 118 5.26e-12 65.1
MS.gene09159.t1 AT4G12350 42.045 88 37 2 1 88 77 150 5.93e-12 64.7
MS.gene09159.t1 AT5G65230 58.696 46 19 0 8 53 84 129 2.65e-11 62.8
MS.gene09159.t1 AT1G22640 40.580 69 28 1 8 76 27 82 5.48e-11 60.8
MS.gene09159.t1 AT5G10280 58.696 46 19 0 8 53 84 129 5.60e-11 62.0

Find 39 sgRNAs with CRISPR-Local

Find 46 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTCTTGATTATGGTAAAT+AGG 0.197172 4.3:+43436748 None:intergenic
TTAAATCCATTACTAGATTA+TGG 0.297075 4.3:-43436415 MS.gene09159:CDS
ATAAACATGTTATCTTTCAT+AGG 0.331353 4.3:+43436685 None:intergenic
AAAGATAACATGTTTATGTT+TGG 0.344796 4.3:-43436679 MS.gene09159:CDS
TAACCATGGACTCTTGATTA+TGG 0.345828 4.3:+43436740 None:intergenic
ACTCTTGATTATGGTAAATA+GGG 0.347237 4.3:+43436749 None:intergenic
GTGTTTGGATAGTTATTAGA+AGG 0.391035 4.3:+43436781 None:intergenic
GAAGGAGAAGGTGGAAATTG+AGG 0.391624 4.3:+43436874 None:intergenic
ACAATGATATCAAGAACTAT+TGG 0.403975 4.3:-43436960 MS.gene09159:CDS
TGAAGATCTATGAGGGAAGT+TGG 0.405846 4.3:+43436817 None:intergenic
GTTGGATATAGTTATAATAA+TGG 0.408482 4.3:-43436451 MS.gene09159:CDS
ATAGGGTTGAAACTTGTGTT+TGG 0.411863 4.3:+43436766 None:intergenic
AATAATAACTTTATGATCAA+TGG 0.420298 4.3:-43436532 MS.gene09159:CDS
TCTAAGAATTGATGAGAAGA+AGG 0.426803 4.3:+43436856 None:intergenic
CATAGGGTAATTATATTGCA+TGG 0.428713 4.3:+43436702 None:intergenic
GTTATTAGAAGGAAGTGAAA+TGG 0.431473 4.3:+43436792 None:intergenic
ATGAATAGTGGTGGATTTGA+TGG 0.446357 4.3:-43436565 MS.gene09159:CDS
TTTCTTTGATGATGTAATGT+TGG 0.475351 4.3:+43436898 None:intergenic
CATCATCATCAAATGAATAG+TGG 0.484534 4.3:-43436577 MS.gene09159:CDS
ATTCATAAGAATGAAGAGAT+TGG 0.485771 4.3:-43436331 MS.gene09159:CDS
TGATGAGAAGAAGGAGAAGG+TGG 0.495664 4.3:+43436865 None:intergenic
TAAACATGTTATCTTTCATA+GGG 0.513576 4.3:+43436686 None:intergenic
ATAGGGTAATTATATTGCAT+GGG 0.519841 4.3:+43436703 None:intergenic
AAATGGTTTGAAGATCTATG+AGG 0.523644 4.3:+43436809 None:intergenic
ATATCATTGTCTGTCCTACC+TGG 0.529658 4.3:+43436973 None:intergenic
ATGTTTATGTTTGGAAGTGA+AGG 0.530266 4.3:-43436670 MS.gene09159:CDS
ATTATAGCAGCTCAATTGCC+AGG 0.535265 4.3:-43436991 MS.gene09159:CDS
GAAGGAAGTAGTTCATCTGA+TGG 0.557638 4.3:-43436652 MS.gene09159:CDS
TTACCATAATCAAGAGTCCA+TGG 0.563178 4.3:-43436743 MS.gene09159:CDS
TCAAGACCATAATCTAGTAA+TGG 0.563742 4.3:+43436409 None:intergenic
TTTATGATCAATGGTAACAA+TGG 0.566067 4.3:-43436523 MS.gene09159:CDS
ATTAGTAGCAGCAGCAACAA+AGG 0.568550 4.3:-43436370 MS.gene09159:CDS
TAGCAGCTCAATTGCCAGGT+AGG 0.572910 4.3:-43436987 MS.gene09159:CDS
AATTGATGAGAAGAAGGAGA+AGG 0.583152 4.3:+43436862 None:intergenic
AATGGTTTGAAGATCTATGA+GGG 0.587982 4.3:+43436810 None:intergenic
CATCATCAAATGAATAGTGG+TGG 0.594884 4.3:-43436574 MS.gene09159:CDS
GGGTAATTATATTGCATGGG+AGG 0.596210 4.3:+43436706 None:intergenic
AGGATTAACAACACTAACCA+TGG 0.605158 4.3:+43436726 None:intergenic
GGAAGTTGCACTCTTAGTCA+TGG 0.605348 4.3:-43436631 MS.gene09159:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAATAACTTTATGATCAA+TGG - chr4.3:43436810-43436829 MS.gene09159:CDS 15.0%
!!! CATTTTTGATATTGATTTAT+AGG - chr4.3:43436322-43436341 MS.gene09159:CDS 15.0%
!! AAAGATAACATGTTTATGTT+TGG - chr4.3:43436663-43436682 MS.gene09159:CDS 20.0%
!! ATAAACATGTTATCTTTCAT+AGG + chr4.3:43436660-43436679 None:intergenic 20.0%
!! GTTGGATATAGTTATAATAA+TGG - chr4.3:43436891-43436910 MS.gene09159:CDS 20.0%
!! TAAACATGTTATCTTTCATA+GGG + chr4.3:43436659-43436678 None:intergenic 20.0%
!! TTAAATCCATTACTAGATTA+TGG - chr4.3:43436927-43436946 MS.gene09159:CDS 20.0%
!!! TTTTGATATTGATTTATAGG+TGG - chr4.3:43436325-43436344 MS.gene09159:CDS 20.0%
! AAAGTTGAAGAAAAAACTCA+TGG - chr4.3:43436410-43436429 MS.gene09159:CDS 25.0%
! ACAATGATATCAAGAACTAT+TGG - chr4.3:43436382-43436401 MS.gene09159:CDS 25.0%
! ACTCTTGATTATGGTAAATA+GGG + chr4.3:43436596-43436615 None:intergenic 25.0%
! ATAGGGTAATTATATTGCAT+GGG + chr4.3:43436642-43436661 None:intergenic 25.0%
! ATTCATAAGAATGAAGAGAT+TGG - chr4.3:43437011-43437030 MS.gene09159:CDS 25.0%
! CAATATGAAGAAAAATCAAG+TGG - chr4.3:43436867-43436886 MS.gene09159:CDS 25.0%
! TTTATGATCAATGGTAACAA+TGG - chr4.3:43436819-43436838 MS.gene09159:CDS 25.0%
!! CACTTGATTTTTCTTCATAT+TGG + chr4.3:43436869-43436888 None:intergenic 25.0%
!!! TTTCTTTGATGATGTAATGT+TGG + chr4.3:43436447-43436466 None:intergenic 25.0%
AAATGGTTTGAAGATCTATG+AGG + chr4.3:43436536-43436555 None:intergenic 30.0%
AATGGTTTGAAGATCTATGA+GGG + chr4.3:43436535-43436554 None:intergenic 30.0%
ATGTTTATGTTTGGAAGTGA+AGG - chr4.3:43436672-43436691 MS.gene09159:CDS 30.0%
CATAGGGTAATTATATTGCA+TGG + chr4.3:43436643-43436662 None:intergenic 30.0%
CATCATCATCAAATGAATAG+TGG - chr4.3:43436765-43436784 MS.gene09159:CDS 30.0%
GACTCTTGATTATGGTAAAT+AGG + chr4.3:43436597-43436616 None:intergenic 30.0%
GTGTTTGGATAGTTATTAGA+AGG + chr4.3:43436564-43436583 None:intergenic 30.0%
GTTATTAGAAGGAAGTGAAA+TGG + chr4.3:43436553-43436572 None:intergenic 30.0%
TCAAGACCATAATCTAGTAA+TGG + chr4.3:43436936-43436955 None:intergenic 30.0%
TCTAAGAATTGATGAGAAGA+AGG + chr4.3:43436489-43436508 None:intergenic 30.0%
AATTGATGAGAAGAAGGAGA+AGG + chr4.3:43436483-43436502 None:intergenic 35.0%
AGGATTAACAACACTAACCA+TGG + chr4.3:43436619-43436638 None:intergenic 35.0%
ATAGGGTTGAAACTTGTGTT+TGG + chr4.3:43436579-43436598 None:intergenic 35.0%
CATCATCAAATGAATAGTGG+TGG - chr4.3:43436768-43436787 MS.gene09159:CDS 35.0%
GAAGAAAAATCAAGTGGAGT+TGG - chr4.3:43436873-43436892 MS.gene09159:CDS 35.0%
TAACCATGGACTCTTGATTA+TGG + chr4.3:43436605-43436624 None:intergenic 35.0%
TTACCATAATCAAGAGTCCA+TGG - chr4.3:43436599-43436618 MS.gene09159:CDS 35.0%
!! ATGAATAGTGGTGGATTTGA+TGG - chr4.3:43436777-43436796 MS.gene09159:CDS 35.0%
!! GGTAACAATGGAAGTTTTGT+TGG - chr4.3:43436831-43436850 MS.gene09159:CDS 35.0%
ATATCATTGTCTGTCCTACC+TGG + chr4.3:43436372-43436391 None:intergenic 40.0%
ATTAGTAGCAGCAGCAACAA+AGG - chr4.3:43436972-43436991 MS.gene09159:CDS 40.0%
ATTATAGCAGCTCAATTGCC+AGG - chr4.3:43436351-43436370 MS.gene09159:CDS 40.0%
GAAGGAAGTAGTTCATCTGA+TGG - chr4.3:43436690-43436709 MS.gene09159:CDS 40.0%
GGGTAATTATATTGCATGGG+AGG + chr4.3:43436639-43436658 None:intergenic 40.0%
TGAAGATCTATGAGGGAAGT+TGG + chr4.3:43436528-43436547 None:intergenic 40.0%
GAAGGAGAAGGTGGAAATTG+AGG + chr4.3:43436471-43436490 None:intergenic 45.0%
GGAAGTTGCACTCTTAGTCA+TGG - chr4.3:43436711-43436730 MS.gene09159:CDS 45.0%
TGATGAGAAGAAGGAGAAGG+TGG + chr4.3:43436480-43436499 None:intergenic 45.0%
TAGCAGCTCAATTGCCAGGT+AGG - chr4.3:43436355-43436374 MS.gene09159:CDS 50.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 43436309 43437055 43436309 ID=MS.gene09159
chr4.3 mRNA 43436309 43437055 43436309 ID=MS.gene09159.t1;Parent=MS.gene09159
chr4.3 exon 43436309 43437055 43436309 ID=MS.gene09159.t1.exon1;Parent=MS.gene09159.t1
chr4.3 CDS 43436309 43437055 43436309 ID=cds.MS.gene09159.t1;Parent=MS.gene09159.t1
Gene Sequence

>MS.gene09159

ATGACTATAATCACATTTTTGATATTGATTTATAGGTGGTCAATTATAGCAGCTCAATTGCCAGGTAGGACAGACAATGATATCAAGAACTATTGGAACACAAAGTTGAAGAAAAAACTCATGGCTATGCAGTTTCCAACATTACATCATCAAAGAAAACCTCAATTTCCACCTTCTCCTTCTTCTCATCAATTCTTAGACTACTTTACTCACACACCAACTTCCCTCATAGATCTTCAAACCATTTCACTTCCTTCTAATAACTATCCAAACACAAGTTTCAACCCTATTTACCATAATCAAGAGTCCATGGTTAGTGTTGTTAATCCTCCCATGCAATATAATTACCCTATGAAAGATAACATGTTTATGTTTGGAAGTGAAGGAAGTAGTTCATCTGATGGAAGTTGCACTCTTAGTCATGGCAAAGAAATCAAGCAAGAAGAAATTGTTTATCATCATCATCAAATGAATAGTGGTGGATTTGATGGCTATAACAATAATAATAACTTTATGATCAATGGTAACAATGGAAGTTTTGTTGGTGAAAGTGTTAACCAATATGAAGAAAAATCAAGTGGAGTTGGATATAGTTATAATAATGGTCAAAGTCAAACATTAAATCCATTACTAGATTATGGTCTTGAAGATATTAAACAATTGATTAGTAGCAGCAGCAACAAAGGTTTTCATGTTGATGATATTCATAAGAATGAAGAGATTGGTATGTACTACTTTGATTATTAA
Protein sequence

>MS.gene09159.t1

MTIITFLILIYRWSIIAAQLPGRTDNDIKNYWNTKLKKKLMAMQFPTLHHQRKPQFPPSPSSHQFLDYFTHTPTSLIDLQTISLPSNNYPNTSFNPIYHNQESMVSVVNPPMQYNYPMKDNMFMFGSEGSSSSDGSCTLSHGKEIKQEEIVYHHHQMNSGGFDGYNNNNNFMINGNNGSFVGESVNQYEEKSSGVGYSYNNGQSQTLNPLLDYGLEDIKQLISSSSNKGFHVDDIHKNEEIGMYYFDY