AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene036524

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036524.t1 MTR_4g119050 97.087 103 3 0 1 103 1 103 2.76e-71 207
MS.gene036524.t1 MTR_4g119030 97.087 103 3 0 1 103 1 103 2.76e-71 207
MS.gene036524.t1 MTR_4g119040 97.087 103 3 0 1 103 1 103 2.76e-71 207
MS.gene036524.t1 MTR_2g019900 81.553 103 18 1 1 103 1 102 1.87e-58 175
MS.gene036524.t1 MTR_2g019950 65.049 103 35 1 1 103 1 102 8.23e-45 140
MS.gene036524.t1 MTR_1g088905 58.252 103 42 1 1 103 1 102 2.52e-41 132
MS.gene036524.t1 MTR_7g108250 56.311 103 44 1 1 103 1 102 9.68e-41 130
MS.gene036524.t1 MTR_7g026770 59.804 102 41 0 1 102 22 123 7.79e-40 134
MS.gene036524.t1 MTR_7g022710 54.369 103 47 0 1 103 30 132 2.45e-39 127
MS.gene036524.t1 MTR_7g022690 53.398 103 48 0 1 103 30 132 2.28e-38 125
MS.gene036524.t1 MTR_7g022550 52.427 103 49 0 1 103 30 132 1.58e-37 123
MS.gene036524.t1 MTR_7g108220 51.961 102 49 0 1 102 1 102 2.73e-34 114
MS.gene036524.t1 MTR_1g088910 53.922 102 46 1 1 102 1 101 5.58e-34 113
MS.gene036524.t1 MTR_7g108210 50.980 102 50 0 1 102 1 102 1.75e-33 112
MS.gene036524.t1 MTR_1g088920 52.083 96 45 1 1 96 1 95 5.38e-33 110
MS.gene036524.t1 MTR_1g088925 50.000 96 47 1 1 96 1 95 7.98e-33 110
MS.gene036524.t1 MTR_7g108200 50.000 96 47 1 1 96 1 95 2.07e-32 109
MS.gene036524.t1 MTR_1g088895 48.544 103 52 1 1 103 1 102 6.43e-30 103
MS.gene036524.t1 MTR_7g108260 44.118 102 56 1 1 102 1 101 6.78e-28 97.8
MS.gene036524.t1 MTR_2g090755 42.000 100 58 0 4 103 41 140 2.48e-25 92.4
MS.gene036524.t1 MTR_2g048970 46.667 105 53 1 2 103 29 133 1.16e-24 90.5
MS.gene036524.t1 MTR_2g014760 42.857 105 51 2 3 103 28 127 1.32e-24 90.5
MS.gene036524.t1 MTR_4g079110 43.689 103 48 3 6 103 58 155 2.56e-24 90.5
MS.gene036524.t1 MTR_1g015890 41.509 106 53 2 3 103 48 149 6.01e-21 81.6
MS.gene036524.t1 MTR_3g104510 37.624 101 56 2 3 102 23 117 7.65e-19 75.5
MS.gene036524.t1 MTR_7g035245 39.604 101 60 1 1 101 3 102 2.18e-18 73.9
MS.gene036524.t1 MTR_3g077570 35.644 101 64 1 1 101 18 117 2.24e-16 69.3
MS.gene036524.t1 MTR_1g069255 39.000 100 59 2 2 100 84 182 2.81e-16 70.5
MS.gene036524.t1 MTR_5g077550 40.777 103 60 1 2 103 21 123 2.28e-15 66.6
MS.gene036524.t1 MTR_3g077560 33.663 101 66 1 1 101 21 120 9.03e-15 65.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene036524.t1 AT5G18600 84.466 103 15 1 1 103 1 102 7.41e-61 181
MS.gene036524.t1 AT4G15690 78.641 103 21 1 1 103 1 102 5.08e-58 174
MS.gene036524.t1 AT4G15680 76.699 103 23 1 1 103 1 102 5.86e-58 174
MS.gene036524.t1 AT4G15700 76.699 103 23 1 1 103 1 102 3.28e-57 172
MS.gene036524.t1 AT4G15670 76.699 103 23 1 1 103 1 102 4.32e-57 171
MS.gene036524.t1 AT4G15660 75.728 103 24 1 1 103 1 102 4.83e-56 169
MS.gene036524.t1 AT1G03020 56.311 103 44 1 1 103 1 102 1.10e-41 132
MS.gene036524.t1 AT3G21460 61.165 103 39 1 1 103 1 102 2.05e-41 132
MS.gene036524.t1 AT3G62930 57.282 103 43 1 1 103 1 102 2.05e-41 132
MS.gene036524.t1 AT2G47870 52.427 103 49 0 1 103 1 103 3.63e-37 121
MS.gene036524.t1 AT1G06830 57.292 96 40 1 1 96 1 95 8.83e-37 120
MS.gene036524.t1 AT2G30540 57.292 96 40 1 1 96 1 95 1.38e-36 120
MS.gene036524.t1 AT3G62950 48.544 103 53 0 1 103 1 103 6.96e-35 115
MS.gene036524.t1 AT2G47880 54.167 96 43 1 1 96 1 95 7.94e-34 112
MS.gene036524.t1 AT5G14070 50.000 110 48 1 1 103 31 140 1.27e-33 113
MS.gene036524.t1 AT3G62960 52.083 96 45 1 1 96 1 95 2.97e-32 108
MS.gene036524.t1 AT3G02000 52.830 106 45 1 3 103 31 136 1.22e-29 103
MS.gene036524.t1 AT1G28480 38.095 105 62 1 2 103 33 137 2.64e-23 87.4
MS.gene036524.t1 AT4G33040 42.991 107 52 3 3 103 41 144 5.42e-22 84.3
MS.gene036524.t1 AT5G11930 41.584 101 48 3 3 102 57 147 1.12e-19 78.6
MS.gene036524.t1 AT1G03850 36.082 97 57 1 7 103 59 150 3.58e-18 74.7
MS.gene036524.t1 AT5G63030 38.384 99 60 1 3 101 21 118 1.14e-17 72.8
MS.gene036524.t1 AT2G20270 35.354 99 64 0 2 100 76 174 3.06e-15 67.8
MS.gene036524.t1 AT5G40370 34.653 101 65 1 1 101 3 102 5.02e-15 65.5
MS.gene036524.t1 AT4G28730 38.000 100 60 2 2 100 71 169 4.25e-14 64.7
MS.gene036524.t1 AT1G03850 32.927 82 50 1 7 88 59 135 8.27e-11 55.8

Find 14 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTTCAATGTCTCTCCCTCT+TGG 0.435904 8.4:+12584794 None:intergenic
CAAGCTCTTATTTCAAGACT+TGG 0.446349 8.4:-12584773 MS.gene036524:CDS
TTCATTGGTGGTGAGCTTGT+TGG 0.448261 8.4:-12584725 MS.gene036524:CDS
ATGAAGACTCATGACTTGAT+TGG 0.471874 8.4:+12584697 None:intergenic
TCATCAAGTTCATAAACTGC+TGG 0.480601 8.4:+12584821 None:intergenic
ATTGGTGGTGAGCTTGTTGG+TGG 0.517957 8.4:-12584722 MS.gene036524:CDS
ATGAAAACAGTTGGAACAGA+TGG 0.519711 8.4:+12584743 None:intergenic
CTCTTGCTGAATATCACCAC+TGG 0.581366 8.4:+12584899 None:intergenic
AATGGAGAGAGTAACAAAGA+TGG 0.583009 8.4:-12584933 MS.gene036524:CDS
TAAGCATTGGAATCAAGGAA+CGG 0.606032 8.4:+12584669 None:intergenic
TCACCACCAATGAAAACAGT+TGG 0.607302 8.4:+12584734 None:intergenic
AACTTGATGAGATACCAAGA+GGG 0.630472 8.4:-12584808 MS.gene036524:CDS
GAACTTGATGAGATACCAAG+AGG 0.671905 8.4:-12584809 MS.gene036524:CDS
GATGGTTTCAGAGAGACCAG+TGG 0.745891 8.4:-12584915 MS.gene036524:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTAAGCATTGGAATCA+AGG + chr8.4:12584914-12584933 None:intergenic 25.0%
ATTCCAATGCTTAAAAAAGC+TGG - chr8.4:12584916-12584935 MS.gene036524:CDS 30.0%
! AAGACACTATTTTGTGACTT+TGG - chr8.4:12584724-12584743 MS.gene036524:CDS 30.0%
AACTTGATGAGATACCAAGA+GGG - chr8.4:12584767-12584786 MS.gene036524:CDS 35.0%
ATGAAAACAGTTGGAACAGA+TGG + chr8.4:12584835-12584854 None:intergenic 35.0%
ATGAAGACTCATGACTTGAT+TGG + chr8.4:12584881-12584900 None:intergenic 35.0%
TAAAAAAGCTGGAGCTCTTT+GGG - chr8.4:12584927-12584946 MS.gene036524:CDS 35.0%
TCATCAAGTTCATAAACTGC+TGG + chr8.4:12584757-12584776 None:intergenic 35.0%
TTAAAAAAGCTGGAGCTCTT+TGG - chr8.4:12584926-12584945 MS.gene036524:CDS 35.0%
! CAAGCTCTTATTTCAAGACT+TGG - chr8.4:12584802-12584821 MS.gene036524:CDS 35.0%
! TCTGTTCCAACTGTTTTCAT+TGG - chr8.4:12584835-12584854 MS.gene036524:CDS 35.0%
!! TAAGCATTGGAATCAAGGAA+CGG + chr8.4:12584909-12584928 None:intergenic 35.0%
GAACTTGATGAGATACCAAG+AGG - chr8.4:12584766-12584785 MS.gene036524:CDS 40.0%
TCACCACCAATGAAAACAGT+TGG + chr8.4:12584844-12584863 None:intergenic 40.0%
! GTTCCAACTGTTTTCATTGG+TGG - chr8.4:12584838-12584857 MS.gene036524:CDS 40.0%
!!! GCTCCAGCTTTTTTAAGCAT+TGG + chr8.4:12584922-12584941 None:intergenic 40.0%
CTCTTGCTGAATATCACCAC+TGG + chr8.4:12584679-12584698 None:intergenic 45.0%
TGTTCAATGTCTCTCCCTCT+TGG + chr8.4:12584784-12584803 None:intergenic 45.0%
!! TTCATTGGTGGTGAGCTTGT+TGG - chr8.4:12584850-12584869 MS.gene036524:CDS 45.0%
GATGGTTTCAGAGAGACCAG+TGG - chr8.4:12584660-12584679 MS.gene036524:CDS 50.0%
!! ATTGGTGGTGAGCTTGTTGG+TGG - chr8.4:12584853-12584872 MS.gene036524:CDS 50.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 12584643 12584954 12584643 ID=MS.gene036524
chr8.4 mRNA 12584643 12584954 12584643 ID=MS.gene036524.t1;Parent=MS.gene036524
chr8.4 exon 12584643 12584954 12584643 ID=MS.gene036524.t1.exon1;Parent=MS.gene036524.t1
chr8.4 CDS 12584643 12584954 12584643 ID=cds.MS.gene036524.t1;Parent=MS.gene036524.t1
Gene Sequence

>MS.gene036524

ATGGAGAGAGTAACAAAGATGGTTTCAGAGAGACCAGTGGTGATATTCAGCAAGAGTTCATGTTGCATGAGTCATACAATAAAGACACTATTTTGTGACTTTGGTGTGAATCCAGCAGTTTATGAACTTGATGAGATACCAAGAGGGAGAGACATTGAACAAGCTCTTATTTCAAGACTTGGTTGTTCTCCATCTGTTCCAACTGTTTTCATTGGTGGTGAGCTTGTTGGTGGAGCCAATCAAGTCATGAGTCTTCATCTTAACCGTTCCTTGATTCCAATGCTTAAAAAAGCTGGAGCTCTTTGGGTTTAA
Protein sequence

>MS.gene036524.t1

MERVTKMVSERPVVIFSKSSCCMSHTIKTLFCDFGVNPAVYELDEIPRGRDIEQALISRLGCSPSVPTVFIGGELVGGANQVMSLHLNRSLIPMLKKAGALWV