AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene073481

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073481.t1 MTR_2g438110 100.000 101 0 0 1 101 1 101 8.86e-67 206
MS.gene073481.t1 MTR_2g039960 61.765 68 26 0 34 101 41 108 8.99e-23 90.9
MS.gene073481.t1 MTR_4g125970 60.606 66 26 0 34 99 41 106 4.76e-21 86.3
MS.gene073481.t1 MTR_4g125970 60.606 66 26 0 34 99 58 123 4.87e-21 86.3
MS.gene073481.t1 MTR_2g099620 60.317 63 25 0 34 96 25 87 1.51e-20 84.7
MS.gene073481.t1 MTR_2g099620 60.317 63 25 0 34 96 41 103 1.71e-20 84.7
MS.gene073481.t1 MTR_8g018400 58.730 63 26 0 34 96 41 103 3.09e-20 84.0
MS.gene073481.t1 MTR_7g076830 39.726 73 42 1 26 96 133 205 3.51e-12 61.2
MS.gene073481.t1 MTR_7g076820 39.726 73 42 1 26 96 140 212 3.98e-12 61.2
MS.gene073481.t1 MTR_7g076800 39.726 73 42 1 26 96 131 203 4.43e-12 60.8
MS.gene073481.t1 MTR_3g107420 41.892 74 41 1 25 96 36 109 3.08e-11 58.2
MS.gene073481.t1 MTR_4g010565 42.308 78 39 2 25 96 109 186 5.95e-11 57.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene073481.t1 AT3G19760 69.903 103 29 1 1 101 1 103 3.09e-41 140
MS.gene073481.t1 AT1G51380 65.060 83 29 0 19 101 8 90 2.02e-36 125
MS.gene073481.t1 AT1G51380 65.060 83 29 0 19 101 8 90 3.21e-36 124
MS.gene073481.t1 AT1G51380 65.060 83 29 0 19 101 8 90 2.30e-35 124
MS.gene073481.t1 AT1G51380 65.060 83 29 0 19 101 8 90 1.03e-34 120
MS.gene073481.t1 AT3G13920 60.606 66 26 0 34 99 30 95 2.24e-21 87.0
MS.gene073481.t1 AT3G13920 60.606 66 26 0 34 99 40 105 2.53e-21 87.0
MS.gene073481.t1 AT3G13920 60.606 66 26 0 34 99 40 105 2.73e-21 86.7
MS.gene073481.t1 AT3G13920 60.606 66 26 0 34 99 44 109 2.90e-21 86.7
MS.gene073481.t1 AT1G54270 59.091 66 27 0 34 99 40 105 7.11e-21 85.5
MS.gene073481.t1 AT1G72730 60.606 66 26 0 34 99 42 107 2.61e-20 84.0
MS.gene073481.t1 AT3G13920 54.545 66 25 1 34 99 40 100 9.47e-16 71.2
MS.gene073481.t1 AT1G54270 53.030 66 26 1 34 99 40 100 2.61e-15 70.1
MS.gene073481.t1 AT3G61240 39.744 78 46 1 20 96 110 187 1.09e-13 65.5
MS.gene073481.t1 AT3G61240 39.744 78 46 1 20 96 110 187 1.09e-13 65.5
MS.gene073481.t1 AT2G45810 43.836 73 39 1 26 96 145 217 2.06e-13 64.7
MS.gene073481.t1 AT4G00660 38.202 89 45 2 8 96 116 194 2.33e-13 64.7
MS.gene073481.t1 AT4G00660 38.202 89 45 2 8 96 116 194 2.33e-13 64.7
MS.gene073481.t1 AT4G34910 45.000 60 33 0 34 93 47 106 2.05e-11 58.9

Find 31 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GACTTCGATGATTGCCTTGA+CGG 0.331628 2.1:+54901748 MS.gene073481:CDS
GGCGACAGCTTCTGTGGTTC+CGG 0.382833 2.1:+54901502 MS.gene073481:CDS
ACATCCCTTCCTTGAATAAT+CGG 0.387301 2.1:-54901695 None:intergenic
TCCGATTGCTTTCACGCCTT+CGG 0.420202 2.1:-54901576 None:intergenic
GATTGCCTTGACGGTTTGTC+AGG 0.429119 2.1:+54901757 MS.gene073481:CDS
GTTATTGCTCAGGCGCAATC+TGG 0.470550 2.1:+54901716 MS.gene073481:CDS
GAATCGCCGACGAACGGTTA+CGG 0.475337 2.1:+54901526 MS.gene073481:CDS
AATCGGAAGCTTCGAAGAGA+TGG 0.477193 2.1:+54901592 MS.gene073481:CDS
CTTCGTGGAATCTACCAATA+CGG 0.479176 2.1:+54901632 MS.gene073481:CDS
AAGGTTTCTCAAATCCGTAT+TGG 0.482981 2.1:-54901646 None:intergenic
AGGAAGGGATGTTATTGCTC+AGG 0.483228 2.1:+54901706 MS.gene073481:CDS
GCTCAGGCGCAATCTGGTAC+TGG 0.490296 2.1:+54901722 MS.gene073481:CDS
ACCGTTCGTCGGCGATTCGC+CGG 0.496560 2.1:-54901521 None:intergenic
ACCGAAGGCGTGAAAGCAAT+CGG 0.496626 2.1:+54901575 MS.gene073481:CDS
ATCGGAAGCTTCGAAGAGAT+GGG 0.501930 2.1:+54901593 MS.gene073481:CDS
ATAAAAGACGATTTGCTTCG+TGG 0.502129 2.1:+54901617 MS.gene073481:CDS
GCTGTGGCGCCGATTATTCA+AGG 0.516832 2.1:+54901686 MS.gene073481:CDS
GGTTACGGCGAACGAGGACA+TGG 0.543356 2.1:+54901541 MS.gene073481:CDS
TGCGATTCAACAGCGTGCTG+TGG 0.544984 2.1:+54901670 MS.gene073481:CDS
TGGCGCCGATTATTCAAGGA+AGG 0.572845 2.1:+54901690 MS.gene073481:CDS
GGCGATGGCGACAGCTTCTG+TGG 0.581450 2.1:+54901496 None:intergenic
CGTTCGCCGTAACCGTTCGT+CGG 0.582245 2.1:-54901532 None:intergenic
TCCGGCGAATCGCCGACGAA+CGG 0.596292 2.1:+54901520 MS.gene073481:CDS
GCACGCTGTTGAATCGCAGA+AGG 0.610346 2.1:-54901665 None:intergenic
AGAAGAAACTCACTCTCTGA+CGG 0.631263 2.1:-54901792 None:intergenic
AACAACCTGACAAACCGTCA+AGG 0.644356 2.1:-54901762 None:intergenic
ACGAACGGTTACGGCGAACG+AGG 0.645748 2.1:+54901535 MS.gene073481:CDS
GGCGCCGATTATTCAAGGAA+GGG 0.657629 2.1:+54901691 MS.gene073481:CDS
TCGGAAGCTTCGAAGAGATG+GGG 0.670150 2.1:+54901594 MS.gene073481:CDS
AGAAACTCACTCTCTGACGG+AGG 0.672890 2.1:-54901789 None:intergenic
ATGGATTTCGAAACTACCGA+AGG 0.736816 2.1:+54901560 MS.gene073481:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGGTTTCTCAAATCCGTAT+TGG - chr2.1:54901649-54901668 None:intergenic 35.0%
ACATCCCTTCCTTGAATAAT+CGG - chr2.1:54901698-54901717 None:intergenic 35.0%
! ATAAAAGACGATTTGCTTCG+TGG + chr2.1:54901617-54901636 MS.gene073481:CDS 35.0%
ATGGATTTCGAAACTACCGA+AGG + chr2.1:54901560-54901579 MS.gene073481:CDS 40.0%
CTTCGTGGAATCTACCAATA+CGG + chr2.1:54901632-54901651 MS.gene073481:CDS 40.0%
AACAACCTGACAAACCGTCA+AGG - chr2.1:54901765-54901784 None:intergenic 45.0%
AATCGGAAGCTTCGAAGAGA+TGG + chr2.1:54901592-54901611 MS.gene073481:CDS 45.0%
AGGAAGGGATGTTATTGCTC+AGG + chr2.1:54901706-54901725 MS.gene073481:CDS 45.0%
ATCGGAAGCTTCGAAGAGAT+GGG + chr2.1:54901593-54901612 MS.gene073481:CDS 45.0%
GACTTCGATGATTGCCTTGA+CGG + chr2.1:54901748-54901767 MS.gene073481:CDS 45.0%
GATTGCCTTGACGGTTTGTC+AGG + chr2.1:54901757-54901776 MS.gene073481:CDS 50.0%
GTTATTGCTCAGGCGCAATC+TGG + chr2.1:54901716-54901735 MS.gene073481:CDS 50.0%
TCCGATTGCTTTCACGCCTT+CGG - chr2.1:54901579-54901598 None:intergenic 50.0%
TCGGAAGCTTCGAAGAGATG+GGG + chr2.1:54901594-54901613 MS.gene073481:CDS 50.0%
! ACCGAAGGCGTGAAAGCAAT+CGG + chr2.1:54901575-54901594 MS.gene073481:CDS 50.0%
!! GGCGCCGATTATTCAAGGAA+GGG + chr2.1:54901691-54901710 MS.gene073481:CDS 50.0%
!! TGGCGCCGATTATTCAAGGA+AGG + chr2.1:54901690-54901709 MS.gene073481:CDS 50.0%
GAATCGCCGACGAACGGTTA+CGG + chr2.1:54901526-54901545 MS.gene073481:CDS 55.0%
GCACGCTGTTGAATCGCAGA+AGG - chr2.1:54901668-54901687 None:intergenic 55.0%
TGCGATTCAACAGCGTGCTG+TGG + chr2.1:54901670-54901689 MS.gene073481:CDS 55.0%
!! GCTGTGGCGCCGATTATTCA+AGG + chr2.1:54901686-54901705 MS.gene073481:CDS 55.0%
ACGAACGGTTACGGCGAACG+AGG + chr2.1:54901535-54901554 MS.gene073481:CDS 60.0%
CGTTCGCCGTAACCGTTCGT+CGG - chr2.1:54901535-54901554 None:intergenic 60.0%
GCTCAGGCGCAATCTGGTAC+TGG + chr2.1:54901722-54901741 MS.gene073481:CDS 60.0%
GGCGACAGCTTCTGTGGTTC+CGG + chr2.1:54901502-54901521 MS.gene073481:CDS 60.0%
GGTTACGGCGAACGAGGACA+TGG + chr2.1:54901541-54901560 MS.gene073481:CDS 60.0%
ACCGTTCGTCGGCGATTCGC+CGG - chr2.1:54901524-54901543 None:intergenic 65.0%
TCCGGCGAATCGCCGACGAA+CGG + chr2.1:54901520-54901539 MS.gene073481:CDS 65.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 54901500 54901805 54901500 ID=MS.gene073481
chr2.1 mRNA 54901500 54901805 54901500 ID=MS.gene073481.t1;Parent=MS.gene073481
chr2.1 exon 54901500 54901805 54901500 ID=MS.gene073481.t1.exon1;Parent=MS.gene073481.t1
chr2.1 CDS 54901500 54901805 54901500 ID=cds.MS.gene073481.t1;Parent=MS.gene073481.t1
Gene Sequence

>MS.gene073481

ATGGCGACAGCTTCTGTGGTTCCGGCGAATCGCCGACGAACGGTTACGGCGAACGAGGACATGGATTTCGAAACTACCGAAGGCGTGAAAGCAATCGGAAGCTTCGAAGAGATGGGGATAAAAGACGATTTGCTTCGTGGAATCTACCAATACGGATTTGAGAAACCTTCTGCGATTCAACAGCGTGCTGTGGCGCCGATTATTCAAGGAAGGGATGTTATTGCTCAGGCGCAATCTGGTACTGGAAAGACTTCGATGATTGCCTTGACGGTTTGTCAGGTTGTTGATACCTCCGTCAGAGAGTGA
Protein sequence

>MS.gene073481.t1

MATASVVPANRRRTVTANEDMDFETTEGVKAIGSFEEMGIKDDLLRGIYQYGFEKPSAIQQRAVAPIIQGRDVIAQAQSGTGKTSMIALTVCQVVDTSVRE