AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene023428

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023428.t1 MTR_8g080690 98.261 115 2 0 3 117 83 197 8.77e-80 239
MS.gene023428.t1 MTR_8g080680 75.676 111 25 2 9 117 68 178 6.09e-51 166
MS.gene023428.t1 MTR_8g080670 64.286 112 22 3 8 117 113 208 1.81e-36 128
MS.gene023428.t1 MTR_3g085180 60.185 108 39 2 11 117 107 211 2.65e-33 120
MS.gene023428.t1 MTR_1g053715 45.918 98 46 2 25 117 25 120 1.32e-17 77.0
MS.gene023428.t1 MTR_7g092930 59.259 54 22 0 64 117 61 114 3.79e-17 75.5
MS.gene023428.t1 MTR_4g109770 63.830 47 17 0 71 117 123 169 5.36e-17 75.5
MS.gene023428.t1 MTR_7g444860 40.000 105 50 3 19 117 98 195 8.39e-17 74.3
MS.gene023428.t1 MTR_5g046670 49.206 63 32 0 55 117 228 290 1.09e-16 74.7
MS.gene023428.t1 MTR_8g463140 63.265 49 18 0 69 117 63 111 1.36e-16 71.6
MS.gene023428.t1 MTR_8g005960 63.265 49 18 0 69 117 185 233 3.07e-16 72.8
MS.gene023428.t1 MTR_2g078770 61.224 49 19 0 69 117 56 104 5.11e-16 70.1
MS.gene023428.t1 MTR_2g461920 50.820 61 30 0 57 117 157 217 7.91e-16 72.4
MS.gene023428.t1 MTR_4g088555 61.224 49 19 0 69 117 61 109 8.19e-16 68.9
MS.gene023428.t1 MTR_2g014200 55.102 49 22 0 69 117 62 110 1.48e-14 65.5
MS.gene023428.t1 MTR_3g099080 59.574 47 19 0 71 117 98 144 4.68e-14 67.0
MS.gene023428.t1 MTR_7g028740 55.319 47 21 0 71 117 77 123 4.96e-14 67.0
MS.gene023428.t1 MTR_1g035010 54.000 50 23 0 68 117 101 150 1.04e-13 66.2
MS.gene023428.t1 MTR_8g096780 47.541 61 32 0 57 117 85 145 1.51e-13 65.9
MS.gene023428.t1 MTR_1g086250 42.857 84 43 1 39 117 110 193 2.00e-13 65.5
MS.gene023428.t1 MTR_2g046550 55.319 47 21 0 71 117 139 185 2.08e-12 62.8
MS.gene023428.t1 MTR_7g110320 55.319 47 21 0 71 117 145 191 3.21e-12 62.0
MS.gene023428.t1 MTR_7g110320 55.319 47 21 0 71 117 145 191 3.41e-12 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene023428.t1 AT5G43270 57.143 119 47 3 3 117 97 215 7.91e-32 116
MS.gene023428.t1 AT5G43270 57.143 119 47 3 3 117 97 215 7.91e-32 116
MS.gene023428.t1 AT5G43270 57.143 119 47 3 3 117 97 215 7.91e-32 116
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 1.82e-28 106
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 4.17e-28 105
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 4.17e-28 105
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 4.17e-28 105
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 4.17e-28 105
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 4.17e-28 105
MS.gene023428.t1 AT1G27370 52.778 108 49 2 12 117 115 222 4.17e-28 105
MS.gene023428.t1 AT1G27360 49.533 107 53 1 12 117 115 221 1.22e-26 102
MS.gene023428.t1 AT1G27360 49.533 107 53 1 12 117 115 221 1.22e-26 102
MS.gene023428.t1 AT1G27360 49.533 107 53 1 12 117 115 221 1.22e-26 102
MS.gene023428.t1 AT1G27360 49.533 107 53 1 12 117 115 221 1.22e-26 102
MS.gene023428.t1 AT1G69170 62.745 51 19 0 67 117 120 170 2.76e-18 79.0
MS.gene023428.t1 AT2G42200 62.000 50 19 0 68 117 71 120 2.52e-17 76.3
MS.gene023428.t1 AT1G02065 58.182 55 23 0 63 117 180 234 3.54e-17 74.7
MS.gene023428.t1 AT1G02065 58.182 55 23 0 63 117 180 234 1.35e-16 73.9
MS.gene023428.t1 AT2G33810 55.319 47 21 0 71 117 54 100 2.48e-14 64.7
MS.gene023428.t1 AT1G20980 49.180 61 31 0 57 117 106 166 3.92e-14 67.8
MS.gene023428.t1 AT3G60030 57.447 47 20 0 71 117 127 173 4.25e-14 67.4
MS.gene023428.t1 AT5G50670 50.980 51 25 0 67 117 97 147 4.79e-14 67.0
MS.gene023428.t1 AT5G50670 50.980 51 25 0 67 117 97 147 4.79e-14 67.0
MS.gene023428.t1 AT5G50570 50.980 51 25 0 67 117 97 147 4.79e-14 67.0
MS.gene023428.t1 AT5G50570 50.980 51 25 0 67 117 97 147 4.79e-14 67.0
MS.gene023428.t1 AT1G76580 54.000 50 23 0 68 117 111 160 8.50e-14 66.6
MS.gene023428.t1 AT1G76580 54.000 50 23 0 68 117 111 160 8.85e-14 66.6
MS.gene023428.t1 AT1G76580 54.000 50 23 0 68 117 111 160 9.85e-14 66.6
MS.gene023428.t1 AT2G47070 57.447 47 20 0 71 117 106 152 4.14e-13 64.7
MS.gene023428.t1 AT3G57920 56.250 48 21 0 70 117 58 105 5.24e-13 64.3
MS.gene023428.t1 AT3G15270 48.936 47 24 0 71 117 63 109 3.22e-11 57.8
MS.gene023428.t1 AT1G53160 51.064 47 23 0 71 117 54 100 4.44e-11 57.0
MS.gene023428.t1 AT1G53160 51.064 47 23 0 71 117 54 100 4.60e-11 57.0
MS.gene023428.t1 AT1G53160 51.064 47 23 0 71 117 54 100 4.60e-11 57.0

Find 20 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTTGCGTCATCTTTAAGTAT+TGG 0.335589 4.2:+14032650 MS.gene023428:CDS
TATAACCACCATAGGAGATT+TGG 0.339545 4.2:-14032795 None:intergenic
AGCTTTACCTGCCACATTGC+TGG 0.352012 4.2:-14032841 None:intergenic
CCAGAGCTTTCTTCTGTCTC+TGG 0.403530 4.2:+14032536 MS.gene023428:CDS
TCTCCTATGGTGGTTATAGA+TGG 0.407218 4.2:+14032800 MS.gene023428:CDS
CTTGCAATTTCCGCGCTGCC+AGG 0.416641 4.2:+14032700 MS.gene023428:CDS
CGCTGCCAGGTTGAAGGTTG+TGG 0.443635 4.2:+14032713 MS.gene023428:CDS
TTTCCGCGCTGCCAGGTTGA+AGG 0.450558 4.2:+14032707 MS.gene023428:CDS
TATGGTGGTTATAGATGGTA+TGG 0.485704 4.2:+14032805 MS.gene023428:CDS
AAGTCATTCCAAATCTCCTA+TGG 0.520495 4.2:+14032787 MS.gene023428:CDS
GAACCATTGCTCACTCTACT+CGG 0.540591 4.2:+14032560 MS.gene023428:CDS
GATAATCTTTCGCTGATGAA+AGG 0.568732 4.2:-14032742 None:intergenic
CCAGAGACAGAAGAAAGCTC+TGG 0.576248 4.2:-14032536 None:intergenic
CAAGGCCACAACCTTCAACC+TGG 0.591428 4.2:-14032718 None:intergenic
ATACCATCTATAACCACCAT+AGG 0.609763 4.2:-14032803 None:intergenic
TTTCCGAGTAGAGTGAGCAA+TGG 0.627280 4.2:-14032563 None:intergenic
CTTTCGCTGATGAAAGGTCA+AGG 0.632145 4.2:-14032736 None:intergenic
TCATTCCAAATCTCCTATGG+TGG 0.656270 4.2:+14032790 MS.gene023428:CDS
CAACCTTCAACCTGGCAGCG+CGG 0.659706 4.2:-14032710 None:intergenic
CGGAAAACGAGTGTACATTG+AGG 0.675568 4.2:+14032580 MS.gene023428:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGGTTTTTGGAATTACTTTT+CGG - chr4.2:14032614-14032633 None:intergenic 25.0%
!!! CAAAAACCTATCTTTTTCAA+GGG + chr4.2:14032625-14032644 MS.gene023428:CDS 25.0%
! CCTTGAAAAAGATAGGTTTT+TGG - chr4.2:14032627-14032646 None:intergenic 30.0%
!! CCAAAAACCTATCTTTTTCA+AGG + chr4.2:14032624-14032643 MS.gene023428:CDS 30.0%
AAGTCATTCCAAATCTCCTA+TGG + chr4.2:14032787-14032806 MS.gene023428:CDS 35.0%
ATACCATCTATAACCACCAT+AGG - chr4.2:14032806-14032825 None:intergenic 35.0%
CAAGATCCCTTGAAAAAGAT+AGG - chr4.2:14032634-14032653 None:intergenic 35.0%
CTTGCGTCATCTTTAAGTAT+TGG + chr4.2:14032650-14032669 MS.gene023428:CDS 35.0%
GATAATCTTTCGCTGATGAA+AGG - chr4.2:14032745-14032764 None:intergenic 35.0%
TATAACCACCATAGGAGATT+TGG - chr4.2:14032798-14032817 None:intergenic 35.0%
TATGGTGGTTATAGATGGTA+TGG + chr4.2:14032805-14032824 MS.gene023428:CDS 35.0%
TCATTCCAAATCTCCTATGG+TGG + chr4.2:14032790-14032809 MS.gene023428:CDS 40.0%
TCTCCTATGGTGGTTATAGA+TGG + chr4.2:14032800-14032819 MS.gene023428:CDS 40.0%
CGGAAAACGAGTGTACATTG+AGG + chr4.2:14032580-14032599 MS.gene023428:CDS 45.0%
CTTTCGCTGATGAAAGGTCA+AGG - chr4.2:14032739-14032758 None:intergenic 45.0%
GAACCATTGCTCACTCTACT+CGG + chr4.2:14032560-14032579 MS.gene023428:CDS 45.0%
TTTCCGAGTAGAGTGAGCAA+TGG - chr4.2:14032566-14032585 None:intergenic 45.0%
CCAGAGACAGAAGAAAGCTC+TGG - chr4.2:14032539-14032558 None:intergenic 50.0%
CCAGAGCTTTCTTCTGTCTC+TGG + chr4.2:14032536-14032555 MS.gene023428:CDS 50.0%
! GATTTTGCCAGCAATGTGGC+AGG + chr4.2:14032834-14032853 MS.gene023428:CDS 50.0%
!!! CGTCGATTTTGCCAGCAATG+TGG + chr4.2:14032830-14032849 MS.gene023428:CDS 50.0%
CAAGGCCACAACCTTCAACC+TGG - chr4.2:14032721-14032740 None:intergenic 55.0%
CAACCTTCAACCTGGCAGCG+CGG - chr4.2:14032713-14032732 None:intergenic 60.0%
CTTGCAATTTCCGCGCTGCC+AGG + chr4.2:14032700-14032719 MS.gene023428:CDS 60.0%
! CGCTGCCAGGTTGAAGGTTG+TGG + chr4.2:14032713-14032732 MS.gene023428:CDS 60.0%
! TTTCCGCGCTGCCAGGTTGA+AGG + chr4.2:14032707-14032726 MS.gene023428:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 14032506 14032859 14032506 ID=MS.gene023428
chr4.2 mRNA 14032506 14032859 14032506 ID=MS.gene023428.t1;Parent=MS.gene023428
chr4.2 exon 14032506 14032859 14032506 ID=MS.gene023428.t1.exon1;Parent=MS.gene023428.t1
chr4.2 CDS 14032506 14032859 14032506 ID=cds.MS.gene023428.t1;Parent=MS.gene023428.t1
Gene Sequence

>MS.gene023428

ATGTATTTTGCTTGTGGAAATTCTCATACACCAGAGCTTTCTTCTGTCTCTGGTGAACCATTGCTCACTCTACTCGGAAAACGAGTGTACATTGAGGATGTATGTCCGAAAAGTAATTCCAAAAACCTATCTTTTTCAAGGGATCTTGCGTCATCTTTAAGTATTGGAAAGAAATGTAAGTTCAATAGTCAGAACTTGCAATTTCCGCGCTGCCAGGTTGAAGGTTGTGGCCTTGACCTTTCATCAGCGAAAGATTATCATCGCAAACGAAGAGTTTGTGAAAGTCATTCCAAATCTCCTATGGTGGTTATAGATGGTATGGAACGTCGATTTTGCCAGCAATGTGGCAGGTAA
Protein sequence

>MS.gene023428.t1

MYFACGNSHTPELSSVSGEPLLTLLGKRVYIEDVCPKSNSKNLSFSRDLASSLSIGKKCKFNSQNLQFPRCQVEGCGLDLSSAKDYHRKRRVCESHSKSPMVVIDGMERRFCQQCGR