AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99645

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99645.t1 MTR_1g105010 71.930 114 26 2 8 121 12 119 8.32e-50 155
MS.gene99645.t1 MTR_1g105960 44.578 83 41 1 13 95 2 79 6.50e-20 79.0
MS.gene99645.t1 MTR_1g105955 53.521 71 33 0 9 79 13 83 5.60e-19 78.6
MS.gene99645.t1 MTR_1g105955 52.857 70 33 0 11 80 94 163 3.18e-17 73.9
MS.gene99645.t1 MTR_1g104940 46.053 76 41 0 5 80 7 82 1.03e-18 76.3
MS.gene99645.t1 MTR_8g062700 48.684 76 39 0 5 80 35 110 1.12e-18 81.3
MS.gene99645.t1 MTR_8g062700 48.684 76 39 0 5 80 35 110 1.14e-18 81.3
MS.gene99645.t1 MTR_5g036670 47.945 73 38 0 8 80 39 111 6.02e-18 79.0
MS.gene99645.t1 MTR_1g104960 45.000 80 44 0 1 80 88 167 1.00e-17 75.1
MS.gene99645.t1 MTR_1g104960 50.000 74 37 0 7 80 8 81 3.65e-15 68.6
MS.gene99645.t1 MTR_6g008970 43.333 90 44 2 8 97 59 141 2.36e-17 77.4
MS.gene99645.t1 MTR_1g104937 52.174 69 33 0 12 80 12 80 2.51e-17 72.4
MS.gene99645.t1 MTR_7g089490 47.826 69 36 0 12 80 16 84 3.79e-17 72.4
MS.gene99645.t1 MTR_3g006125 44.318 88 44 2 2 84 170 257 6.64e-16 71.6
MS.gene99645.t1 MTR_8g062350 43.210 81 44 1 1 79 1 81 2.29e-14 67.0
MS.gene99645.t1 MTR_3g006065 50.000 66 32 1 11 75 89 154 2.41e-14 66.6
MS.gene99645.t1 MTR_6g008995 39.744 78 47 0 8 85 33 110 3.35e-14 68.2
MS.gene99645.t1 MTR_3g006185 43.023 86 44 2 4 84 90 175 4.01e-14 65.9
MS.gene99645.t1 MTR_7g013410 43.077 65 37 0 16 80 2 66 1.17e-13 63.5
MS.gene99645.t1 MTR_3g006150 50.000 66 32 1 11 75 89 154 1.28e-13 63.9
MS.gene99645.t1 MTR_1g091047 47.692 65 33 1 11 74 8 72 5.33e-13 60.1
MS.gene99645.t1 MTR_4g133470 45.455 66 36 0 15 80 175 240 5.74e-13 63.9
MS.gene99645.t1 MTR_4g133470 45.205 73 40 0 8 80 85 157 7.44e-12 60.8
MS.gene99645.t1 MTR_4g133300 45.455 66 36 0 15 80 175 240 8.28e-13 63.5
MS.gene99645.t1 MTR_4g133300 46.575 73 39 0 8 80 85 157 8.63e-13 63.2
MS.gene99645.t1 MTR_1g104980 46.970 66 35 0 14 79 1 66 9.83e-13 62.0
MS.gene99645.t1 MTR_1g104980 46.970 66 35 0 15 80 73 138 2.07e-12 61.2
MS.gene99645.t1 MTR_3g006000 50.746 67 30 3 11 75 6 71 6.25e-12 57.8
MS.gene99645.t1 MTR_1g109550 45.902 61 32 1 19 79 23 82 1.04e-11 58.5
MS.gene99645.t1 MTR_1g093310 40.278 72 37 1 9 80 6 71 1.25e-11 57.0
MS.gene99645.t1 MTR_3g006105 41.250 80 46 1 2 80 89 168 1.59e-11 58.9
MS.gene99645.t1 MTR_3g006105 37.349 83 51 1 12 93 8 90 7.73e-11 57.0
MS.gene99645.t1 MTR_7g013380 42.857 70 38 1 12 79 185 254 4.13e-11 58.9
MS.gene99645.t1 MTR_7g013380 45.312 64 33 1 13 74 14 77 8.76e-11 58.2
MS.gene99645.t1 MTR_2g097830 42.857 84 41 2 11 90 69 149 6.11e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99645.t1 AT1G24190 50.000 80 36 1 5 80 3 82 2.29e-20 85.9
MS.gene99645.t1 AT1G24190 50.000 80 36 1 5 80 3 82 2.38e-20 85.9
MS.gene99645.t1 AT1G24190 50.000 80 36 1 5 80 3 82 2.41e-20 85.9
MS.gene99645.t1 AT1G70060 50.685 73 36 0 8 80 10 82 6.96e-19 81.6
MS.gene99645.t1 AT1G70060 50.685 73 36 0 8 80 10 82 6.96e-19 81.6
MS.gene99645.t1 AT3G01320 46.575 73 39 0 8 80 53 125 2.71e-18 80.1
MS.gene99645.t1 AT3G01320 46.575 73 39 0 8 80 53 125 2.73e-18 80.1
MS.gene99645.t1 AT5G15020 44.000 75 42 0 8 82 48 122 3.30e-17 77.0
MS.gene99645.t1 AT5G15020 44.000 75 42 0 8 82 48 122 3.36e-17 77.0
MS.gene99645.t1 AT1G24200 37.838 111 60 3 1 109 1 104 4.74e-17 73.9
MS.gene99645.t1 AT1G70030 41.558 77 43 1 8 82 18 94 7.35e-15 66.6
MS.gene99645.t1 AT1G70030 34.951 103 62 2 8 105 7 109 9.51e-15 67.0
MS.gene99645.t1 AT1G59890 43.478 69 39 0 12 80 45 113 1.52e-14 69.3
MS.gene99645.t1 AT1G59890 43.478 69 39 0 12 80 45 113 1.58e-14 69.3
MS.gene99645.t1 AT1G59890 43.478 69 39 0 12 80 45 113 1.60e-14 69.3
MS.gene99645.t1 AT1G59890 43.478 69 39 0 12 80 45 113 1.66e-14 69.3
MS.gene99645.t1 AT1G70030 41.558 77 43 1 8 82 18 94 1.67e-14 65.9
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.72e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.78e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.80e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.80e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 235 308 1.83e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.87e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.89e-14 69.3
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.91e-14 68.9
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.91e-14 68.9
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.91e-14 68.9
MS.gene99645.t1 AT4G12020 45.333 75 40 1 6 80 302 375 1.91e-14 68.9
MS.gene99645.t1 AT1G27250 39.726 73 44 0 9 81 18 90 4.80e-14 64.7
MS.gene99645.t1 AT5G15025 36.842 76 48 0 7 82 42 117 7.11e-14 63.9
MS.gene99645.t1 AT1G27280 37.143 70 44 0 9 78 78 147 1.35e-11 59.7
MS.gene99645.t1 AT1G10450 39.130 69 42 0 12 80 33 101 1.37e-11 60.8
MS.gene99645.t1 AT1G10450 39.130 69 42 0 12 80 33 101 1.37e-11 60.8
MS.gene99645.t1 AT1G10450 39.130 69 42 0 12 80 84 152 1.54e-11 60.8
MS.gene99645.t1 AT1G24230 42.029 69 39 1 7 74 9 77 1.58e-11 59.7
MS.gene99645.t1 AT1G27220 35.135 74 48 0 8 81 10 83 2.55e-11 58.5
MS.gene99645.t1 AT1G23810 40.625 64 38 0 9 72 106 169 5.66e-11 58.2
MS.gene99645.t1 AT5G35610 37.895 95 56 1 5 96 3 97 8.22e-11 56.6

Find 27 sgRNAs with CRISPR-Local

Find 26 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGATAAAATATTAGAGATTT+TGG 0.199052 1.4:-80803862 MS.gene99645:CDS
TGAAAGTCCTAAGCGATTAC+AGG 0.315902 1.4:-80804112 MS.gene99645:CDS
AGGATGGAGGAGCTGTTTAA+AGG 0.330709 1.4:-80804056 MS.gene99645:CDS
AAGAACCCACCTGATCGAAT+AGG 0.409769 1.4:-80803936 MS.gene99645:CDS
CTCTGGGCAATGCAGGATAA+AGG 0.410594 1.4:-80804224 None:intergenic
AAACGCTATTGCTTCTTCCT+TGG 0.423218 1.4:+80804190 None:intergenic
CAGTGATGACACTGGAGAAA+AGG 0.440953 1.4:-80803979 MS.gene99645:CDS
TCACTGATTTGAGATGGCTT+TGG 0.444928 1.4:+80803996 None:intergenic
GGATGGAGGAGCTGTTTAAA+GGG 0.456905 1.4:-80804055 MS.gene99645:CDS
AGAACCCACCTGATCGAATA+GGG 0.457483 1.4:-80803935 MS.gene99645:CDS
ATTTGCGACCCTATTCGATC+AGG 0.474283 1.4:+80803927 None:intergenic
TTGAGATGGCTTTGGCGTAA+AGG 0.479351 1.4:+80804004 None:intergenic
AGTTAAACTTCTGTCTCAAA+AGG 0.482056 1.4:-80803886 MS.gene99645:CDS
TGCGACCCTATTCGATCAGG+TGG 0.509774 1.4:+80803930 None:intergenic
GCTAAAAGAATTGATATAGC+AGG 0.520011 1.4:-80804089 MS.gene99645:CDS
GTGTCATCACTGATTTGAGA+TGG 0.558119 1.4:+80803990 None:intergenic
GAAAGTCCTAAGCGATTACA+GGG 0.564984 1.4:-80804111 MS.gene99645:CDS
AGTTAAGTTTCAAGACAAGA+GGG 0.571152 1.4:-80804153 MS.gene99645:CDS
AAGTTAAGTTTCAAGACAAG+AGG 0.577150 1.4:-80804154 MS.gene99645:CDS
AGCAGGTGTGACAACAAGGA+TGG 0.585519 1.4:-80804072 MS.gene99645:CDS
GCGACCCTATTCGATCAGGT+GGG 0.613931 1.4:+80803931 None:intergenic
ATATAGCAGGTGTGACAACA+AGG 0.623415 1.4:-80804076 MS.gene99645:CDS
TCTCAAATCAGTGATGACAC+TGG 0.643527 1.4:-80803987 MS.gene99645:CDS
GCAATGCAGGATAAAGGTGG+TGG 0.647014 1.4:-80804218 MS.gene99645:CDS
AGGTGTGACAACAAGGATGG+AGG 0.648111 1.4:-80804069 MS.gene99645:CDS
TAAAGGTGGTGGTGTAACCA+AGG 0.651615 1.4:-80804207 MS.gene99645:CDS
TGGGCAATGCAGGATAAAGG+TGG 0.685630 1.4:-80804221 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGATAAAATATTAGAGATTT+TGG - chr1.4:80804195-80804214 MS.gene99645:CDS 15.0%
!!! TAAAATATTAGAGATTTTGG+AGG - chr1.4:80804198-80804217 MS.gene99645:CDS 20.0%
AAGTTAAGTTTCAAGACAAG+AGG - chr1.4:80803903-80803922 MS.gene99645:CDS 30.0%
AGTTAAACTTCTGTCTCAAA+AGG - chr1.4:80804171-80804190 MS.gene99645:CDS 30.0%
AGTTAAGTTTCAAGACAAGA+GGG - chr1.4:80803904-80803923 MS.gene99645:CDS 30.0%
GCTAAAAGAATTGATATAGC+AGG - chr1.4:80803968-80803987 MS.gene99645:CDS 30.0%
AAACGCTATTGCTTCTTCCT+TGG + chr1.4:80803870-80803889 None:intergenic 40.0%
ATATAGCAGGTGTGACAACA+AGG - chr1.4:80803981-80804000 MS.gene99645:CDS 40.0%
GAAAGTCCTAAGCGATTACA+GGG - chr1.4:80803946-80803965 MS.gene99645:CDS 40.0%
TCTCAAATCAGTGATGACAC+TGG - chr1.4:80804070-80804089 MS.gene99645:CDS 40.0%
TGAAAGTCCTAAGCGATTAC+AGG - chr1.4:80803945-80803964 MS.gene99645:CDS 40.0%
! TTTTAGCCCTGTAATCGCTT+AGG + chr1.4:80803955-80803974 None:intergenic 40.0%
!! GTGTCATCACTGATTTGAGA+TGG + chr1.4:80804070-80804089 None:intergenic 40.0%
!! TCACTGATTTGAGATGGCTT+TGG + chr1.4:80804064-80804083 None:intergenic 40.0%
AAGAACCCACCTGATCGAAT+AGG - chr1.4:80804121-80804140 MS.gene99645:CDS 45.0%
AGAACCCACCTGATCGAATA+GGG - chr1.4:80804122-80804141 MS.gene99645:CDS 45.0%
AGGATGGAGGAGCTGTTTAA+AGG - chr1.4:80804001-80804020 MS.gene99645:CDS 45.0%
ATTTGCGACCCTATTCGATC+AGG + chr1.4:80804133-80804152 None:intergenic 45.0%
CAGTGATGACACTGGAGAAA+AGG - chr1.4:80804078-80804097 MS.gene99645:CDS 45.0%
GGATGGAGGAGCTGTTTAAA+GGG - chr1.4:80804002-80804021 MS.gene99645:CDS 45.0%
! TAAAGGTGGTGGTGTAACCA+AGG - chr1.4:80803850-80803869 MS.gene99645:CDS 45.0%
!! TTGAGATGGCTTTGGCGTAA+AGG + chr1.4:80804056-80804075 None:intergenic 45.0%
AGCAGGTGTGACAACAAGGA+TGG - chr1.4:80803985-80804004 MS.gene99645:CDS 50.0%
AGGTGTGACAACAAGGATGG+AGG - chr1.4:80803988-80804007 MS.gene99645:CDS 50.0%
GCGACCCTATTCGATCAGGT+GGG + chr1.4:80804129-80804148 None:intergenic 55.0%
TGCGACCCTATTCGATCAGG+TGG + chr1.4:80804130-80804149 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 80803842 80804237 80803842 ID=MS.gene99645
chr1.4 mRNA 80803842 80804237 80803842 ID=MS.gene99645.t1;Parent=MS.gene99645
chr1.4 exon 80803842 80804237 80803842 ID=MS.gene99645.t1.exon1;Parent=MS.gene99645.t1
chr1.4 CDS 80803842 80804237 80803842 ID=cds.MS.gene99645.t1;Parent=MS.gene99645.t1
Gene Sequence

>MS.gene99645

ATGCAGGATAAAGGTGGTGGTGTAACCAAGGAAGAAGCAATAGCGTTTGTATGTGATGTAAAAGTTAAGTTTCAAGACAAGAGGGAAATGTATGATGAATTTTTGAAAGTCCTAAGCGATTACAGGGCTAAAAGAATTGATATAGCAGGTGTGACAACAAGGATGGAGGAGCTGTTTAAAGGGCATTCAGATTTGATTTTGAAATTCAAATCCTTTACGCCAAAGCCATCTCAAATCAGTGATGACACTGGAGAAAAGGAAGAAGACACTGATGAACAGAAGAACCCACCTGATCGAATAGGGTCGCAAATTCAACTTATATCTCAAGAAGTTAAACTTCTGTCTCAAAAGGCTGATAAAATATTAGAGATTTTGGAGGAGAAGAAGCAAGCATAA
Protein sequence

>MS.gene99645.t1

MQDKGGGVTKEEAIAFVCDVKVKFQDKREMYDEFLKVLSDYRAKRIDIAGVTTRMEELFKGHSDLILKFKSFTPKPSQISDDTGEKEEDTDEQKNPPDRIGSQIQLISQEVKLLSQKADKILEILEEKKQA