AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene47913


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47913.t1 MTR_8g089110 98.347 121 2 0 1 121 1 121 1.58e-86 247
MS.gene47913.t1 MTR_8g088830 77.869 122 26 1 1 121 1 122 8.02e-57 172
MS.gene47913.t1 MTR_3g089035 60.800 125 44 1 1 120 1 125 6.64e-51 157
MS.gene47913.t1 MTR_3g089005 58.268 127 46 2 1 121 1 126 2.34e-49 153
MS.gene47913.t1 MTR_2g043730 55.645 124 51 1 1 120 1 124 1.68e-45 144
MS.gene47913.t1 MTR_2g043790 53.608 97 45 0 25 121 4 100 1.42e-31 107
MS.gene47913.t1 MTR_2g088990 40.000 115 64 4 9 119 6 119 3.59e-24 92.8
MS.gene47913.t1 MTR_7g086160 38.462 117 68 3 8 120 7 123 4.32e-22 85.5
MS.gene47913.t1 MTR_7g086140 36.066 122 74 3 3 120 1 122 4.62e-21 82.8
MS.gene47913.t1 MTR_7g086190 36.066 122 74 3 3 120 1 122 4.62e-21 82.8
MS.gene47913.t1 MTR_1g105130 39.316 117 67 3 7 119 4 120 7.74e-21 82.4
MS.gene47913.t1 MTR_1g105120 39.316 117 67 3 7 119 4 120 7.74e-21 82.4
MS.gene47913.t1 MTR_7g086220 38.525 122 68 4 1 118 1 119 1.74e-20 81.6
MS.gene47913.t1 MTR_8g007020 42.241 116 59 5 11 119 5 119 2.28e-20 81.6
MS.gene47913.t1 MTR_7g086230 39.837 123 69 3 1 120 1 121 3.56e-20 80.9
MS.gene47913.t1 MTR_7g086280 39.837 123 69 3 1 120 1 121 3.84e-20 80.9
MS.gene47913.t1 MTR_1g104800 33.621 116 68 3 11 119 8 121 8.88e-20 80.1
MS.gene47913.t1 MTR_7g086100 39.344 122 69 3 1 119 1 120 1.54e-19 80.5
MS.gene47913.t1 MTR_5g006040 33.043 115 72 2 10 119 8 122 7.00e-19 77.8
MS.gene47913.t1 MTR_1g112700 36.752 117 68 4 8 120 15 129 7.46e-19 77.8
MS.gene47913.t1 MTR_8g007035 39.655 116 62 5 11 119 5 119 7.47e-19 78.2
MS.gene47913.t1 MTR_6g083240 40.777 103 52 2 25 118 24 126 3.17e-18 75.9
MS.gene47913.t1 MTR_4g114870 40.000 100 53 2 27 119 190 289 9.53e-18 77.4
MS.gene47913.t1 MTR_4g114870 36.441 118 67 3 9 119 11 127 2.16e-15 70.9
MS.gene47913.t1 MTR_6g080660 35.106 94 57 3 28 118 28 120 9.15e-17 72.8
MS.gene47913.t1 MTR_0334s0010 32.258 124 77 3 1 118 1 123 1.20e-16 72.4
MS.gene47913.t1 MTR_7g086090 38.525 122 70 3 1 119 1 120 1.67e-15 70.1
MS.gene47913.t1 MTR_3g099980 38.596 114 64 5 11 118 7 120 2.19e-15 69.3
MS.gene47913.t1 MTR_3g099570 39.823 113 58 6 11 116 7 116 6.63e-15 67.4
MS.gene47913.t1 MTR_6g013200 30.952 126 79 3 1 120 8 131 2.44e-14 65.9
MS.gene47913.t1 MTR_3g099680 37.719 114 65 5 11 118 7 120 2.94e-14 66.6
MS.gene47913.t1 MTR_8g099220 33.621 116 63 4 13 120 18 127 1.12e-13 63.2
MS.gene47913.t1 MTR_8g086360 29.915 117 77 2 7 118 3 119 2.95e-13 63.2
MS.gene47913.t1 MTR_6g013420 34.454 119 73 3 7 120 16 134 5.34e-13 62.4
MS.gene47913.t1 MTR_3g099540 36.752 117 68 5 7 118 4 119 7.27e-13 61.2
MS.gene47913.t1 MTR_2g079030 33.913 115 70 3 9 118 7 120 9.19e-13 63.5
MS.gene47913.t1 MTR_1g014120 31.667 120 73 3 7 118 5 123 1.94e-12 61.2
MS.gene47913.t1 MTR_4g114830 33.981 103 56 4 24 115 24 125 7.74e-12 58.9
MS.gene47913.t1 MTR_8g463180 31.304 115 74 2 9 118 5 119 1.41e-11 60.1
MS.gene47913.t1 MTR_4g007250 31.250 96 64 1 25 118 26 121 3.49e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene47913.t1 AT2G02850 60.156 128 43 1 1 120 1 128 1.71e-52 161
MS.gene47913.t1 AT3G17675 36.066 122 73 3 5 121 7 128 5.53e-22 84.3
MS.gene47913.t1 AT1G17800 41.176 119 64 5 8 120 18 136 6.46e-21 82.0
MS.gene47913.t1 AT2G32300 39.796 98 56 2 25 119 23 120 2.75e-20 83.2
MS.gene47913.t1 AT2G32300 39.796 98 56 2 25 119 53 150 4.36e-20 83.2
MS.gene47913.t1 AT3G60270 42.857 98 52 3 25 119 23 119 5.80e-20 80.9
MS.gene47913.t1 AT3G27200 36.975 119 70 4 7 121 5 122 3.70e-19 78.6
MS.gene47913.t1 AT5G26330 35.652 115 64 4 12 119 9 120 2.24e-18 76.6
MS.gene47913.t1 AT3G60280 44.898 98 48 4 25 118 21 116 3.93e-18 76.6
MS.gene47913.t1 AT2G44790 43.137 102 48 5 23 119 27 123 1.17e-16 72.4
MS.gene47913.t1 AT2G31050 33.071 127 74 4 1 119 1 124 1.31e-16 72.4
MS.gene47913.t1 AT2G26720 33.333 99 62 2 26 120 27 125 4.27e-16 71.2
MS.gene47913.t1 AT5G07475 34.821 112 69 3 11 119 13 123 7.33e-16 70.1
MS.gene47913.t1 AT2G25060 33.613 119 67 3 8 118 15 129 2.19e-13 63.5
MS.gene47913.t1 AT3G20570 31.858 113 70 3 12 118 15 126 2.43e-13 63.9
MS.gene47913.t1 AT4G12880 30.081 123 79 4 3 118 1 123 2.72e-12 59.7
MS.gene47913.t1 AT1G22480 38.793 116 61 5 11 121 4 114 8.37e-12 59.3
MS.gene47913.t1 AT4G31840 31.667 120 70 4 11 118 6 125 8.60e-12 59.3
MS.gene47913.t1 AT1G48940 32.308 130 66 8 6 120 3 125 1.11e-11 58.9
MS.gene47913.t1 AT3G18590 31.496 127 72 7 6 120 3 126 1.16e-11 59.3
MS.gene47913.t1 AT4G27520 33.913 115 67 3 9 118 16 126 1.28e-11 60.5
MS.gene47913.t1 AT5G53870 30.952 126 71 5 7 118 2 125 6.10e-11 58.5
MS.gene47913.t1 AT2G27035 29.661 118 77 3 8 120 8 124 6.85e-11 56.6

Find 35 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGCCAACCAACAGTGTTAA+AGG 0.339711 4.1:-11588826 None:intergenic
ACCTACACTGTTGGAGGTCC+TGG 0.340570 4.1:+11588795 MS.gene47913:CDS
TTTGTGGGTCACTGCGAGTC+TGG 0.369480 4.1:+11589312 MS.gene47913:CDS
TAAAAGTTAAGCAGCATTGA+TGG 0.375502 4.1:-11589346 None:intergenic
CTACTTCATTTGCAACTTTG+TGG 0.404030 4.1:+11589296 MS.gene47913:CDS
TACTTCATTTGCAACTTTGT+GGG 0.443056 4.1:+11589297 MS.gene47913:CDS
GGAGCAAAAGTGTATAGGTC+AGG 0.453219 4.1:+11589240 MS.gene47913:CDS
TAACACTGTTGGTTGGCCTA+AGG 0.454454 4.1:+11588830 MS.gene47913:CDS
CTAGTAGAGAAACATGGCTC+TGG 0.459629 4.1:+11588704 None:intergenic
AGGATCAGATAAGGCTTGCT+AGG 0.465568 4.1:+11589265 MS.gene47913:CDS
AACACTGTTGGTTGGCCTAA+GGG 0.479850 4.1:+11588831 MS.gene47913:CDS
GGACCTTTAACACTGTTGGT+TGG 0.480078 4.1:+11588823 MS.gene47913:CDS
AGAAACATGGCTCTGGGAAG+AGG 0.491666 4.1:+11588711 None:intergenic
GTGTTAAAGGTCCAACCTCC+AGG 0.508532 4.1:-11588813 None:intergenic
GCTGCTACCTACACTGTTGG+AGG 0.517016 4.1:+11588789 MS.gene47913:CDS
CAAGAGGAGCAAAAGTGTAT+AGG 0.522207 4.1:+11589235 MS.gene47913:CDS
GCCACCACATTGTGAGCTGA+TGG 0.525344 4.1:-11589177 None:intergenic
CATGCTGCTACCTACACTGT+TGG 0.528640 4.1:+11588786 MS.gene47913:CDS
CTGTTGGAGGTCCTGGAGGT+TGG 0.534102 4.1:+11588802 MS.gene47913:CDS
GGTTGGACCTTTAACACTGT+TGG 0.539100 4.1:+11588819 MS.gene47913:CDS
TTTAGGGCTGGTGACACACT+TGG 0.539527 4.1:+11588861 MS.gene47913:CDS
TCTGGGAAGAGGCAGTGCAT+TGG 0.544752 4.1:+11588722 MS.gene47913:CDS
GGATCAGATAAGGCTTGCTA+GGG 0.550417 4.1:+11589266 MS.gene47913:CDS
GGTCAGGAAAGGATCAGATA+AGG 0.577849 4.1:+11589256 MS.gene47913:CDS
TAGTAGAGAAACATGGCTCT+GGG 0.578678 4.1:+11588705 None:intergenic
AAAAGTGTATAGGTCAGGAA+AGG 0.608610 4.1:+11589245 MS.gene47913:CDS
TACACTGTTGGAGGTCCTGG+AGG 0.611395 4.1:+11588798 MS.gene47913:CDS
GTGGTGGCAGTGAACAAAGG+AGG 0.631663 4.1:+11589192 MS.gene47913:CDS
GATAGTTGCAAGACACCAAG+AGG 0.632266 4.1:+11589219 MS.gene47913:CDS
AATGTGGTGGCAGTGAACAA+AGG 0.638717 4.1:+11589189 MS.gene47913:CDS
TCCATCAGCTCACAATGTGG+TGG 0.645459 4.1:+11589176 MS.gene47913:CDS
TGGTGGCAGTGAACAAAGGA+GGG 0.647438 4.1:+11589193 MS.gene47913:CDS
TCCAGGACCTCCAACAGTGT+AGG 0.688043 4.1:-11588796 None:intergenic
GATCAGATAAGGCTTGCTAG+GGG 0.699536 4.1:+11589267 MS.gene47913:CDS
TAGTCCATCAGCTCACAATG+TGG 0.719459 4.1:+11589173 MS.gene47913:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CATTCAATTAATGATGTATA+TGG + chr4.1:11589108-11589127 MS.gene47913:intron 20.0%
!! TAATAACATTCTTTAACGAT+TGG - chr4.1:11588904-11588923 None:intergenic 20.0%
! AAAAAACAACAGTGTTAAAG+TGG - chr4.1:11589002-11589021 None:intergenic 25.0%
! AAAAACAACAGTGTTAAAGT+GGG - chr4.1:11589001-11589020 None:intergenic 25.0%
TACTTCATTTGCAACTTTGT+GGG + chr4.1:11589297-11589316 MS.gene47913:CDS 30.0%
TCTTCAAAACTCTCTTTCAT+CGG + chr4.1:11589028-11589047 MS.gene47913:intron 30.0%
ACTCCAAACATTACTTCATC+TGG + chr4.1:11588948-11588967 MS.gene47913:intron 35.0%
AGACCAGATGAAGTAATGTT+TGG - chr4.1:11588954-11588973 None:intergenic 35.0%
CTACTTCATTTGCAACTTTG+TGG + chr4.1:11589296-11589315 MS.gene47913:CDS 35.0%
! AAAAGTGTATAGGTCAGGAA+AGG + chr4.1:11589245-11589264 MS.gene47913:CDS 35.0%
! CAAGAGGAGCAAAAGTGTAT+AGG + chr4.1:11589235-11589254 MS.gene47913:CDS 40.0%
! CTATACACTTTTGCTCCTCT+TGG - chr4.1:11589237-11589256 None:intergenic 40.0%
! GCCTAAGGGAAAACGTTTTA+GGG + chr4.1:11588845-11588864 MS.gene47913:CDS 40.0%
AATGTGGTGGCAGTGAACAA+AGG + chr4.1:11589189-11589208 MS.gene47913:CDS 45.0%
AGGCCAACCAACAGTGTTAA+AGG - chr4.1:11588829-11588848 None:intergenic 45.0%
GATAGTTGCAAGACACCAAG+AGG + chr4.1:11589219-11589238 MS.gene47913:CDS 45.0%
GGACCTTTAACACTGTTGGT+TGG + chr4.1:11588823-11588842 MS.gene47913:CDS 45.0%
GGTCAGGAAAGGATCAGATA+AGG + chr4.1:11589256-11589275 MS.gene47913:CDS 45.0%
GGTTGGACCTTTAACACTGT+TGG + chr4.1:11588819-11588838 MS.gene47913:CDS 45.0%
TAGTCCATCAGCTCACAATG+TGG + chr4.1:11589173-11589192 MS.gene47913:CDS 45.0%
! AGGATCAGATAAGGCTTGCT+AGG + chr4.1:11589265-11589284 MS.gene47913:CDS 45.0%
! GCCCTAAAACGTTTTCCCTT+AGG - chr4.1:11588849-11588868 None:intergenic 45.0%
! GGAGCAAAAGTGTATAGGTC+AGG + chr4.1:11589240-11589259 MS.gene47913:CDS 45.0%
! GGCCTAAGGGAAAACGTTTT+AGG + chr4.1:11588844-11588863 MS.gene47913:CDS 45.0%
!! AACACTGTTGGTTGGCCTAA+GGG + chr4.1:11588831-11588850 MS.gene47913:CDS 45.0%
!! GATCAGATAAGGCTTGCTAG+GGG + chr4.1:11589267-11589286 MS.gene47913:CDS 45.0%
!! GGATCAGATAAGGCTTGCTA+GGG + chr4.1:11589266-11589285 MS.gene47913:CDS 45.0%
!! TAACACTGTTGGTTGGCCTA+AGG + chr4.1:11588830-11588849 MS.gene47913:CDS 45.0%
!!! AAGGGAAAACGTTTTAGGGC+TGG + chr4.1:11588849-11588868 MS.gene47913:CDS 45.0%
CATGCTGCTACCTACACTGT+TGG + chr4.1:11588786-11588805 MS.gene47913:CDS 50.0%
GTGTTAAAGGTCCAACCTCC+AGG - chr4.1:11588816-11588835 None:intergenic 50.0%
TCCATCAGCTCACAATGTGG+TGG + chr4.1:11589176-11589195 MS.gene47913:CDS 50.0%
TGGTGGCAGTGAACAAAGGA+GGG + chr4.1:11589193-11589212 MS.gene47913:CDS 50.0%
! TTTAGGGCTGGTGACACACT+TGG + chr4.1:11588861-11588880 MS.gene47913:CDS 50.0%
ACCTACACTGTTGGAGGTCC+TGG + chr4.1:11588795-11588814 MS.gene47913:CDS 55.0%
GCCACCACATTGTGAGCTGA+TGG - chr4.1:11589180-11589199 None:intergenic 55.0%
GCTGCTACCTACACTGTTGG+AGG + chr4.1:11588789-11588808 MS.gene47913:CDS 55.0%
GTGGTGGCAGTGAACAAAGG+AGG + chr4.1:11589192-11589211 MS.gene47913:CDS 55.0%
TACACTGTTGGAGGTCCTGG+AGG + chr4.1:11588798-11588817 MS.gene47913:CDS 55.0%
TCCAGGACCTCCAACAGTGT+AGG - chr4.1:11588799-11588818 None:intergenic 55.0%
TCTGGGAAGAGGCAGTGCAT+TGG + chr4.1:11588722-11588741 MS.gene47913:CDS 55.0%
TTTGTGGGTCACTGCGAGTC+TGG + chr4.1:11589312-11589331 MS.gene47913:CDS 55.0%
CTGTTGGAGGTCCTGGAGGT+TGG + chr4.1:11588802-11588821 MS.gene47913:CDS 60.0%


Chromosome Type Strat End Strand Name
chr4.1 gene 11588717 11589362 11588717 ID=MS.gene47913
chr4.1 mRNA 11588717 11589362 11588717 ID=MS.gene47913.t1;Parent=MS.gene47913
chr4.1 exon 11588717 11588882 11588717 ID=MS.gene47913.t1.exon1;Parent=MS.gene47913.t1
chr4.1 CDS 11588717 11588882 11588717 ID=cds.MS.gene47913.t1;Parent=MS.gene47913.t1
chr4.1 exon 11589163 11589362 11589163 ID=MS.gene47913.t1.exon2;Parent=MS.gene47913.t1
chr4.1 CDS 11589163 11589362 11589163 ID=cds.MS.gene47913.t1;Parent=MS.gene47913.t1
Gene Sequence

>MS.gene47913

ATGGCTCTGGGAAGAGGCAGTGCATTGGTTCTACTAGTCTGCTTTTTTGTTCTTAACTCTGAGTTTGCTCATGCTGCTACCTACACTGTTGGAGGTCCTGGAGGTTGGACCTTTAACACTGTTGGTTGGCCTAAGGGAAAACGTTTTAGGGCTGGTGACACACTTGGTATGTATCTACTATCTTCCAATCGTTAAAGAATGTTATTAAATTTCACTCTAAATTTGAATCTTACTCCAAACATTACTTCATCTGGTCTTATTTATAAGAGTGCACAAACAGTCCCACTTTAACACTGTTGTTTTTTTTTTTCTCTTCAAAACTCTCTTTCATCGGATAAAATTAAGTACACTCTTCAGTCACTATTATAAGTAAAAATTTATATTTTAGATTCATTCAATTAATGATGTATATGGTCTTTATTATAAATCTGTCTGTGTTTGTGCAGTGTTCAACTATAGTCCATCAGCTCACAATGTGGTGGCAGTGAACAAAGGAGGGTATGATAGTTGCAAGACACCAAGAGGAGCAAAAGTGTATAGGTCAGGAAAGGATCAGATAAGGCTTGCTAGGGGACAAAACTACTTCATTTGCAACTTTGTGGGTCACTGCGAGTCTGGAATGAAAATTGCCATCAATGCTGCTTAA

Protein sequence

>MS.gene47913.t1

MALGRGSALVLLVCFFVLNSEFAHAATYTVGGPGGWTFNTVGWPKGKRFRAGDTLVFNYSPSAHNVVAVNKGGYDSCKTPRGAKVYRSGKDQIRLARGQNYFICNFVGHCESGMKIAINAA