AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene71779

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71779.t1 MTR_1g109630 98.851 174 2 0 1 174 33 206 4.58e-126 353
MS.gene71779.t1 MTR_8g099060 35.429 175 109 1 2 172 84 258 2.69e-37 129
MS.gene71779.t1 MTR_8g028450 34.270 178 109 2 2 171 88 265 1.14e-31 115
MS.gene71779.t1 MTR_1g099500 35.928 167 103 1 2 164 77 243 2.04e-31 114
MS.gene71779.t1 MTR_3g449880 31.646 158 104 1 4 157 71 228 1.48e-24 95.9
MS.gene71779.t1 MTR_3g449880 31.646 158 104 1 4 157 49 206 2.86e-24 94.7
MS.gene71779.t1 MTR_5g090340 31.214 173 109 3 2 166 113 283 4.13e-22 90.5
MS.gene71779.t1 MTR_5g090340 31.214 173 109 3 2 166 116 286 4.46e-22 90.5
MS.gene71779.t1 MTR_3g062910 29.932 147 99 1 2 144 73 219 4.91e-16 73.6
MS.gene71779.t1 MTR_6g012460 27.429 175 123 1 2 172 23 197 4.34e-14 67.4
MS.gene71779.t1 MTR_4g014700 26.866 134 94 1 43 172 74 207 3.51e-13 65.1
MS.gene71779.t1 MTR_1g107445 27.545 167 117 1 12 174 38 204 2.46e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71779.t1 AT1G68230 45.087 173 93 1 2 172 41 213 3.05e-49 158
MS.gene71779.t1 AT3G18260 43.750 176 95 1 2 173 49 224 5.83e-48 155
MS.gene71779.t1 AT4G23630 34.857 175 110 1 2 172 99 273 8.61e-40 136
MS.gene71779.t1 AT4G23630 34.857 175 110 1 2 172 99 273 8.61e-40 136
MS.gene71779.t1 AT4G11220 34.857 175 110 1 2 172 95 269 1.66e-39 135
MS.gene71779.t1 AT2G46170 35.057 174 109 1 2 171 78 251 6.03e-35 123
MS.gene71779.t1 AT5G41600 34.637 179 109 2 2 172 78 256 4.26e-34 121
MS.gene71779.t1 AT1G64090 31.792 173 110 2 2 166 74 246 7.25e-31 112
MS.gene71779.t1 AT1G64090 31.792 173 110 2 2 166 90 262 1.30e-30 112
MS.gene71779.t1 AT3G61560 32.759 174 113 1 2 171 78 251 1.93e-30 111
MS.gene71779.t1 AT3G61560 32.759 174 113 1 2 171 78 251 1.93e-30 111
MS.gene71779.t1 AT1G68230 45.763 118 62 1 2 117 41 158 2.29e-27 101
MS.gene71779.t1 AT3G10260 28.571 175 121 1 2 172 71 245 5.48e-24 94.7
MS.gene71779.t1 AT3G10260 28.571 175 121 1 2 172 71 245 5.48e-24 94.7
MS.gene71779.t1 AT3G10260 28.571 175 121 1 2 172 91 265 7.94e-24 94.7
MS.gene71779.t1 AT4G01230 31.548 168 108 2 2 165 80 244 2.14e-21 87.8
MS.gene71779.t1 AT4G01230 31.548 168 108 2 2 165 78 242 2.20e-21 87.8
MS.gene71779.t1 AT3G61560 32.500 120 77 1 2 117 78 197 1.14e-16 74.3
MS.gene71779.t1 AT3G19460 27.976 168 101 5 15 174 45 200 7.33e-16 72.0
MS.gene71779.t1 AT3G19460 27.976 168 101 5 15 174 45 200 7.33e-16 72.0
MS.gene71779.t1 AT3G19460 27.976 168 101 5 15 174 45 200 7.33e-16 72.0
MS.gene71779.t1 AT3G10915 23.780 164 121 1 12 171 28 191 6.36e-15 69.7
MS.gene71779.t1 AT2G15280 24.706 170 124 1 7 172 29 198 7.22e-15 69.7
MS.gene71779.t1 AT3G10915 23.780 164 121 1 12 171 29 192 7.26e-15 69.3
MS.gene71779.t1 AT3G10915 23.780 164 121 1 12 171 61 224 1.30e-14 69.3
MS.gene71779.t1 AT3G10915 23.780 164 121 1 12 171 86 249 1.43e-14 69.7
MS.gene71779.t1 AT2G01240 28.889 135 94 2 37 170 1 134 1.48e-14 67.4
MS.gene71779.t1 AT3G10915 23.636 165 121 2 12 171 61 225 4.11e-13 65.5
MS.gene71779.t1 AT3G10915 23.636 165 121 2 12 171 83 247 5.76e-13 65.1
MS.gene71779.t1 AT2G46170 31.683 101 65 1 2 98 78 178 5.22e-12 61.6

Find 31 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATGCTCATTCTCTTTATT+TGG 0.147832 1.3:-74677022 MS.gene71779:CDS
GAAGAGATTGTTCAACAAAT+TGG 0.245195 1.3:-74676160 MS.gene71779:CDS
TCATACCGCTCATACATAAT+TGG 0.314636 1.3:+74676225 None:intergenic
CTATGGATCATGTCTACTAT+TGG 0.332384 1.3:-74676392 MS.gene71779:CDS
ATGAATCTAACGGTAGAATC+TGG 0.349110 1.3:+74676834 None:intergenic
TTCAGACAATAGCTGGTCTA+TGG 0.360102 1.3:-74676409 MS.gene71779:intron
TGGATTCTACAGTTCTCAAT+AGG 0.367654 1.3:-74676140 MS.gene71779:CDS
ATTTCAAAATCATAGATATC+AGG 0.404128 1.3:+74676858 None:intergenic
TTTATTTGGTATAATGCAGC+TGG 0.406398 1.3:-74677008 MS.gene71779:CDS
TGAACAATCTCTTCACGTCT+TGG 0.421418 1.3:+74676169 None:intergenic
AAATAAAGAGAATGAGCATA+AGG 0.427457 1.3:+74677024 None:intergenic
ATTGAATTTCAGACAATAGC+TGG 0.451267 1.3:-74676416 MS.gene71779:intron
AATAAAGAGAATGAGCATAA+GGG 0.486688 1.3:+74677025 None:intergenic
GAAAACAACGGCAGCAATTG+TGG 0.515778 1.3:-74677126 MS.gene71779:CDS
ATGCAGCTGGATTAATCACT+TGG 0.517496 1.3:-74676995 MS.gene71779:intron
AAAAGTTCAACTTGTTCTTG+AGG 0.520276 1.3:-74676806 MS.gene71779:CDS
CAGTTCTCAATAGGATTCCA+AGG 0.520634 1.3:-74676131 MS.gene71779:CDS
TGAATCTAACGGTAGAATCT+GGG 0.523175 1.3:+74676835 None:intergenic
AGATCTTAGATTCTTCTTTG+TGG 0.523221 1.3:-74676757 MS.gene71779:intron
ACAACGGCAGCAATTGTGGC+TGG 0.528525 1.3:-74677122 MS.gene71779:CDS
ACATAATTGGAAGTGTCACC+AGG 0.546032 1.3:+74676238 None:intergenic
GTGGACTATCTAGCAAGTAA+AGG 0.551485 1.3:-74676195 MS.gene71779:CDS
GAATGAGCATAAGGGCTATG+AGG 0.566119 1.3:+74677033 None:intergenic
GCATAAGGGCTATGAGGATG+TGG 0.569062 1.3:+74677039 None:intergenic
GGTTTGGTTTCTCTTTGAAG+TGG 0.581573 1.3:-74677090 MS.gene71779:CDS
AGTTCTCAATAGGATTCCAA+GGG 0.601630 1.3:-74676130 MS.gene71779:CDS
CACTTCCAATTATGTATGAG+CGG 0.613668 1.3:-74676230 MS.gene71779:CDS
GTATGAGCGGTATGAACATG+AGG 0.680175 1.3:-74676217 MS.gene71779:CDS
ATGGAAAGACATGAAAACAA+CGG 0.698215 1.3:-74677138 None:intergenic
TGAGCGGTATGAACATGAGG+TGG 0.701805 1.3:-74676214 MS.gene71779:CDS
GTTCTCAATAGGATTCCAAG+GGG 0.759037 1.3:-74676129 MS.gene71779:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAATTGATAAAAACTTAT+AGG - chr1.3:74676703-74676722 MS.gene71779:intron 10.0%
!! ATATAGTCAAAAAAATTTAT+AGG + chr1.3:74676619-74676638 None:intergenic 10.0%
!! TATAGTCAAAAAAATTTATA+GGG + chr1.3:74676618-74676637 None:intergenic 10.0%
!!! ACATATTCATAATTTTTATA+AGG + chr1.3:74676275-74676294 None:intergenic 10.0%
!! AAATAAGATAGCATAAATTA+TGG - chr1.3:74676731-74676750 MS.gene71779:intron 15.0%
!! AATAAGATAGCATAAATTAT+GGG - chr1.3:74676732-74676751 MS.gene71779:intron 15.0%
!! AACAAATCAATTCAAATCAA+AGG + chr1.3:74676777-74676796 None:intergenic 20.0%
!! AATTCAGAAAGAAAAGAAAA+TGG + chr1.3:74676545-74676564 None:intergenic 20.0%
!! ATAAGATAGCATAAATTATG+GGG - chr1.3:74676733-74676752 MS.gene71779:intron 20.0%
!! ATTTCAAAATCATAGATATC+AGG + chr1.3:74676374-74676393 None:intergenic 20.0%
!!! AAATTTTATGACATTTCAAC+TGG - chr1.3:74676446-74676465 MS.gene71779:intron 20.0%
!!! AATTTTATGACATTTCAACT+GGG - chr1.3:74676447-74676466 MS.gene71779:intron 20.0%
!!! CTTTTTATGAATGAATCTAA+CGG + chr1.3:74676408-74676427 None:intergenic 20.0%
!!! GCATCTTTTATAAAAATAGA+GGG - chr1.3:74676646-74676665 MS.gene71779:intron 20.0%
! AAAAATAAGGCTTCTGAATA+GGG + chr1.3:74676303-74676322 None:intergenic 25.0%
! AAATAAAGAGAATGAGCATA+AGG + chr1.3:74676208-74676227 None:intergenic 25.0%
! AAATGTACCTGTGTTTAAAA+AGG - chr1.3:74676672-74676691 MS.gene71779:intron 25.0%
! AATAAAGAGAATGAGCATAA+GGG + chr1.3:74676207-74676226 None:intergenic 25.0%
! AGTCAAAAAAATTTATAGGG+AGG + chr1.3:74676615-74676634 None:intergenic 25.0%
! CACCAAATGTTACAAAAATA+AGG + chr1.3:74676316-74676335 None:intergenic 25.0%
! GAGGTGATAATAATTGAAAA+TGG + chr1.3:74676512-74676531 None:intergenic 25.0%
! TTATGCTCATTCTCTTTATT+TGG - chr1.3:74676207-74676226 MS.gene71779:CDS 25.0%
!! CGCATCTTTTATAAAAATAG+AGG - chr1.3:74676645-74676664 MS.gene71779:intron 25.0%
!!! AGCCTTATTTTTGTAACATT+TGG - chr1.3:74676311-74676330 MS.gene71779:intron 25.0%
AGATCTTAGATTCTTCTTTG+TGG - chr1.3:74676472-74676491 MS.gene71779:intron 30.0%
ATTGAATTTCAGACAATAGC+TGG - chr1.3:74676813-74676832 MS.gene71779:CDS 30.0%
CAAAAATAAGGCTTCTGAAT+AGG + chr1.3:74676304-74676323 None:intergenic 30.0%
GAAGAGATTGTTCAACAAAT+TGG - chr1.3:74677069-74677088 MS.gene71779:CDS 30.0%
TTATTTATGTGTTGCATTGC+AGG - chr1.3:74676342-74676361 MS.gene71779:intron 30.0%
TTTATTTGGTATAATGCAGC+TGG - chr1.3:74676221-74676240 MS.gene71779:CDS 30.0%
! AAAAGTTCAACTTGTTCTTG+AGG - chr1.3:74676423-74676442 MS.gene71779:intron 30.0%
AGAAAAGAAAATGGTCTCAG+TGG + chr1.3:74676536-74676555 None:intergenic 35.0%
AGTTCTCAATAGGATTCCAA+GGG - chr1.3:74677099-74677118 MS.gene71779:CDS 35.0%
ATGAATCTAACGGTAGAATC+TGG + chr1.3:74676398-74676417 None:intergenic 35.0%
CAAGAATACACAACATAGCA+TGG + chr1.3:74676956-74676975 None:intergenic 35.0%
CACTTCCAATTATGTATGAG+CGG - chr1.3:74676999-74677018 MS.gene71779:CDS 35.0%
CTATGGATCATGTCTACTAT+TGG - chr1.3:74676837-74676856 MS.gene71779:CDS 35.0%
GTACCTGTGTTTAAAAAGGT+AGG - chr1.3:74676676-74676695 MS.gene71779:intron 35.0%
TCATACCGCTCATACATAAT+TGG + chr1.3:74677007-74677026 None:intergenic 35.0%
TGAATCTAACGGTAGAATCT+GGG + chr1.3:74676397-74676416 None:intergenic 35.0%
TGGATTCTACAGTTCTCAAT+AGG - chr1.3:74677089-74677108 MS.gene71779:CDS 35.0%
! AATTGTGGCTGGATTTTCAA+TGG - chr1.3:74676118-74676137 MS.gene71779:CDS 35.0%
! GTTCCTACCTTTTTAAACAC+AGG + chr1.3:74676682-74676701 None:intergenic 35.0%
ATGCAGCTGGATTAATCACT+TGG - chr1.3:74676234-74676253 MS.gene71779:CDS 40.0%
CAGTTCTCAATAGGATTCCA+AGG - chr1.3:74677098-74677117 MS.gene71779:CDS 40.0%
GTTCTCAATAGGATTCCAAG+GGG - chr1.3:74677100-74677119 MS.gene71779:CDS 40.0%
TGAACAATCTCTTCACGTCT+TGG + chr1.3:74677063-74677082 None:intergenic 40.0%
! CGGTACTTCTTTTCTTTCAC+AGG + chr1.3:74677127-74677146 None:intergenic 40.0%
! GGTTTGGTTTCTCTTTGAAG+TGG - chr1.3:74676139-74676158 MS.gene71779:CDS 40.0%
! GTGGACTATCTAGCAAGTAA+AGG - chr1.3:74677034-74677053 MS.gene71779:CDS 40.0%
! TGGCTGGATTTTCAATGGTT+TGG - chr1.3:74676123-74676142 MS.gene71779:CDS 40.0%
! TTCAGACAATAGCTGGTCTA+TGG - chr1.3:74676820-74676839 MS.gene71779:CDS 40.0%
! TTGTACAGCATTTTTGTGCC+TGG - chr1.3:74676973-74676992 MS.gene71779:intron 40.0%
!! ACATAATTGGAAGTGTCACC+AGG + chr1.3:74676994-74677013 None:intergenic 40.0%
AGAAAATGGTCTCAGTGGAG+AGG + chr1.3:74676531-74676550 None:intergenic 45.0%
GAAAACAACGGCAGCAATTG+TGG - chr1.3:74676103-74676122 MS.gene71779:CDS 45.0%
GAATGAGCATAAGGGCTATG+AGG + chr1.3:74676199-74676218 None:intergenic 45.0%
GTATGAGCGGTATGAACATG+AGG - chr1.3:74677012-74677031 MS.gene71779:CDS 45.0%
! TTTTCTTTCACAGGTCCCCT+TGG + chr1.3:74677118-74677137 None:intergenic 45.0%
!! CATATTAATAATTAATAATA+AGG + chr1.3:74676933-74676952 None:intergenic 5.0%
!!! AATAATAAAATTAATTTGTT+TGG + chr1.3:74676906-74676925 None:intergenic 5.0%
!!! ACAAATTAATTTTATTATTT+AGG - chr1.3:74676907-74676926 MS.gene71779:intron 5.0%
GCATAAGGGCTATGAGGATG+TGG + chr1.3:74676193-74676212 None:intergenic 50.0%
TGAGCGGTATGAACATGAGG+TGG - chr1.3:74677015-74677034 MS.gene71779:CDS 50.0%
ACAACGGCAGCAATTGTGGC+TGG - chr1.3:74676107-74676126 MS.gene71779:CDS 55.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 74676101 74677150 74676101 ID=MS.gene71779
chr1.3 mRNA 74676101 74677150 74676101 ID=MS.gene71779.t1;Parent=MS.gene71779
chr1.3 exon 74676996 74677150 74676996 ID=MS.gene71779.t1.exon1;Parent=MS.gene71779.t1
chr1.3 CDS 74676996 74677150 74676996 ID=cds.MS.gene71779.t1;Parent=MS.gene71779.t1
chr1.3 exon 74676758 74676887 74676758 ID=MS.gene71779.t1.exon2;Parent=MS.gene71779.t1
chr1.3 CDS 74676758 74676887 74676758 ID=cds.MS.gene71779.t1;Parent=MS.gene71779.t1
chr1.3 exon 74676357 74676426 74676357 ID=MS.gene71779.t1.exon3;Parent=MS.gene71779.t1
chr1.3 CDS 74676357 74676426 74676357 ID=cds.MS.gene71779.t1;Parent=MS.gene71779.t1
chr1.3 exon 74676101 74676270 74676101 ID=MS.gene71779.t1.exon4;Parent=MS.gene71779.t1
chr1.3 CDS 74676101 74676270 74676101 ID=cds.MS.gene71779.t1;Parent=MS.gene71779.t1
Gene Sequence

>MS.gene71779

ATGAAAACAACGGCAGCAATTGTGGCTGGATTTTCAATGGTTTGGTTTCTCTTTGAAGTGGTTGAATATAATCTTGTTACTCTGCTATGCCACATCCTCATAGCCCTTATGCTCATTCTCTTTATTTGGTATAATGCAGCTGGATTAATCACTTGGTAATTGTATTTTTAACCTTATAAAAATTATGAATATGTGCAGTCCCTATTCAGAAGCCTTATTTTTGTAACATTTGGTGTAAACATTATTTATGTGTTGCATTGCAGGAAACTTCCTGATATCTATGATTTTGAAATCCCAGATTCTACCGTTAGATTCATTCATAAAAAGTTCAACTTGTTCTTGAGGAAATTTTATGACATTTCAACTGGGAAAGATCTTAGATTCTTCTTTGTGGTATTATGAAATAGACCATTTTCAATTATTATCACCTCTCCACTGAGACCATTTTCTTTTCTTTCTGAATTAAATATATTTTTAATCTCTATAAAACTATAAATCTTTCAAGTTGAATCCTCCCTATAAATTTTTTTGACTATATTTAGTTCGCATCTTTTATAAAAATAGAGGGATTAAATGTACCTGTGTTTAAAAAGGTAGGAACTAAAAATTGATAAAAACTTATAGGTACTAAAATAAGATAGCATAAATTATGGGGACTAAAAAAATATTTAAGCCTTTGATTTGAATTGATTTGTTTATTGACATCAAAGTGATTGAATTTCAGACAATAGCTGGTCTATGGATCATGTCTACTATTGGAAATTTCTTCAGCACTGTCAATTTACTATATACAAGTAAGATTCCAAACAAATTAATTTTATTATTTAGGCCTTATTATTAATTATTAATATGCCATGCTATGTTGTGTATTCTTGTACAGCATTTTTGTGCCTGGTGACACTTCCAATTATGTATGAGCGGTATGAACATGAGGTGGACTATCTAGCAAGTAAAGGAAACCAAGACGTGAAGAGATTGTTCAACAAATTGGATTCTACAGTTCTCAATAGGATTCCAAGGGGACCTGTGAAAGAAAAGAAGTACCGATGA
Protein sequence

>MS.gene71779.t1

MKTTAAIVAGFSMVWFLFEVVEYNLVTLLCHILIALMLILFIWYNAAGLITWKLPDIYDFEIPDSTVRFIHKKFNLFLRKFYDISTGKDLRFFFVTIAGLWIMSTIGNFFSTVNLLYTTFLCLVTLPIMYERYEHEVDYLASKGNQDVKRLFNKLDSTVLNRIPRGPVKEKKYR