AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene000550

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000550.t1 MTR_1g008290 66.154 130 41 1 65 194 8 134 9.96e-63 191
MS.gene000550.t1 MTR_5g032260 78.313 83 18 0 63 145 323 405 7.68e-42 145
MS.gene000550.t1 MTR_0402s0040 25.806 186 100 4 41 190 26 209 2.11e-14 70.9
MS.gene000550.t1 MTR_1g070355 26.522 230 108 6 4 175 18 244 4.70e-14 70.1
MS.gene000550.t1 MTR_7g446480 28.646 192 94 5 9 187 84 245 1.22e-13 68.2
MS.gene000550.t1 MTR_7g446060 35.294 85 55 0 93 177 6 90 2.37e-12 62.0
MS.gene000550.t1 MTR_5g076070 26.471 204 104 8 25 188 33 230 7.88e-12 62.8
MS.gene000550.t1 MTR_7g446520 28.293 205 112 8 9 187 57 252 1.28e-11 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene000550.t1 AT4G15090 40.526 190 77 4 40 194 50 238 1.40e-36 135
MS.gene000550.t1 AT4G15090 40.526 190 77 4 40 194 50 238 1.40e-36 135
MS.gene000550.t1 AT4G15090 40.526 190 77 4 40 194 50 238 1.40e-36 135
MS.gene000550.t1 AT4G15090 40.526 190 77 4 40 194 50 238 1.40e-36 135
MS.gene000550.t1 AT4G15090 40.526 190 77 4 40 194 50 238 1.40e-36 135
MS.gene000550.t1 AT1G76320 36.464 181 78 4 45 194 1 175 6.29e-27 107
MS.gene000550.t1 AT1G76320 36.464 181 78 4 45 194 1 175 6.80e-27 107
MS.gene000550.t1 AT1G76320 36.464 181 78 4 45 194 1 175 6.80e-27 107
MS.gene000550.t1 AT1G76320 36.464 181 78 4 45 194 1 175 1.01e-26 106
MS.gene000550.t1 AT3G22170 32.500 200 67 4 40 193 69 246 3.67e-25 102
MS.gene000550.t1 AT3G22170 32.500 200 67 4 40 193 69 246 3.67e-25 102
MS.gene000550.t1 AT4G38180 29.464 224 106 4 6 192 52 260 4.04e-23 96.3
MS.gene000550.t1 AT2G32250 37.500 112 38 3 44 125 41 150 1.52e-14 71.6
MS.gene000550.t1 AT2G32250 37.500 112 38 3 44 125 41 150 1.54e-14 71.6
MS.gene000550.t1 AT2G32250 37.500 112 38 3 44 125 41 150 1.54e-14 71.6
MS.gene000550.t1 AT2G32250 37.500 112 38 3 44 125 41 150 1.54e-14 71.6
MS.gene000550.t1 AT2G32250 37.500 112 38 3 44 125 41 150 1.57e-14 71.6
MS.gene000550.t1 AT2G32250 37.500 112 38 3 44 125 41 150 1.57e-14 71.6
MS.gene000550.t1 AT2G32250 36.937 111 38 3 45 125 1 109 1.19e-13 68.9
MS.gene000550.t1 AT2G32250 36.937 111 38 3 45 125 1 109 1.21e-13 68.9

Find 39 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGAATTTGTGATGGAAAA+TGG 0.198140 8.2:+74403058 MS.gene000550:CDS
AACGCCGACCTTTATCTAAA+TGG 0.237387 8.2:-74403293 None:intergenic
TTCATGTACCGTTGATTTAG+AGG 0.293148 8.2:+74402787 MS.gene000550:CDS
CGGCGTTTGGCTTTAGAATC+AGG 0.298007 8.2:+74403309 MS.gene000550:CDS
GAGCTTTATTGATTCCTCTA+TGG 0.299611 8.2:-74403149 None:intergenic
TCAAAATCCATTCCAATGTT+AGG 0.322056 8.2:-74402827 None:intergenic
GCCACAATGGACAAAGAATA+TGG 0.322237 8.2:+74403228 MS.gene000550:CDS
GTAAGAAACCATTTAGATAA+AGG 0.354999 8.2:+74403285 MS.gene000550:CDS
TTTAGATAAAGGTCGGCGTT+TGG 0.420224 8.2:+74403296 MS.gene000550:CDS
GAATTAATGGAAGTTGTTGA+TGG 0.438521 8.2:+74402701 None:intergenic
GGAAAATAATGTGCATATGC+TGG 0.447627 8.2:-74403123 None:intergenic
ATATGAAAACATTGGTTGCT+TGG 0.449564 8.2:+74403254 MS.gene000550:CDS
ATGGAAGTTGTTGATGGGGA+TGG 0.475587 8.2:+74402707 MS.gene000550:CDS
GATGGAGGACATTCTATTGA+TGG 0.489426 8.2:+74402725 MS.gene000550:CDS
CGTGTTAAAAGAATTTGTGA+TGG 0.498075 8.2:+74403051 MS.gene000550:CDS
TCCATATTCTTTGTCCATTG+TGG 0.503057 8.2:-74403229 None:intergenic
AATTAATGGAAGTTGTTGAT+GGG 0.514194 8.2:+74402702 None:intergenic
AAATCCACGTCCTTGTTTGA+AGG 0.523815 8.2:+74403008 MS.gene000550:CDS
ATTGAAACTTTGCACCATGT+TGG 0.528985 8.2:+74403183 MS.gene000550:CDS
TCCACGTCCTTGTTTGAAGG+TGG 0.544839 8.2:+74403011 MS.gene000550:CDS
AGGAGATGCAAATACAATGT+TGG 0.548389 8.2:+74403329 MS.gene000550:CDS
GAAGTTGTTGATGGGGATGG+AGG 0.553878 8.2:+74402710 MS.gene000550:CDS
TTATTGATTCCTCTATGGCA+AGG 0.554774 8.2:-74403144 None:intergenic
TATGGAGGATATGAAAACAT+TGG 0.557417 8.2:+74403246 MS.gene000550:CDS
CCACGTCCTTGTTTGAAGGT+GGG 0.564321 8.2:+74403012 MS.gene000550:CDS
GAATGAAGAGCAAGCTGTCA+AGG 0.567338 8.2:+74402748 MS.gene000550:CDS
TGCTTGTTCTCACTCCAACA+TGG 0.579133 8.2:-74403197 None:intergenic
TCAAGAACCTAACATTGGAA+TGG 0.579422 8.2:+74402820 MS.gene000550:CDS
TTGTTTGAAGGTGGGATGTG+AGG 0.585943 8.2:+74403020 MS.gene000550:CDS
CCCACCTTCAAACAAGGACG+TGG 0.589716 8.2:-74403012 None:intergenic
ATGGAGGACATTCTATTGAT+GGG 0.590965 8.2:+74402726 MS.gene000550:CDS
TCACATCCCACCTTCAAACA+AGG 0.596792 8.2:-74403018 None:intergenic
GAAACCATTTAGATAAAGGT+CGG 0.598835 8.2:+74403289 MS.gene000550:CDS
GGTGGTCAAGAACCTAACAT+TGG 0.606305 8.2:+74402815 MS.gene000550:CDS
ACCGTTAGCCTCTAAATCAA+CGG 0.614838 8.2:-74402795 None:intergenic
ACCGTTGATTTAGAGGCTAA+CGG 0.628314 8.2:+74402794 MS.gene000550:CDS
ATTAATGGAAGTTGTTGATG+GGG 0.631609 8.2:+74402703 None:intergenic
ACAATGGACAAAGAATATGG+AGG 0.732815 8.2:+74403231 MS.gene000550:CDS
GTTGATTTAGAGGCTAACGG+TGG 0.762259 8.2:+74402797 MS.gene000550:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GTAAGAAACCATTTAGATAA+AGG + chr8.2:74403285-74403304 MS.gene000550:CDS 25.0%
!! AAAGAATTTGTGATGGAAAA+TGG + chr8.2:74403058-74403077 MS.gene000550:CDS 25.0%
CGTGTTAAAAGAATTTGTGA+TGG + chr8.2:74403051-74403070 MS.gene000550:CDS 30.0%
GAAACCATTTAGATAAAGGT+CGG + chr8.2:74403289-74403308 MS.gene000550:CDS 30.0%
TATGGAGGATATGAAAACAT+TGG + chr8.2:74403246-74403265 MS.gene000550:CDS 30.0%
TCAAAATCCATTCCAATGTT+AGG - chr8.2:74402830-74402849 None:intergenic 30.0%
! ATATGAAAACATTGGTTGCT+TGG + chr8.2:74403254-74403273 MS.gene000550:CDS 30.0%
!!! AAGCAAATTTTTTGCCACAA+TGG + chr8.2:74403215-74403234 MS.gene000550:CDS 30.0%
ACAATGGACAAAGAATATGG+AGG + chr8.2:74403231-74403250 MS.gene000550:CDS 35.0%
ACTCATTATGCTAAGTCAGT+TGG + chr8.2:74402878-74402897 MS.gene000550:intron 35.0%
AGGAGATGCAAATACAATGT+TGG + chr8.2:74403329-74403348 MS.gene000550:CDS 35.0%
AGTTATGCTTGCACAAGATA+CGG + chr8.2:74402961-74402980 MS.gene000550:intron 35.0%
ATGCTAAGTCAGTTGGATTT+GGG + chr8.2:74402885-74402904 MS.gene000550:intron 35.0%
ATGGAGGACATTCTATTGAT+GGG + chr8.2:74402726-74402745 MS.gene000550:CDS 35.0%
ATTGAAACTTTGCACCATGT+TGG + chr8.2:74403183-74403202 MS.gene000550:CDS 35.0%
GGAAAATAATGTGCATATGC+TGG - chr8.2:74403126-74403145 None:intergenic 35.0%
TATGCTAAGTCAGTTGGATT+TGG + chr8.2:74402884-74402903 MS.gene000550:intron 35.0%
TCAAGAACCTAACATTGGAA+TGG + chr8.2:74402820-74402839 MS.gene000550:CDS 35.0%
TCCATATTCTTTGTCCATTG+TGG - chr8.2:74403232-74403251 None:intergenic 35.0%
! CATTATTTTCCTTGCCATAG+AGG + chr8.2:74403135-74403154 MS.gene000550:CDS 35.0%
!! GAGCTTTATTGATTCCTCTA+TGG - chr8.2:74403152-74403171 None:intergenic 35.0%
!! TTATTGATTCCTCTATGGCA+AGG - chr8.2:74403147-74403166 None:intergenic 35.0%
!! TTCATGTACCGTTGATTTAG+AGG + chr8.2:74402787-74402806 MS.gene000550:CDS 35.0%
AACGCCGACCTTTATCTAAA+TGG - chr8.2:74403296-74403315 None:intergenic 40.0%
CTGGAAAAAGTTCGTGATTG+TGG - chr8.2:74403107-74403126 None:intergenic 40.0%
GATGGAGGACATTCTATTGA+TGG + chr8.2:74402725-74402744 MS.gene000550:CDS 40.0%
GCCACAATGGACAAAGAATA+TGG + chr8.2:74403228-74403247 MS.gene000550:CDS 40.0%
TTTAGATAAAGGTCGGCGTT+TGG + chr8.2:74403296-74403315 MS.gene000550:CDS 40.0%
! AAATCCACGTCCTTGTTTGA+AGG + chr8.2:74403008-74403027 MS.gene000550:CDS 40.0%
! ACCGTTAGCCTCTAAATCAA+CGG - chr8.2:74402798-74402817 None:intergenic 40.0%
!! ACCGTTGATTTAGAGGCTAA+CGG + chr8.2:74402794-74402813 MS.gene000550:CDS 40.0%
GAATGAAGAGCAAGCTGTCA+AGG + chr8.2:74402748-74402767 MS.gene000550:CDS 45.0%
GGTGGTCAAGAACCTAACAT+TGG + chr8.2:74402815-74402834 MS.gene000550:CDS 45.0%
TCACATCCCACCTTCAAACA+AGG - chr8.2:74403021-74403040 None:intergenic 45.0%
TGCTTGTTCTCACTCCAACA+TGG - chr8.2:74403200-74403219 None:intergenic 45.0%
TTGTTTGAAGGTGGGATGTG+AGG + chr8.2:74403020-74403039 MS.gene000550:CDS 45.0%
! AGGACGTGGATTTTGTGAAC+TGG - chr8.2:74403001-74403020 None:intergenic 45.0%
! ATGGAAGTTGTTGATGGGGA+TGG + chr8.2:74402707-74402726 MS.gene000550:CDS 45.0%
! GTTGATTTAGAGGCTAACGG+TGG + chr8.2:74402797-74402816 MS.gene000550:CDS 45.0%
! CCACGTCCTTGTTTGAAGGT+GGG + chr8.2:74403012-74403031 MS.gene000550:CDS 50.0%
! GAAGTTGTTGATGGGGATGG+AGG + chr8.2:74402710-74402729 MS.gene000550:CDS 50.0%
! TCCACGTCCTTGTTTGAAGG+TGG + chr8.2:74403011-74403030 MS.gene000550:CDS 50.0%
!! CGGCGTTTGGCTTTAGAATC+AGG + chr8.2:74403309-74403328 MS.gene000550:CDS 50.0%
CCCACCTTCAAACAAGGACG+TGG - chr8.2:74403015-74403034 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 74402707 74403377 74402707 ID=MS.gene000550
chr8.2 mRNA 74402707 74403377 74402707 ID=MS.gene000550.t1;Parent=MS.gene000550
chr8.2 exon 74402707 74402891 74402707 ID=MS.gene000550.t1.exon1;Parent=MS.gene000550.t1
chr8.2 CDS 74402707 74402891 74402707 ID=cds.MS.gene000550.t1;Parent=MS.gene000550.t1
chr8.2 exon 74402978 74403377 74402978 ID=MS.gene000550.t1.exon2;Parent=MS.gene000550.t1
chr8.2 CDS 74402978 74403377 74402978 ID=cds.MS.gene000550.t1;Parent=MS.gene000550.t1
Gene Sequence

>MS.gene000550

ATGGAAGTTGTTGATGGGGATGGAGGACATTCTATTGATGGGAATGAAGAGCAAGCTGTCAAGGAGATTGATGACAATGATTCATGTACCGTTGATTTAGAGGCTAACGGTGGTCAAGAACCTAACATTGGAATGGATTTTGACTCACAAGAAAATGCTTATTCATTCTACACTCATTATGCTAAGTCAGTTGGATTTGGGATATCAATTAAAAATAGTCGTCGTTCAAAGATTTTAGAGAGTTAATTGATGTAAGTTATGCTTGCACAAGATACGGCAAGAAGCGAGAATCCAGTTCACAAAATCCACGTCCTTGTTTGAAGGTGGGATGTGAGGCTAGTTTACGTGTTAAAAGAATTTGTGATGGAAAATGGATTGTTCATAGCTTCGTTAAAGACCACAATCACGAACTTTTTCCAGCATATGCACATTATTTTCCTTGCCATAGAGGAATCAATAAAGCTCAAAAGCATTCTATTGAAACTTTGCACCATGTTGGAGTGAGAACAAGCAAATTTTTTGCCACAATGGACAAAGAATATGGAGGATATGAAAACATTGGTTGCTTGGAGAAAGATGTAAGAAACCATTTAGATAAAGGTCGGCGTTTGGCTTTAGAATCAGGAGATGCAAATACAATGTTGGATTGTTTTATGCTCATGCAAAAGTAG
Protein sequence

>MS.gene000550.t1

MEVVDGDGGHSIDGNEEQAVKEIDDNDSCTVDLEANGGQEPNIGMDFDSQENAYSFYTHYAKYGKKRESSSQNPRPCLKVGCEASLRVKRICDGKWIVHSFVKDHNHELFPAYAHYFPCHRGINKAQKHSIETLHHVGVRTSKFFATMDKEYGGYENIGCLEKDVRNHLDKGRRLALESGDANTMLDCFMLMQK