AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene044486

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene044486.t1 MTR_7g029400 37.383 107 63 1 79 181 55 161 2.85e-16 73.9
MS.gene044486.t1 MTR_8g015250 38.235 102 59 1 84 181 50 151 4.96e-16 73.2
MS.gene044486.t1 MTR_7g017880 42.342 111 60 1 73 179 52 162 7.89e-16 72.8
MS.gene044486.t1 MTR_6g016375 41.441 111 60 1 76 181 57 167 9.03e-16 72.8
MS.gene044486.t1 MTR_4g070860 37.143 105 56 2 93 187 16 120 2.58e-12 62.8
MS.gene044486.t1 MTR_5g015090 38.261 115 58 4 73 179 27 136 3.04e-12 62.4
MS.gene044486.t1 MTR_3g117120 36.275 102 55 2 93 184 16 117 1.20e-11 60.8
MS.gene044486.t1 MTR_1g087040 33.028 109 66 1 84 185 7 115 1.31e-11 60.5
MS.gene044486.t1 MTR_4g097440 29.870 154 86 5 25 172 6 143 1.68e-11 60.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene044486.t1 AT5G60830 54.118 85 39 0 102 186 69 153 8.34e-22 89.0
MS.gene044486.t1 AT5G38800 41.667 96 54 1 86 179 52 147 6.46e-18 77.8
MS.gene044486.t1 AT3G30530 43.000 100 57 0 82 181 59 158 7.32e-18 77.8
MS.gene044486.t1 AT1G13600 42.105 95 50 1 90 179 67 161 3.15e-16 73.9
MS.gene044486.t1 AT5G15830 38.614 101 56 1 92 186 56 156 6.95e-14 67.4
MS.gene044486.t1 AT2G04038 40.426 94 50 1 92 179 56 149 2.01e-13 65.9
MS.gene044486.t1 AT1G75390 40.566 106 55 2 82 179 11 116 1.70e-11 60.8
MS.gene044486.t1 AT2G18160 35.577 104 62 1 90 188 17 120 5.19e-11 59.3
MS.gene044486.t1 AT1G75390 41.237 97 49 2 82 170 11 107 9.88e-11 57.8

Find 58 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGAGTTCATGATGGGTTTC+TGG 0.068192 8.1:+15652361 None:intergenic
CAACAAAATGCTCAACTTAA+AGG 0.201570 8.1:-15651961 MS.gene044486:CDS
CCAACAAGTAAATGATCTTT+TGG 0.211603 8.1:+15652004 None:intergenic
ATGAGTTGGGAGAAGATTTA+TGG 0.268120 8.1:+15652202 None:intergenic
AGCCTGCAAAACCTGGAAAA+TGG 0.302202 8.1:-15652339 MS.gene044486:CDS
CCAAAAGATCATTTACTTGT+TGG 0.311300 8.1:-15652004 MS.gene044486:CDS
TGAGTTCATGATGGGTTTCT+GGG 0.383025 8.1:+15652362 None:intergenic
CCGGTCGTAACCAACATTTC+CGG 0.387245 8.1:+15651891 None:intergenic
TTTATGGTCTGGAATTTGAA+TGG 0.416953 8.1:+15652218 None:intergenic
GAACTCAAGCCTGCAAAACC+TGG 0.431180 8.1:-15652346 MS.gene044486:CDS
CGGAAGCATAGGGTACTTCA+TGG 0.433114 8.1:+15652415 None:intergenic
TTGGGAGAAGATTTATGGTC+TGG 0.437689 8.1:+15652207 None:intergenic
TTGCAGGCTTGAGTTCATGA+TGG 0.445548 8.1:+15652353 None:intergenic
TGAAGCTGGGAGTAGTGAAA+TGG 0.452683 8.1:+15652264 None:intergenic
TTATGGTCTGGAATTTGAAT+GGG 0.454968 8.1:+15652219 None:intergenic
TTCATGATGGGTTTCTGGGT+TGG 0.465026 8.1:+15652366 None:intergenic
TTGCTGTTTGATGATGAGTT+GGG 0.465194 8.1:+15652189 None:intergenic
AGCGGTACTATCTACTTTGT+TGG 0.466162 8.1:-15651920 MS.gene044486:CDS
GTTGCTGTTTGATGATGAGT+TGG 0.468729 8.1:+15652188 None:intergenic
TGCAGGCTTGAGTTCATGAT+GGG 0.472548 8.1:+15652354 None:intergenic
TTGATGATCGAAAGAAGAAA+AGG 0.480340 8.1:-15652137 MS.gene044486:CDS
AGACGAGTTGAAAGGTTGGC+TGG 0.483172 8.1:+15651836 None:intergenic
TGTCGTTAGAGAGGTGAAGC+TGG 0.483487 8.1:+15652250 None:intergenic
ACCCATCTGTATCCATCTCA+AGG 0.506932 8.1:-15652300 MS.gene044486:CDS
TCTACTTTGTTGGTTACGAC+CGG 0.517483 8.1:-15651910 MS.gene044486:CDS
GTACTGTATCACGGAAGCAT+AGG 0.517499 8.1:+15652404 None:intergenic
ATTGATGGTTCAGCGCCTGC+AGG 0.527456 8.1:+15652031 None:intergenic
AGGTTGGCTGGGAAGCCACT+AGG 0.529008 8.1:+15651848 None:intergenic
ATGGGTTTCTGGGTTGGAGA+AGG 0.532216 8.1:+15652372 None:intergenic
GATACAGATGGGTCAAAGAA+TGG 0.534656 8.1:+15652310 None:intergenic
CTGGGAAGCCACTAGGGATG+TGG 0.538645 8.1:+15651855 None:intergenic
TTTCTGGGTTGGAGAAGGAT+AGG 0.544788 8.1:+15652377 None:intergenic
CCGGAAATGTTGGTTACGAC+CGG 0.556386 8.1:-15651891 MS.gene044486:CDS
GTATCAAGTGAATCACCTGC+AGG 0.567327 8.1:-15652046 MS.gene044486:CDS
ATATCATGTAAACCTTGAGA+TGG 0.573761 8.1:+15652288 None:intergenic
TCAAACAGCAACAACAACTC+TGG 0.574952 8.1:-15652177 MS.gene044486:CDS
GTCGTTAGAGAGGTGAAGCT+GGG 0.575441 8.1:+15652251 None:intergenic
GACGAGTTGAAAGGTTGGCT+GGG 0.575767 8.1:+15651837 None:intergenic
AACCTTGAGATGGATACAGA+TGG 0.576394 8.1:+15652298 None:intergenic
TACTGTATCACGGAAGCATA+GGG 0.579135 8.1:+15652405 None:intergenic
GGTTGGCTGGGAAGCCACTA+GGG 0.587937 8.1:+15651849 None:intergenic
TTGTAACTAGACGAGTTGAA+AGG 0.591340 8.1:+15651828 None:intergenic
TTGGTTACGACCGGAAATGT+TGG 0.596096 8.1:-15651901 MS.gene044486:CDS
AGATAGTACCGCTTGAAGAG+AGG 0.597446 8.1:+15651930 None:intergenic
GACTGTCGCTGTCGTTAGAG+AGG 0.603830 8.1:+15652241 None:intergenic
CAAAACCTGGAAAATGGAGA+AGG 0.605645 8.1:-15652333 MS.gene044486:CDS
CAAAGTTTCCTCTCTTCAAG+CGG 0.609354 8.1:-15651938 MS.gene044486:CDS
GGTGATTCACTTGATACCAC+AGG 0.615500 8.1:+15652052 None:intergenic
AACTAGACGAGTTGAAAGGT+TGG 0.615858 8.1:+15651832 None:intergenic
ACCTTGAGATGGATACAGAT+GGG 0.616103 8.1:+15652299 None:intergenic
ATAGGAAAGGTACTGTATCA+CGG 0.627119 8.1:+15652395 None:intergenic
CAACAACTCTGGTAAAGCAA+AGG 0.630742 8.1:-15652166 MS.gene044486:CDS
AGACATGGTACGCAATGACG+AGG 0.666727 8.1:-15652442 None:intergenic
CTAACAGAGAATCTGCTCGT+CGG 0.675721 8.1:-15652107 MS.gene044486:CDS
TTACCTCACCACATCCCTAG+TGG 0.684913 8.1:-15651863 MS.gene044486:CDS
AGCAGCGAATTGAAGTCCTG+TGG 0.703639 8.1:-15652068 MS.gene044486:CDS
AAGCCACTAGGGATGTGGTG+AGG 0.721984 8.1:+15651860 None:intergenic
GGGTTGGAGAAGGATAGGAA+AGG 0.730828 8.1:+15652382 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAACAAGTAAATGATCTTTT+GGG + chr8.1:15652270-15652289 None:intergenic 25.0%
ATATCATGTAAACCTTGAGA+TGG + chr8.1:15651987-15652006 None:intergenic 30.0%
CAACAAAATGCTCAACTTAA+AGG - chr8.1:15652311-15652330 MS.gene044486:CDS 30.0%
CCAAAAGATCATTTACTTGT+TGG - chr8.1:15652268-15652287 MS.gene044486:CDS 30.0%
! CCAACAAGTAAATGATCTTT+TGG + chr8.1:15652271-15652290 None:intergenic 30.0%
! TTATGGTCTGGAATTTGAAT+GGG + chr8.1:15652056-15652075 None:intergenic 30.0%
! TTGATGATCGAAAGAAGAAA+AGG - chr8.1:15652135-15652154 MS.gene044486:CDS 30.0%
! TTTATGGTCTGGAATTTGAA+TGG + chr8.1:15652057-15652076 None:intergenic 30.0%
! TTTTCTTCTTTCGATCATCA+AGG + chr8.1:15652136-15652155 None:intergenic 30.0%
!! CATTTTGTTGGTTGATTAGT+TGG + chr8.1:15652301-15652320 None:intergenic 30.0%
!!! CTTTAAGTTGAGCATTTTGT+TGG + chr8.1:15652313-15652332 None:intergenic 30.0%
! ATGAGTTGGGAGAAGATTTA+TGG + chr8.1:15652073-15652092 None:intergenic 35.0%
!! ATAGGAAAGGTACTGTATCA+CGG + chr8.1:15651880-15651899 None:intergenic 35.0%
!! TTGCTGTTTGATGATGAGTT+GGG + chr8.1:15652086-15652105 None:intergenic 35.0%
!!! TGATCTTTTGGGACAATTGA+TGG + chr8.1:15652259-15652278 None:intergenic 35.0%
AACCTTGAGATGGATACAGA+TGG + chr8.1:15651977-15651996 None:intergenic 40.0%
ACCTTGAGATGGATACAGAT+GGG + chr8.1:15651976-15651995 None:intergenic 40.0%
AGCGGTACTATCTACTTTGT+TGG - chr8.1:15652352-15652371 MS.gene044486:CDS 40.0%
CAAAACCTGGAAAATGGAGA+AGG - chr8.1:15651939-15651958 MS.gene044486:CDS 40.0%
CAAAGTTTCCTCTCTTCAAG+CGG - chr8.1:15652334-15652353 MS.gene044486:CDS 40.0%
CAACAACTCTGGTAAAGCAA+AGG - chr8.1:15652106-15652125 MS.gene044486:CDS 40.0%
GATACAGATGGGTCAAAGAA+TGG + chr8.1:15651965-15651984 None:intergenic 40.0%
TCAAACAGCAACAACAACTC+TGG - chr8.1:15652095-15652114 MS.gene044486:CDS 40.0%
TTGGGAGAAGATTTATGGTC+TGG + chr8.1:15652068-15652087 None:intergenic 40.0%
! ATGTGGTGAGGTAACTTTTC+CGG + chr8.1:15652403-15652422 None:intergenic 40.0%
! TACTGTATCACGGAAGCATA+GGG + chr8.1:15651870-15651889 None:intergenic 40.0%
! TCTACTTTGTTGGTTACGAC+CGG - chr8.1:15652362-15652381 MS.gene044486:CDS 40.0%
!! GTTGCTGTTTGATGATGAGT+TGG + chr8.1:15652087-15652106 None:intergenic 40.0%
!! TGAGTTCATGATGGGTTTCT+GGG + chr8.1:15651913-15651932 None:intergenic 40.0%
!! TTGAGTTCATGATGGGTTTC+TGG + chr8.1:15651914-15651933 None:intergenic 40.0%
ACCCATCTGTATCCATCTCA+AGG - chr8.1:15651972-15651991 MS.gene044486:CDS 45.0%
AGATAGTACCGCTTGAAGAG+AGG + chr8.1:15652345-15652364 None:intergenic 45.0%
AGCCTGCAAAACCTGGAAAA+TGG - chr8.1:15651933-15651952 MS.gene044486:CDS 45.0%
CTAACAGAGAATCTGCTCGT+CGG - chr8.1:15652165-15652184 MS.gene044486:CDS 45.0%
GGTGATTCACTTGATACCAC+AGG + chr8.1:15652223-15652242 None:intergenic 45.0%
GTATCAAGTGAATCACCTGC+AGG - chr8.1:15652226-15652245 MS.gene044486:CDS 45.0%
TGAAGCTGGGAGTAGTGAAA+TGG + chr8.1:15652011-15652030 None:intergenic 45.0%
TGCAGGCTTGAGTTCATGAT+GGG + chr8.1:15651921-15651940 None:intergenic 45.0%
TTGCAGGCTTGAGTTCATGA+TGG + chr8.1:15651922-15651941 None:intergenic 45.0%
TTGGTTACGACCGGAAATGT+TGG - chr8.1:15652371-15652390 MS.gene044486:CDS 45.0%
! AATGGCCTTCTCCATTTTCC+AGG + chr8.1:15651947-15651966 None:intergenic 45.0%
! CTCCATTTTCCAGGTTTTGC+AGG + chr8.1:15651938-15651957 None:intergenic 45.0%
! GTACTGTATCACGGAAGCAT+AGG + chr8.1:15651871-15651890 None:intergenic 45.0%
! TTTCTGGGTTGGAGAAGGAT+AGG + chr8.1:15651898-15651917 None:intergenic 45.0%
!! TTCATGATGGGTTTCTGGGT+TGG + chr8.1:15651909-15651928 None:intergenic 45.0%
AGCAGCGAATTGAAGTCCTG+TGG - chr8.1:15652204-15652223 MS.gene044486:CDS 50.0%
CCGGTCGTAACCAACATTTC+CGG + chr8.1:15652384-15652403 None:intergenic 50.0%
GAACTCAAGCCTGCAAAACC+TGG - chr8.1:15651926-15651945 MS.gene044486:CDS 50.0%
GGGTTGGAGAAGGATAGGAA+AGG + chr8.1:15651893-15651912 None:intergenic 50.0%
GTCGTTAGAGAGGTGAAGCT+GGG + chr8.1:15652024-15652043 None:intergenic 50.0%
TGTCGTTAGAGAGGTGAAGC+TGG + chr8.1:15652025-15652044 None:intergenic 50.0%
TTACCTCACCACATCCCTAG+TGG - chr8.1:15652409-15652428 MS.gene044486:CDS 50.0%
! AGACGAGTTGAAAGGTTGGC+TGG + chr8.1:15652439-15652458 None:intergenic 50.0%
! ATGGGTTTCTGGGTTGGAGA+AGG + chr8.1:15651903-15651922 None:intergenic 50.0%
! CCGGAAATGTTGGTTACGAC+CGG - chr8.1:15652381-15652400 MS.gene044486:CDS 50.0%
! CGGAAGCATAGGGTACTTCA+TGG + chr8.1:15651860-15651879 None:intergenic 50.0%
! GACGAGTTGAAAGGTTGGCT+GGG + chr8.1:15652438-15652457 None:intergenic 50.0%
AAGCCACTAGGGATGTGGTG+AGG + chr8.1:15652415-15652434 None:intergenic 55.0%
GACTGTCGCTGTCGTTAGAG+AGG + chr8.1:15652034-15652053 None:intergenic 55.0%
! ATTGATGGTTCAGCGCCTGC+AGG + chr8.1:15652244-15652263 None:intergenic 55.0%
CTGGGAAGCCACTAGGGATG+TGG + chr8.1:15652420-15652439 None:intergenic 60.0%
! AGGTTGGCTGGGAAGCCACT+AGG + chr8.1:15652427-15652446 None:intergenic 60.0%
! GGTTGGCTGGGAAGCCACTA+GGG + chr8.1:15652426-15652445 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 15651834 15652460 15651834 ID=MS.gene044486
chr8.1 mRNA 15651834 15652460 15651834 ID=MS.gene044486.t1;Parent=MS.gene044486
chr8.1 exon 15651834 15652460 15651834 ID=MS.gene044486.t1.exon1;Parent=MS.gene044486.t1
chr8.1 CDS 15651834 15652460 15651834 ID=cds.MS.gene044486.t1;Parent=MS.gene044486.t1
Gene Sequence

>MS.gene044486

ATGGTACGCAATGACGAGGAACTCCATGAAGTACCCTATGCTTCCGTGATACAGTACCTTTCCTATCCTTCTCCAACCCAGAAACCCATCATGAACTCAAGCCTGCAAAACCTGGAAAATGGAGAAGGCCATTCTTTGACCCATCTGTATCCATCTCAAGGTTTACATGATATTCCATTTCACTACTCCCAGCTTCACCTCTCTAACGACAGCGACAGTCCCATTCAAATTCCAGACCATAAATCTTCTCCCAACTCATCATCAAACAGCAACAACAACTCTGGTAAAGCAAAGGATCTCCTTGATGATCGAAAGAAGAAAAGGATGTTCTCTAACAGAGAATCTGCTCGTCGGTCGCGAATGAGAAAGAAGCAGCGAATTGAAGTCCTGTGGTATCAAGTGAATCACCTGCAGGCGCTGAACCATCAATTGTCCCAAAAGATCATTTACTTGTTGGAATGTAACCAACTAATCAACCAACAAAATGCTCAACTTAAAGGCAAAGTTTCCTCTCTTCAAGCGGTACTATCTACTTTGTTGGTTACGACCGGAAATGTTGGTTACGACCGGAAAAGTTACCTCACCACATCCCTAGTGGCTTCCCAGCCAACCTTTCAACTCGTCTAG
Protein sequence

>MS.gene044486.t1

MVRNDEELHEVPYASVIQYLSYPSPTQKPIMNSSLQNLENGEGHSLTHLYPSQGLHDIPFHYSQLHLSNDSDSPIQIPDHKSSPNSSSNSNNNSGKAKDLLDDRKKKRMFSNRESARRSRMRKKQRIEVLWYQVNHLQALNHQLSQKIIYLLECNQLINQQNAQLKGKVSSLQAVLSTLLVTTGNVGYDRKSYLTTSLVASQPTFQLV