AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036068.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036068.01.T01 MTR_7g007120 89.474 171 9 1 11 172 11 181 3.57e-114 322
MsG0780036068.01.T01 MTR_7g007200 88.889 171 10 1 11 172 11 181 9.18e-114 320
MsG0780036068.01.T01 MTR_7g007220 89.474 171 9 1 11 172 11 181 9.91e-114 320
MsG0780036068.01.T01 MTR_7g007120 88.889 171 10 1 11 172 11 181 2.02e-113 320
MsG0780036068.01.T01 MTR_7g007120 89.412 170 9 1 12 172 12 181 2.36e-113 320
MsG0780036068.01.T01 MTR_7g007230 87.647 170 12 1 12 172 12 181 1.04e-110 313
MsG0780036068.01.T01 MTR_6g018310 81.564 179 23 2 4 172 2 180 2.47e-106 301
MsG0780036068.01.T01 MTR_6g018300 81.006 179 21 3 4 172 2 177 1.57e-103 295
MsG0780036068.01.T01 MTR_7g007210 88.961 154 8 1 11 155 11 164 6.83e-100 286
MsG0780036068.01.T01 MTR_4g127870 47.742 155 70 3 28 171 15 169 3.26e-52 164
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036068.01.T01 AT1G67090 68.681 182 43 3 1 172 1 178 4.94e-86 250
MsG0780036068.01.T01 AT5G38430 68.132 182 44 3 1 172 1 178 4.99e-85 248
MsG0780036068.01.T01 AT5G38430 68.132 182 44 3 1 172 1 178 4.99e-85 248
MsG0780036068.01.T01 AT5G38410 67.582 182 45 3 1 172 1 178 1.05e-84 247
MsG0780036068.01.T01 AT5G38420 67.582 182 45 3 1 172 1 178 2.09e-84 246
MsG0780036068.01.T01 AT5G38410 65.775 187 45 3 1 172 1 183 4.73e-84 246
MsG0780036068.01.T01 AT5G38410 68.000 175 49 3 1 172 1 171 8.14e-81 237
MsG0780036068.01.T01 AT1G67090 71.134 97 23 2 1 96 1 93 1.94e-40 133

Find 55 sgRNAs with CRISPR-Local

Find 77 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAAGTTGATTACCTTATA+AGG 0.273366 7:+2059776 MsG0780036068.01.T01:CDS
AAACCCATCCCTTCCTTATA+AGG 0.286202 7:-2059789 None:intergenic
TCCTTGTTGATCTTTGTAAC+TGG 0.294262 7:-2059420 None:intergenic
GGCGCGGTGGCTCCATTTGT+TGG 0.347642 7:+2059375 MsG0780036068.01.T01:CDS
ATATAGGTGTGGCCTCCTAT+TGG 0.366439 7:+2059694 MsG0780036068.01.T01:intron
GATACTATGATGGACGTTAC+TGG 0.371866 7:+2060011 MsG0780036068.01.T01:CDS
TTCCTTCGCCAATTGTTCTC+TGG 0.385663 7:-2059758 None:intergenic
TATAGGTGTGGCCTCCTATT+GGG 0.392616 7:+2059695 MsG0780036068.01.T01:intron
CGATTCTTCTCAAGTGTTGA+AGG 0.396980 7:+2060066 MsG0780036068.01.T01:CDS
TCTTCCACCATTGCTTGTAA+TGG 0.401668 7:-2059451 None:intergenic
ACCATTGACCAGAGAACAAT+TGG 0.409622 7:+2059750 MsG0780036068.01.T01:CDS
ATGTGGAAGTTGCCTTTGTT+TGG 0.411503 7:+2060037 MsG0780036068.01.T01:CDS
GCCAATTGTTCTCTGGTCAA+TGG 0.420346 7:-2059751 None:intergenic
TCAAACTTCTTCTTCCCAAT+AGG 0.428544 7:-2059709 None:intergenic
ATGATACGGACAAAGGCATC+AGG 0.443523 7:-2060115 None:intergenic
CTTCAACACTTGAGAAGAAT+CGG 0.461194 7:-2060065 None:intergenic
CGCGCCTCGTCGGTTCAATC+CGG 0.461844 7:+2059354 MsG0780036068.01.T01:CDS
GATGCCTTTGTCCGTATCAT+CGG 0.484184 7:+2060118 MsG0780036068.01.T01:CDS
TCCACCATTGCTTGTAATGG+AGG 0.493865 7:-2059448 None:intergenic
CTCAAAATTTAGTAGACTGC+AGG 0.495678 7:-2060190 None:intergenic
CCTTGTTGATCTTTGTAACT+GGG 0.505692 7:-2059419 None:intergenic
ATTACCTTATAAGGAAGGGA+TGG 0.507588 7:+2059785 MsG0780036068.01.T01:CDS
GTTGGACTAAAGTCCATGGC+TGG 0.513160 7:+2059393 MsG0780036068.01.T01:CDS
ATGGACTTTAGTCCAACAAA+TGG 0.519141 7:-2059387 None:intergenic
AGTTGATTACCTTATAAGGA+AGG 0.531157 7:+2059780 MsG0780036068.01.T01:CDS
AACTTCTTCTTCCCAATAGG+AGG 0.534518 7:-2059706 None:intergenic
CATAGTATCCTGGTGACTTG+TGG 0.542155 7:-2059997 None:intergenic
TACAGTTAACCGCGCCTCGT+CGG 0.543383 7:+2059344 MsG0780036068.01.T01:CDS
CGTGAGAACCACAAGTCACC+AGG 0.544938 7:+2059989 MsG0780036068.01.T01:CDS
AACAAATGGAGCCACCGCGC+CGG 0.560979 7:-2059373 None:intergenic
TTACCTTATAAGGAAGGGAT+GGG 0.561867 7:+2059786 MsG0780036068.01.T01:CDS
TAACGTCCATCATAGTATCC+TGG 0.569613 7:-2060007 None:intergenic
AAGTCACCAGGATACTATGA+TGG 0.574009 7:+2060001 MsG0780036068.01.T01:CDS
GTTGATTACCTTATAAGGAA+GGG 0.577350 7:+2059781 MsG0780036068.01.T01:CDS
CGGATTGAACCGACGAGGCG+CGG 0.577823 7:-2059353 None:intergenic
CGTTGTCGAATCCGATGATA+CGG 0.579522 7:-2060129 None:intergenic
ACCTCCATTACAAGCAATGG+TGG 0.582202 7:+2059447 MsG0780036068.01.T01:CDS
ATTTGTTGGACTAAAGTCCA+TGG 0.586371 7:+2059389 MsG0780036068.01.T01:CDS
CTGGTGACTTGTGGTTCTCA+CGG 0.595328 7:-2059988 None:intergenic
AACTGTAGTCACAGCTGAAG+AGG 0.598151 7:-2059328 None:intergenic
GAATCGGTTGCTCCAAACAA+AGG 0.598394 7:-2060049 None:intergenic
AATTGTTCTCTGGTCAATGG+TGG 0.600961 7:-2059748 None:intergenic
ATAACCTCCATTACAAGCAA+TGG 0.603565 7:+2059444 MsG0780036068.01.T01:CDS
GACCAGAGAACAATTGGCGA+AGG 0.609362 7:+2059756 MsG0780036068.01.T01:CDS
TGTAACTGGGAAGCCAGCCA+TGG 0.615947 7:-2059406 None:intergenic
GTTCTCTGGTCAATGGTGGA+AGG 0.618328 7:-2059744 None:intergenic
GTCGGTTCAATCCGGCGCGG+TGG 0.622925 7:+2059362 MsG0780036068.01.T01:CDS
TGGAAGAGTAAACTGCATGC+AGG 0.652563 7:+2059467 MsG0780036068.01.T01:CDS
AGCTGAAGAGGAGATCATAG+AGG 0.655372 7:-2059316 None:intergenic
TGATACGGACAAAGGCATCA+GGG 0.656050 7:-2060114 None:intergenic
CCCAGTTACAAAGATCAACA+AGG 0.670594 7:+2059419 MsG0780036068.01.T01:CDS
CGCGCCGGATTGAACCGACG+AGG 0.686777 7:-2059358 None:intergenic
GAATCCGATGATACGGACAA+AGG 0.687909 7:-2060122 None:intergenic
CTCGTCGGTTCAATCCGGCG+CGG 0.728671 7:+2059359 MsG0780036068.01.T01:CDS
ATGGACGTTACTGGACAATG+TGG 0.742197 7:+2060020 MsG0780036068.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATTAAAACTTTGTACATTAT+TGG + Chr7:2059539-2059558 MsG0780036068.01.T01:intron 15.0%
!!! ATAATGTACAAAGTTTTAAT+TGG - Chr7:2059539-2059558 None:intergenic 15.0%
!! AATAACATTAATAGAGTCAT+TGG + Chr7:2059620-2059639 MsG0780036068.01.T01:intron 20.0%
!! AATGTACAAAAGATTAAGTT+AGG - Chr7:2059668-2059687 None:intergenic 20.0%
!! ATGTACAAAAGATTAAGTTA+GGG - Chr7:2059667-2059686 None:intergenic 20.0%
!! TTTGTACATTACTACTATAT+AGG + Chr7:2059678-2059697 MsG0780036068.01.T01:intron 20.0%
!!! CTCAAATGGATTTTAAATAA+AGG - Chr7:2059918-2059937 None:intergenic 20.0%
!!! GATTTCATGTTTTTTTCATA+AGG + Chr7:2059584-2059603 MsG0780036068.01.T01:intron 20.0%
! AGTAAATGAATATTAGACCT+CGG - Chr7:2059834-2059853 None:intergenic 25.0%
! TGTACAAAAGATTAAGTTAG+GGG - Chr7:2059666-2059685 None:intergenic 25.0%
!! AAGTTATTTCAAACTAGACT+TGG - Chr7:2059502-2059521 None:intergenic 25.0%
!!! AAAATCCATTTGAGTTTTGA+TGG + Chr7:2059924-2059943 MsG0780036068.01.T01:intron 25.0%
ACATTACTACTATATAGGTG+TGG + Chr7:2059683-2059702 MsG0780036068.01.T01:intron 30.0%
AGTTGATTACCTTATAAGGA+AGG + Chr7:2059780-2059799 MsG0780036068.01.T01:CDS 30.0%
GTTAACCATCAAAACTCAAA+TGG - Chr7:2059932-2059951 None:intergenic 30.0%
GTTGATTACCTTATAAGGAA+GGG + Chr7:2059781-2059800 MsG0780036068.01.T01:CDS 30.0%
! AGGAAGTTGATTACCTTATA+AGG + Chr7:2059776-2059795 MsG0780036068.01.T01:CDS 30.0%
! GGGCTTAATAAAATTTTGCA+TGG - Chr7:2059646-2059665 None:intergenic 30.0%
ATAACCTCCATTACAAGCAA+TGG + Chr7:2059444-2059463 MsG0780036068.01.T01:CDS 35.0%
ATGGACTTTAGTCCAACAAA+TGG - Chr7:2059390-2059409 None:intergenic 35.0%
ATTACCTTATAAGGAAGGGA+TGG + Chr7:2059785-2059804 MsG0780036068.01.T01:CDS 35.0%
CCTTGTTGATCTTTGTAACT+GGG - Chr7:2059422-2059441 None:intergenic 35.0%
CTTCAACACTTGAGAAGAAT+CGG - Chr7:2060068-2060087 None:intergenic 35.0%
TCAAACTTCTTCTTCCCAAT+AGG - Chr7:2059712-2059731 None:intergenic 35.0%
TCCTTGTTGATCTTTGTAAC+TGG - Chr7:2059423-2059442 None:intergenic 35.0%
TGATGGTTAACATGTCTACT+TGG + Chr7:2059941-2059960 MsG0780036068.01.T01:intron 35.0%
TTACCTTATAAGGAAGGGAT+GGG + Chr7:2059786-2059805 MsG0780036068.01.T01:CDS 35.0%
! ATTTGTTGGACTAAAGTCCA+TGG + Chr7:2059389-2059408 MsG0780036068.01.T01:CDS 35.0%
AAACCCATCCCTTCCTTATA+AGG - Chr7:2059792-2059811 None:intergenic 40.0%
AACTTCTTCTTCCCAATAGG+AGG - Chr7:2059709-2059728 None:intergenic 40.0%
AAGTCACCAGGATACTATGA+TGG + Chr7:2060001-2060020 MsG0780036068.01.T01:CDS 40.0%
AATTGTTCTCTGGTCAATGG+TGG - Chr7:2059751-2059770 None:intergenic 40.0%
ACCATTGACCAGAGAACAAT+TGG + Chr7:2059750-2059769 MsG0780036068.01.T01:CDS 40.0%
ATGTGGAAGTTGCCTTTGTT+TGG + Chr7:2060037-2060056 MsG0780036068.01.T01:CDS 40.0%
CCCAGTTACAAAGATCAACA+AGG + Chr7:2059419-2059438 MsG0780036068.01.T01:CDS 40.0%
CTACTTGGTTACTTGCAGAA+AGG + Chr7:2059956-2059975 MsG0780036068.01.T01:intron 40.0%
TAACGTCCATCATAGTATCC+TGG - Chr7:2060010-2060029 None:intergenic 40.0%
TCTTCCACCATTGCTTGTAA+TGG - Chr7:2059454-2059473 None:intergenic 40.0%
!! CGATTCTTCTCAAGTGTTGA+AGG + Chr7:2060066-2060085 MsG0780036068.01.T01:CDS 40.0%
!! GATACTATGATGGACGTTAC+TGG + Chr7:2060011-2060030 MsG0780036068.01.T01:CDS 40.0%
AACTGTAGTCACAGCTGAAG+AGG - Chr7:2059331-2059350 None:intergenic 45.0%
ACCTCCATTACAAGCAATGG+TGG + Chr7:2059447-2059466 MsG0780036068.01.T01:CDS 45.0%
AGCTGAAGAGGAGATCATAG+AGG - Chr7:2059319-2059338 None:intergenic 45.0%
ATATAGGTGTGGCCTCCTAT+TGG + Chr7:2059694-2059713 MsG0780036068.01.T01:intron 45.0%
ATGGACGTTACTGGACAATG+TGG + Chr7:2060020-2060039 MsG0780036068.01.T01:CDS 45.0%
CATAGTATCCTGGTGACTTG+TGG - Chr7:2060000-2060019 None:intergenic 45.0%
CGTTGTCGAATCCGATGATA+CGG - Chr7:2060132-2060151 None:intergenic 45.0%
GAATCCGATGATACGGACAA+AGG - Chr7:2060125-2060144 None:intergenic 45.0%
GAATCGGTTGCTCCAAACAA+AGG - Chr7:2060052-2060071 None:intergenic 45.0%
GATGCCTTTGTCCGTATCAT+CGG + Chr7:2060118-2060137 MsG0780036068.01.T01:CDS 45.0%
GCCAATTGTTCTCTGGTCAA+TGG - Chr7:2059754-2059773 None:intergenic 45.0%
TATAGGTGTGGCCTCCTATT+GGG + Chr7:2059695-2059714 MsG0780036068.01.T01:intron 45.0%
TCCACCATTGCTTGTAATGG+AGG - Chr7:2059451-2059470 None:intergenic 45.0%
TGGAAGAGTAAACTGCATGC+AGG + Chr7:2059467-2059486 MsG0780036068.01.T01:CDS 45.0%
TTCCTTCGCCAATTGTTCTC+TGG - Chr7:2059761-2059780 None:intergenic 45.0%
! TTGCTTGGAATTTGAGACCG+AGG + Chr7:2059814-2059833 MsG0780036068.01.T01:intron 45.0%
!! ATGATACGGACAAAGGCATC+AGG - Chr7:2060118-2060137 None:intergenic 45.0%
!! TGATACGGACAAAGGCATCA+GGG - Chr7:2060117-2060136 None:intergenic 45.0%
GACCAGAGAACAATTGGCGA+AGG + Chr7:2059756-2059775 MsG0780036068.01.T01:CDS 50.0%
GTTGGACTAAAGTCCATGGC+TGG + Chr7:2059393-2059412 MsG0780036068.01.T01:CDS 50.0%
! AAGGGATGGGTTTGCTTGCT+TGG + Chr7:2059799-2059818 MsG0780036068.01.T01:intron 50.0%
! CTGGTGACTTGTGGTTCTCA+CGG - Chr7:2059991-2060010 None:intergenic 50.0%
! GTTCTCTGGTCAATGGTGGA+AGG - Chr7:2059747-2059766 None:intergenic 50.0%
AAAGGTCCGTGACCACGATC+AGG - Chr7:2059900-2059919 None:intergenic 55.0%
AAGGTCCGTGACCACGATCA+GGG - Chr7:2059899-2059918 None:intergenic 55.0%
CGTGAGAACCACAAGTCACC+AGG + Chr7:2059989-2060008 MsG0780036068.01.T01:CDS 55.0%
TACAGTTAACCGCGCCTCGT+CGG + Chr7:2059344-2059363 MsG0780036068.01.T01:CDS 55.0%
TGTAACTGGGAAGCCAGCCA+TGG - Chr7:2059409-2059428 None:intergenic 55.0%
! TTTTGTCGCGACCCTGATCG+TGG + Chr7:2059885-2059904 MsG0780036068.01.T01:intron 55.0%
AACAAATGGAGCCACCGCGC+CGG - Chr7:2059376-2059395 None:intergenic 60.0%
CGCGACCCTGATCGTGGTCA+CGG + Chr7:2059891-2059910 MsG0780036068.01.T01:intron 65.0%
CGGATTGAACCGACGAGGCG+CGG - Chr7:2059356-2059375 None:intergenic 65.0%
GGCGCGGTGGCTCCATTTGT+TGG + Chr7:2059375-2059394 MsG0780036068.01.T01:CDS 65.0%
!! CGCGCCTCGTCGGTTCAATC+CGG + Chr7:2059354-2059373 MsG0780036068.01.T01:CDS 65.0%
!! CTCGTCGGTTCAATCCGGCG+CGG + Chr7:2059359-2059378 MsG0780036068.01.T01:CDS 65.0%
CGCGCCGGATTGAACCGACG+AGG - Chr7:2059361-2059380 None:intergenic 70.0%
! GTCGGTTCAATCCGGCGCGG+TGG + Chr7:2059362-2059381 MsG0780036068.01.T01:CDS 70.0%
Chromosome Type Strat End Strand Name
Chr7 gene 2059309 2060204 2059309 ID=MsG0780036068.01;Name=MsG0780036068.01
Chr7 mRNA 2059309 2060204 2059309 ID=MsG0780036068.01.T01;Parent=MsG0780036068.01;Name=MsG0780036068.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|1|1|3|0|172
Chr7 exon 2059309 2059488 2059309 ID=MsG0780036068.01.T01:exon:15627;Parent=MsG0780036068.01.T01
Chr7 exon 2059700 2059807 2059700 ID=MsG0780036068.01.T01:exon:15628;Parent=MsG0780036068.01.T01
Chr7 exon 2059974 2060204 2059974 ID=MsG0780036068.01.T01:exon:15629;Parent=MsG0780036068.01.T01
Chr7 CDS 2059309 2059488 2059309 ID=MsG0780036068.01.T01:cds;Parent=MsG0780036068.01.T01
Chr7 CDS 2059700 2059807 2059700 ID=MsG0780036068.01.T01:cds;Parent=MsG0780036068.01.T01
Chr7 CDS 2059974 2060204 2059974 ID=MsG0780036068.01.T01:cds;Parent=MsG0780036068.01.T01
Gene Sequence

>MsG0780036068.01.T01

ATGGCTGCCTCTATGATCTCCTCTTCAGCTGTGACTACAGTTAACCGCGCCTCGTCGGTTCAATCCGGCGCGGTGGCTCCATTTGTTGGACTAAAGTCCATGGCTGGCTTCCCAGTTACAAAGATCAACAAGGACATAACCTCCATTACAAGCAATGGTGGAAGAGTAAACTGCATGCAGGTGTGGCCTCCTATTGGGAAGAAGAAGTTTGAGACACTTTCATACCTTCCACCATTGACCAGAGAACAATTGGCGAAGGAAGTTGATTACCTTATAAGGAAGGGATGGAAAGGATTTGTGTACCGTGAGAACCACAAGTCACCAGGATACTATGATGGACGTTACTGGACAATGTGGAAGTTGCCTTTGTTTGGAGCAACCGATTCTTCTCAAGTGTTGAAGGAGCTTGATGAAGCTATTGCTGCTTACCCTGATGCCTTTGTCCGTATCATCGGATTCGACAACGTTCGTCAAGTTCAATGCATCAGTTTCATTGCACACACACCTGCAGTCTACTAA

Protein sequence

>MsG0780036068.01.T01

MAASMISSSAVTTVNRASSVQSGAVAPFVGLKSMAGFPVTKINKDITSITSNGGRVNCMQVWPPIGKKKFETLSYLPPLTREQLAKEVDYLIRKGWKGFVYRENHKSPGYYDGRYWTMWKLPLFGATDSSQVLKELDEAIAAYPDAFVRIIGFDNVRQVQCISFIAHTPAVY*