AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034316.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034316.01.T02 MTR_6g059410 86.538 52 7 0 9 60 53 104 1.27e-20 80.9
MsG0680034316.01.T02 MTR_6g059530 90.385 52 5 0 9 60 54 105 2.86e-20 79.7
MsG0680034316.01.T02 MTR_6g017225 53.704 54 22 2 7 59 56 107 4.93e-12 59.3
MsG0680034316.01.T02 MTR_6g059650 71.429 35 10 0 4 38 51 85 5.59e-12 58.2
MsG0680034316.01.T02 MTR_6g059680 54.167 48 21 1 13 59 64 111 1.96e-11 57.0
MsG0680034316.01.T01 MTR_6g059530 91.429 105 9 0 1 105 1 105 1.55e-51 161
MsG0680034316.01.T01 MTR_6g059410 88.571 105 11 1 1 105 1 104 1.97e-49 156
MsG0680034316.01.T01 MTR_6g059650 64.179 67 24 0 17 83 19 85 1.42e-25 95.5
MsG0680034316.01.T01 MTR_6g017225 50.485 103 45 4 6 104 7 107 1.46e-24 95.9
MsG0680034316.01.T01 MTR_6g065460 54.206 107 44 3 1 102 1 107 6.57e-24 90.5
MsG0680034316.01.T01 MTR_6g065460 54.206 107 44 3 1 102 1 107 1.59e-23 90.1
MsG0680034316.01.T01 MTR_6g059680 55.319 94 37 2 16 104 18 111 8.11e-22 86.3
MsG0680034316.01.T01 MTR_6g044810 57.143 91 28 5 1 83 1 88 1.96e-20 82.4
MsG0680034316.01.T01 MTR_6g045097 56.180 89 32 4 1 83 1 88 8.37e-20 81.3
MsG0680034316.01.T01 MTR_6g044780 56.180 89 32 4 1 83 1 88 8.55e-20 80.9
MsG0680034316.01.T01 MTR_6g045403 54.444 90 31 5 1 83 1 87 1.75e-18 77.4
MsG0680034316.01.T01 MTR_6g009650 45.370 108 53 4 1 104 1 106 2.08e-18 77.0
MsG0680034316.01.T01 MTR_6g059760 51.685 89 34 5 1 84 1 85 6.52e-18 75.9
MsG0680034316.01.T01 MTR_6g059730 51.402 107 47 3 6 107 7 113 7.01e-18 75.9
MsG0680034316.01.T01 MTR_6g009563 44.545 110 52 4 1 104 1 107 5.10e-17 73.6
MsG0680034316.01.T01 MTR_6g066190 43.519 108 55 4 1 104 1 106 5.89e-17 73.6
MsG0680034316.01.T01 MTR_6g065570 53.333 60 25 1 16 72 14 73 1.01e-16 69.7
MsG0680034316.01.T01 MTR_6g059810 41.228 114 56 4 4 109 8 118 8.98e-16 70.1
MsG0680034316.01.T01 MTR_3g463590 48.276 87 43 2 20 104 23 109 9.22e-16 70.1
MsG0680034316.01.T01 MTR_6g045433 47.826 92 30 4 7 83 8 96 1.15e-15 70.1
MsG0680034316.01.T01 MTR_6g066210 45.283 106 52 4 1 102 1 104 2.13e-15 69.3
MsG0680034316.01.T01 MTR_6g078070 39.423 104 59 3 1 101 1 103 6.26e-14 65.1
MsG0680034316.01.T01 MTR_1g035770 43.519 108 51 5 6 104 7 113 1.78e-12 61.6
MsG0680034316.01.T01 MTR_6g078100 38.318 107 59 3 1 101 1 106 1.52e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034316.01.T01 AT1G17860 39.785 93 54 2 21 113 24 114 9.10e-13 62.0

Find 29 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAAACGGTTGAAGACATAAA+TGG 0.296997 6:+85544027 MsG0680034316.01.T01:CDS
GGTAAGCAATGTTGGCTTCA+TGG 0.309270 6:-85543956 None:intergenic
AAATCTTGTAGAACAGTAAC+TGG 0.355500 6:-85544150 None:intergenic
ACCGTTTCAGTAAAAGCTAA+TGG 0.365801 6:-85544012 None:intergenic
AATGGAAACCCCGTATTTCC+TGG 0.375075 6:+85544045 MsG0680034316.01.T01:CDS
ACTCGTATGATAAATCTAAC+TGG 0.385923 6:-85544195 None:intergenic
ATCATGAGCTAGCACCCATT+TGG 0.447134 6:-85544291 None:intergenic
GTATTTGCTACCAGGAAATA+CGG 0.450228 6:-85544055 None:intergenic
TATTTGCTACCAGGAAATAC+GGG 0.456020 6:-85544054 None:intergenic
GAAAGTAGGTAAAGGAAAAG+AGG 0.466771 6:-85543990 None:intergenic
AGTAAAAGCTAATGGAAAGT+AGG 0.489860 6:-85544004 None:intergenic
GGATTGAAGCTTGGTAAGAC+AGG 0.499062 6:+85544114 MsG0680034316.01.T01:CDS
GGAAAAGAGGAGGAGAGAAA+AGG 0.510811 6:-85543977 None:intergenic
ATGTCTAAAGGAGGAGGTGG+TGG 0.513667 6:+85544093 MsG0680034316.01.T01:CDS
GGAGGTGGTGGATTGAAGCT+TGG 0.515566 6:+85544105 MsG0680034316.01.T01:CDS
TTGGAAGATTCAGCACACTT+TGG 0.519328 6:-85544272 None:intergenic
CCTCCTCCTTTAGACATAAG+TGG 0.521949 6:-85544087 None:intergenic
AGAGAAAAGGTAAGCAATGT+TGG 0.528481 6:-85543964 None:intergenic
ATTGCACCACTTATGTCTAA+AGG 0.535923 6:+85544081 MsG0680034316.01.T01:CDS
AGTGTGCTGAATCTTCCAAA+TGG 0.536599 6:+85544276 MsG0680034316.01.T01:CDS
AGCTAATGGAAAGTAGGTAA+AGG 0.537202 6:-85543998 None:intergenic
GTGTGCTGAATCTTCCAAAT+GGG 0.579792 6:+85544277 MsG0680034316.01.T01:CDS
CTTATGTCTAAAGGAGGAGG+TGG 0.581977 6:+85544090 MsG0680034316.01.T01:CDS
AGTAGGTAAAGGAAAAGAGG+AGG 0.584445 6:-85543987 None:intergenic
CCACTTATGTCTAAAGGAGG+AGG 0.587624 6:+85544087 MsG0680034316.01.T01:CDS
GCAATATAGTATTTGCTACC+AGG 0.595672 6:-85544063 None:intergenic
GCACCACTTATGTCTAAAGG+AGG 0.661209 6:+85544084 MsG0680034316.01.T01:CDS
ATTTGCTACCAGGAAATACG+GGG 0.675453 6:-85544053 None:intergenic
TTTATCATACGAGTAAAACG+TGG 0.798123 6:+85544204 MsG0680034316.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTTCTACAAGATTTTAATG+AGG + Chr6:85544158-85544177 MsG0680034316.01.T01:CDS 25.0%
AAATCTTGTAGAACAGTAAC+TGG - Chr6:85544153-85544172 None:intergenic 30.0%
ACTCGTATGATAAATCTAAC+TGG - Chr6:85544198-85544217 None:intergenic 30.0%
AGTAAAAGCTAATGGAAAGT+AGG - Chr6:85544007-85544026 None:intergenic 30.0%
TTTATCATACGAGTAAAACG+TGG + Chr6:85544204-85544223 MsG0680034316.01.T01:CDS 30.0%
!! GATTTTAATGAGGTTGTTAG+AGG + Chr6:85544168-85544187 MsG0680034316.01.T01:CDS 30.0%
!!! TCCATTAGCTTTTACTGAAA+CGG + Chr6:85544011-85544030 MsG0680034316.01.T01:CDS 30.0%
ACCGTTTCAGTAAAAGCTAA+TGG - Chr6:85544015-85544034 None:intergenic 35.0%
AGAGAAAAGGTAAGCAATGT+TGG - Chr6:85543967-85543986 None:intergenic 35.0%
AGCTAATGGAAAGTAGGTAA+AGG - Chr6:85544001-85544020 None:intergenic 35.0%
ATTGCACCACTTATGTCTAA+AGG + Chr6:85544081-85544100 MsG0680034316.01.T01:CDS 35.0%
GAAACGGTTGAAGACATAAA+TGG + Chr6:85544027-85544046 MsG0680034316.01.T01:CDS 35.0%
GAAAGTAGGTAAAGGAAAAG+AGG - Chr6:85543993-85544012 None:intergenic 35.0%
! GCAATATAGTATTTGCTACC+AGG - Chr6:85544066-85544085 None:intergenic 35.0%
! GTATTTGCTACCAGGAAATA+CGG - Chr6:85544058-85544077 None:intergenic 35.0%
! TATTTGCTACCAGGAAATAC+GGG - Chr6:85544057-85544076 None:intergenic 35.0%
AGTAGGTAAAGGAAAAGAGG+AGG - Chr6:85543990-85544009 None:intergenic 40.0%
AGTGTGCTGAATCTTCCAAA+TGG + Chr6:85544276-85544295 MsG0680034316.01.T01:CDS 40.0%
GTGTGCTGAATCTTCCAAAT+GGG + Chr6:85544277-85544296 MsG0680034316.01.T01:CDS 40.0%
TTGGAAGATTCAGCACACTT+TGG - Chr6:85544275-85544294 None:intergenic 40.0%
! ATTTGCTACCAGGAAATACG+GGG - Chr6:85544056-85544075 None:intergenic 40.0%
AATGGAAACCCCGTATTTCC+TGG + Chr6:85544045-85544064 MsG0680034316.01.T01:CDS 45.0%
CCACTTATGTCTAAAGGAGG+AGG + Chr6:85544087-85544106 MsG0680034316.01.T01:CDS 45.0%
CCTCCTCCTTTAGACATAAG+TGG - Chr6:85544090-85544109 None:intergenic 45.0%
CTTATGTCTAAAGGAGGAGG+TGG + Chr6:85544090-85544109 MsG0680034316.01.T01:CDS 45.0%
GCACCACTTATGTCTAAAGG+AGG + Chr6:85544084-85544103 MsG0680034316.01.T01:CDS 45.0%
GGAAAAGAGGAGGAGAGAAA+AGG - Chr6:85543980-85543999 None:intergenic 45.0%
GGATTGAAGCTTGGTAAGAC+AGG + Chr6:85544114-85544133 MsG0680034316.01.T01:CDS 45.0%
ATGTCTAAAGGAGGAGGTGG+TGG + Chr6:85544093-85544112 MsG0680034316.01.T01:CDS 50.0%
!! GGAGGTGGTGGATTGAAGCT+TGG + Chr6:85544105-85544124 MsG0680034316.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 85543958 85544305 85543958 ID=MsG0680034316.01;Name=MsG0680034316.01
Chr6 mRNA 85543958 85544305 85543958 ID=MsG0680034316.01.T01;Parent=MsG0680034316.01;Name=MsG0680034316.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|115
Chr6 exon 85543958 85544305 85543958 ID=MsG0680034316.01.T01:exon:18044;Parent=MsG0680034316.01.T01
Chr6 CDS 85543958 85544305 85543958 ID=MsG0680034316.01.T01:cds;Parent=MsG0680034316.01.T01
Chr6 mRNA 85544093 85544305 85544093 ID=MsG0680034316.01.T02;Parent=MsG0680034316.01;Name=MsG0680034316.01.T02;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|0|1|0|70
Chr6 exon 85544093 85544305 85544093 ID=MsG0680034316.01.T02:exon:18045;Parent=MsG0680034316.01.T02
Chr6 CDS 85544093 85544305 85544093 ID=MsG0680034316.01.T02:cds;Parent=MsG0680034316.01.T02
Gene Sequence

>MsG0680034316.01.T02

ATGTCTAAAGGAGGAGGTGGTGGATTGAAGCTTGGTAAGACAGGAAACTCAGAATGTCCAGTTACTGTTCTACAAGATTTTAATGAGGTTGTTAGAGGCTTGCCAGTTAGATTTATCATACGAGTAAAACGTGGTGTTATCTTTACAACTGACGAAGTAGATATTGAGTTTGTTAAGAACCAAAGTGTGCTGAATCTTCCAAATGGGTGCTAG

>MsG0680034316.01.T01

ATGAAGCCAACATTGCTTACCTTTTCTCTCCTCCTCTTTTCCTTTACCTACTTTCCATTAGCTTTTACTGAAACGGTTGAAGACATAAATGGAAACCCCGTATTTCCTGGTAGCAAATACTATATTGCACCACTTATGTCTAAAGGAGGAGGTGGTGGATTGAAGCTTGGTAAGACAGGAAACTCAGAATGTCCAGTTACTGTTCTACAAGATTTTAATGAGGTTGTTAGAGGCTTGCCAGTTAGATTTATCATACGAGTAAAACGTGGTGTTATCTTTACAACTGACGAAGTAGATATTGAGTTTGTTAAGAACCAAAGTGTGCTGAATCTTCCAAATGGGTGCTAG

Protein sequence

>MsG0680034316.01.T02

MSKGGGGGLKLGKTGNSECPVTVLQDFNEVVRGLPVRFIIRVKRGVIFTTDEVDIEFVKNQSVLNLPNGC*

>MsG0680034316.01.T01

MKPTLLTFSLLLFSFTYFPLAFTETVEDINGNPVFPGSKYYIAPLMSKGGGGGLKLGKTGNSECPVTVLQDFNEVVRGLPVRFIIRVKRGVIFTTDEVDIEFVKNQSVLNLPNGC*