AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480019923.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019923.01.T01 MTR_2g059890 85.496 131 1 1 1 113 7 137 5.11e-77 223
MsG0480019923.01.T01 MTR_2g017630 77.099 131 12 1 1 113 7 137 1.63e-69 204
MsG0480019923.01.T01 MTR_2g059890 88.172 93 6 2 1 92 7 95 6.91e-52 159
MsG0480019923.01.T01 MTR_2g059890 88.172 93 6 2 1 92 7 95 1.74e-51 158
MsG0480019923.01.T01 MTR_2g059890 88.172 93 6 2 1 92 7 95 4.67e-51 159
MsG0480019923.01.T01 MTR_8g075420 48.673 113 37 3 3 95 12 123 1.21e-27 98.6
MsG0480019923.01.T01 MTR_5g022390 49.541 109 34 3 4 92 30 137 2.85e-26 95.5
MsG0480019923.01.T01 MTR_8g075420 56.410 78 31 2 3 78 12 88 2.73e-23 86.7
MsG0480019923.01.T01 MTR_5g022390 54.762 84 33 3 4 85 30 110 1.35e-20 80.5
MsG0480019923.01.T01 MTR_5g023170 37.895 95 41 1 19 95 87 181 1.78e-18 76.6
MsG0480019923.01.T01 MTR_5g023170 50.000 58 29 0 19 76 87 144 1.86e-15 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480019923.01.T01 AT2G21045 55.385 130 38 3 2 113 39 166 2.56e-45 144
MsG0480019923.01.T01 AT2G17850 45.536 112 40 3 4 95 32 142 2.61e-24 90.9
MsG0480019923.01.T01 AT5G66170 40.351 114 47 3 2 95 12 124 2.83e-23 87.8
MsG0480019923.01.T01 AT5G66170 39.655 116 47 3 2 95 12 126 6.03e-23 87.0
MsG0480019923.01.T01 AT2G17850 53.247 77 33 2 4 78 32 107 3.51e-20 79.7
MsG0480019923.01.T01 AT4G35770 36.449 107 45 2 16 104 81 182 2.66e-18 76.3
MsG0480019923.01.T01 AT5G66170 44.304 79 41 2 2 78 12 89 4.00e-18 74.7
MsG0480019923.01.T01 AT2G17850 35.417 144 40 4 4 95 32 174 1.35e-17 74.3
MsG0480019923.01.T01 AT5G66040 37.037 108 49 2 6 95 10 116 8.92e-17 70.5
MsG0480019923.01.T01 AT4G35770 47.541 61 32 0 16 76 81 141 1.20e-15 68.9
MsG0480019923.01.T01 AT4G35770 47.541 61 32 0 16 76 81 141 1.63e-15 68.9
MsG0480019923.01.T01 AT4G35770 46.667 60 32 0 16 75 81 140 1.51e-14 65.9

Find 24 sgRNAs with CRISPR-Local

Find 101 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTACTTGGTTAACAAAATT+TGG 0.077440 4:+29806796 None:intergenic
TTCTTCTGTGCTGAACAAAT+AGG 0.299247 4:+29807074 None:intergenic
TCTTCTGTGCTGAACAAATA+GGG 0.319017 4:+29807075 None:intergenic
TGGGTGGATGCTGGATTTGC+AGG 0.391447 4:-29805442 MsG0480019923.01.T01:CDS
AGATGAATCTAGCAGATCTT+TGG 0.407928 4:+29807266 None:intergenic
GGGAGGCTACTCTGCGTGGG+TGG 0.422325 4:-29805458 MsG0480019923.01.T01:CDS
TTTGGTAGCATGGACATCTA+AGG 0.431769 4:+29807284 None:intergenic
TCTTATATATTGCTTCTACT+TGG 0.436133 4:+29806782 None:intergenic
TACTCTGCGTGGGTGGATGC+TGG 0.443842 4:-29805451 MsG0480019923.01.T01:CDS
AAAGATCTGCTAGATTCATC+TGG 0.488656 4:-29807264 MsG0480019923.01.T01:CDS
TATTTGTTCAGCACAGAAGA+AGG 0.505003 4:-29807072 MsG0480019923.01.T01:intron
CGTTAATAGCATTCTCAACA+TGG 0.507094 4:+29807100 None:intergenic
ATTTAAACATATTGTTAACA+TGG 0.515720 4:-29805482 MsG0480019923.01.T01:CDS
CTAGCAGATCTTTGGTAGCA+TGG 0.528750 4:+29807274 None:intergenic
TTTAAACATATTGTTAACAT+GGG 0.557076 4:-29805481 MsG0480019923.01.T01:CDS
AAACATATTGTTAACATGGG+GGG 0.595696 4:-29805478 MsG0480019923.01.T01:CDS
AGAAGCAATATATAAGAGTG+AGG 0.598950 4:-29806776 MsG0480019923.01.T01:CDS
CTTCTGTGCTGAACAAATAG+GGG 0.608024 4:+29807076 None:intergenic
GTTACAATTATCTTGATGTG+AGG 0.616591 4:-29807242 MsG0480019923.01.T01:intron
GAGTGAGGATCACTTAATTG+TGG 0.617072 4:-29806761 MsG0480019923.01.T01:intron
TTAAACATATTGTTAACATG+GGG 0.636631 4:-29805480 MsG0480019923.01.T01:CDS
TAAACATATTGTTAACATGG+GGG 0.658767 4:-29805479 MsG0480019923.01.T01:CDS
CCAATGAAATAGGACTGTGG+AGG 0.697727 4:-29807136 MsG0480019923.01.T01:intron
TGTCCAATGAAATAGGACTG+TGG 0.713009 4:-29807139 MsG0480019923.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAATAAATAAAATTAGT+AGG - Chr4:29806669-29806688 MsG0480019923.01.T01:intron 10.0%
!! CAATTATCTTAATATAATTT+AGG - Chr4:29806196-29806215 MsG0480019923.01.T01:intron 10.0%
!! TAATTTACCTAAAATAAATT+AGG - Chr4:29806169-29806188 MsG0480019923.01.T01:intron 10.0%
!!! ATTGTTTTTTTATATTAAAG+AGG - Chr4:29807076-29807095 MsG0480019923.01.T01:CDS 10.0%
!! AAAAAAAAAAATGAAACTAC+CGG + Chr4:29806223-29806242 None:intergenic 15.0%
!! AAAATTAAAATGAAGAAACT+GGG + Chr4:29805488-29805507 None:intergenic 15.0%
!! AAGTAATTAATTATTACTGA+TGG + Chr4:29806714-29806733 None:intergenic 15.0%
!! AGTAATTAATTATTACTGAT+GGG + Chr4:29806713-29806732 None:intergenic 15.0%
!! ATTTAAACATATTGTTAACA+TGG - Chr4:29807208-29807227 MsG0480019923.01.T01:intron 15.0%
!! CTCTAAATAAAAAAACTATT+AGG - Chr4:29806347-29806366 MsG0480019923.01.T01:intron 15.0%
!! TTTAAACATATTGTTAACAT+GGG - Chr4:29807209-29807228 MsG0480019923.01.T01:intron 15.0%
!!! AAATAATTTTGAATGCTTAA+TGG + Chr4:29807147-29807166 None:intergenic 15.0%
!!! ATTCATTTATTTTAAACCAA+TGG + Chr4:29806624-29806643 None:intergenic 15.0%
!!! TTGAAATCCTAATTTATTTT+AGG + Chr4:29806179-29806198 None:intergenic 15.0%
!!! TTTTTTCTTCAAATGATTAA+GGG + Chr4:29806553-29806572 None:intergenic 15.0%
!!! TTTTTTTCTTCAAATGATTA+AGG + Chr4:29806554-29806573 None:intergenic 15.0%
!! AAAAAAAAAATGAAACTACC+GGG + Chr4:29806222-29806241 None:intergenic 20.0%
!! ATAATCAAATTGAGAATTTG+AGG + Chr4:29806133-29806152 None:intergenic 20.0%
!! CTTTAATATATGATATGATG+TGG - Chr4:29807169-29807188 MsG0480019923.01.T01:intron 20.0%
!! GAAAATTAAAATGAAGAAAC+TGG + Chr4:29805489-29805508 None:intergenic 20.0%
!! TATTGTTATGTTTATTGCTA+AGG - Chr4:29806587-29806606 MsG0480019923.01.T01:intron 20.0%
!! TTAAACATATTGTTAACATG+GGG - Chr4:29807210-29807229 MsG0480019923.01.T01:intron 20.0%
! AAAAACAATATGCACAATCA+GGG - Chr4:29805988-29806007 MsG0480019923.01.T01:intron 25.0%
! AGTTATTGACAAATGATTAG+TGG + Chr4:29807040-29807059 None:intergenic 25.0%
! ATATAAGGGATTACAAATTC+AGG - Chr4:29806041-29806060 MsG0480019923.01.T01:intron 25.0%
! ATCTTAATATAATTTAGGCC+CGG - Chr4:29806201-29806220 MsG0480019923.01.T01:intron 25.0%
! CAAAAGAAAGATAAAGACTT+TGG + Chr4:29805533-29805552 None:intergenic 25.0%
! CACAATTCAAATTTCATCAT+AGG - Chr4:29806851-29806870 MsG0480019923.01.T01:intron 25.0%
! GAATTGGAGATGATAATAAA+TGG - Chr4:29806775-29806794 MsG0480019923.01.T01:CDS 25.0%
! GTTATTGACAAATGATTAGT+GGG + Chr4:29807039-29807058 None:intergenic 25.0%
! TAAAAACAATATGCACAATC+AGG - Chr4:29805987-29806006 MsG0480019923.01.T01:intron 25.0%
! TAAACATATTGTTAACATGG+GGG - Chr4:29807211-29807230 MsG0480019923.01.T01:intron 25.0%
! TCTACTTGGTTAACAAAATT+TGG + Chr4:29805897-29805916 None:intergenic 25.0%
! TCTTATATATTGCTTCTACT+TGG + Chr4:29805911-29805930 None:intergenic 25.0%
!! AATTTTGAATGCTTAATGGA+TGG + Chr4:29807143-29807162 None:intergenic 25.0%
!! TTTCTTTTGTCCAATGAAAT+AGG - Chr4:29805544-29805563 MsG0480019923.01.T01:intron 25.0%
AAACATATTGTTAACATGGG+GGG - Chr4:29807212-29807231 MsG0480019923.01.T01:intron 30.0%
AAGAAATTTAGGCATGCTAA+AGG + Chr4:29807008-29807027 None:intergenic 30.0%
AGAAATTTAGGCATGCTAAA+GGG + Chr4:29807007-29807026 None:intergenic 30.0%
AGAAGCAATATATAAGAGTG+AGG - Chr4:29805914-29805933 MsG0480019923.01.T01:intron 30.0%
AGACACTGATGTATGATATA+AGG - Chr4:29806026-29806045 MsG0480019923.01.T01:intron 30.0%
ATCTCTCCAAATGAAAGAAT+TGG - Chr4:29806759-29806778 MsG0480019923.01.T01:intron 30.0%
GACACTGATGTATGATATAA+GGG - Chr4:29806027-29806046 MsG0480019923.01.T01:intron 30.0%
GTTACAATTATCTTGATGTG+AGG - Chr4:29805448-29805467 MsG0480019923.01.T01:CDS 30.0%
TCATCTCCAATTCTTTCATT+TGG + Chr4:29806768-29806787 None:intergenic 30.0%
TGATGTGAGGTAATTAACAA+AGG - Chr4:29805461-29805480 MsG0480019923.01.T01:CDS 30.0%
TTGTGTATGTTGAAGTTACA+TGG + Chr4:29806836-29806855 None:intergenic 30.0%
! AATCCATTTTGTGTACGTAA+TGG - Chr4:29806913-29806932 MsG0480019923.01.T01:intron 30.0%
! AATTCTGATTGAGCATCTTT+TGG + Chr4:29805782-29805801 None:intergenic 30.0%
! ATCCATTTTGTGTACGTAAT+GGG - Chr4:29806914-29806933 MsG0480019923.01.T01:intron 30.0%
! TCAAATTGAGAATTTGAGGT+TGG + Chr4:29806129-29806148 None:intergenic 30.0%
AAAGATCTGCTAGATTCATC+TGG - Chr4:29805426-29805445 MsG0480019923.01.T01:CDS 35.0%
AGATGAATCTAGCAGATCTT+TGG + Chr4:29805427-29805446 None:intergenic 35.0%
AGATTCAATTTCTGCTCCTA+TGG - Chr4:29805670-29805689 MsG0480019923.01.T01:intron 35.0%
CGTTAATAGCATTCTCAACA+TGG + Chr4:29805593-29805612 None:intergenic 35.0%
GATGGGACTTACTTAATGAT+AGG + Chr4:29806696-29806715 None:intergenic 35.0%
GATTCAATTTCTGCTCCTAT+GGG - Chr4:29805671-29805690 MsG0480019923.01.T01:intron 35.0%
GGTCATAGACTTACGAATTA+TGG + Chr4:29806108-29806127 None:intergenic 35.0%
TAAGGAAGATCATTCTCCAT+TGG - Chr4:29806605-29806624 MsG0480019923.01.T01:intron 35.0%
TATTTGTTCAGCACAGAAGA+AGG - Chr4:29805618-29805637 MsG0480019923.01.T01:intron 35.0%
TCTTCTGTGCTGAACAAATA+GGG + Chr4:29805618-29805637 None:intergenic 35.0%
TTCTTCTGTGCTGAACAAAT+AGG + Chr4:29805619-29805638 None:intergenic 35.0%
! CAAAATGGATTTCTCTATCG+TGG + Chr4:29806904-29806923 None:intergenic 35.0%
! TCTATCGTGGATGCTTTTAA+TGG + Chr4:29806891-29806910 None:intergenic 35.0%
! TTGAATGCTTAATGGATGGA+GGG + Chr4:29807139-29807158 None:intergenic 35.0%
! TTTGAATGCTTAATGGATGG+AGG + Chr4:29807140-29807159 None:intergenic 35.0%
!! ACAAATTCAGGTTGTAATGC+TGG - Chr4:29806053-29806072 MsG0480019923.01.T01:intron 35.0%
AACCTTTATCGCTAGCTAAG+TGG - Chr4:29806803-29806822 MsG0480019923.01.T01:CDS 40.0%
ATGTGCTACAACTGATCAAC+AGG - Chr4:29805858-29805877 MsG0480019923.01.T01:intron 40.0%
CAGCACAGAAGAAGGTAATA+TGG - Chr4:29805626-29805645 MsG0480019923.01.T01:intron 40.0%
CTTAGCTAGCGATAAAGGTT+AGG + Chr4:29806803-29806822 None:intergenic 40.0%
CTTCTGTGCTGAACAAATAG+GGG + Chr4:29805617-29805636 None:intergenic 40.0%
GACCCATTACGTACACAAAA+TGG + Chr4:29806919-29806938 None:intergenic 40.0%
GAGTGAGGATCACTTAATTG+TGG - Chr4:29805929-29805948 MsG0480019923.01.T01:intron 40.0%
GATGTGGTAATTAACGAGCA+GGG - Chr4:29807185-29807204 MsG0480019923.01.T01:intron 40.0%
GGGTCTCGGTTAAGAAATTT+AGG + Chr4:29807019-29807038 None:intergenic 40.0%
TACCACTTAGCTAGCGATAA+AGG + Chr4:29806808-29806827 None:intergenic 40.0%
TGATGTGGTAATTAACGAGC+AGG - Chr4:29807184-29807203 MsG0480019923.01.T01:intron 40.0%
TGTCCAATGAAATAGGACTG+TGG - Chr4:29805551-29805570 MsG0480019923.01.T01:intron 40.0%
! GACAAATGATTAGTGGGTCT+CGG + Chr4:29807033-29807052 None:intergenic 40.0%
! TTTGGTAGCATGGACATCTA+AGG + Chr4:29805409-29805428 None:intergenic 40.0%
!! AATTCAGGTTGTAATGCTGG+AGG - Chr4:29806056-29806075 MsG0480019923.01.T01:intron 40.0%
!!! CTTGTTTTAAGCTCTTCTGC+AGG + Chr4:29807284-29807303 None:intergenic 40.0%
ATTTCTGCTCCTATGGGTAG+AGG - Chr4:29805677-29805696 MsG0480019923.01.T01:intron 45.0%
CATATTGTTAACATGGGGGG+AGG - Chr4:29807215-29807234 MsG0480019923.01.T01:intron 45.0%
CCAATGAAATAGGACTGTGG+AGG - Chr4:29805554-29805573 MsG0480019923.01.T01:intron 45.0%
CCTCCACAGTCCTATTTCAT+TGG + Chr4:29805557-29805576 None:intergenic 45.0%
CTACAACTGATCAACAGGAC+GGG - Chr4:29805863-29805882 MsG0480019923.01.T01:intron 45.0%
GCTACAACTGATCAACAGGA+CGG - Chr4:29805862-29805881 MsG0480019923.01.T01:intron 45.0%
TTGTTGCTACCTCTACCCAT+AGG + Chr4:29805689-29805708 None:intergenic 45.0%
! CTAGCAGATCTTTGGTAGCA+TGG + Chr4:29805419-29805438 None:intergenic 45.0%
! TTAAAGAGGCGTAAGACGCA+CGG - Chr4:29807090-29807109 MsG0480019923.01.T01:CDS 45.0%
!! TGTGTACGTAATGGGTCTCA+TGG - Chr4:29806922-29806941 MsG0480019923.01.T01:intron 45.0%
!!! ATTTATTTTTTATAGTAAAA+AGG - Chr4:29806431-29806450 MsG0480019923.01.T01:intron 5.0%
GAGGAAGATCAAGTCGAGCT+GGG - Chr4:29806075-29806094 MsG0480019923.01.T01:intron 50.0%
GGAGGAAGATCAAGTCGAGC+TGG - Chr4:29806074-29806093 MsG0480019923.01.T01:intron 55.0%
TGGGTGGATGCTGGATTTGC+AGG - Chr4:29807248-29807267 MsG0480019923.01.T01:CDS 55.0%
TACTCTGCGTGGGTGGATGC+TGG - Chr4:29807239-29807258 MsG0480019923.01.T01:intron 60.0%
GGGAGGCTACTCTGCGTGGG+TGG - Chr4:29807232-29807251 MsG0480019923.01.T01:intron 70.0%
GGGGGGAGGCTACTCTGCGT+GGG - Chr4:29807229-29807248 MsG0480019923.01.T01:intron 70.0%
TGGGGGGAGGCTACTCTGCG+TGG - Chr4:29807228-29807247 MsG0480019923.01.T01:intron 70.0%
Chromosome Type Strat End Strand Name
Chr4 gene 29805390 29807322 29805390 ID=MsG0480019923.01;Name=MsG0480019923.01
Chr4 mRNA 29805390 29807322 29805390 ID=MsG0480019923.01.T01;Parent=MsG0480019923.01;Name=MsG0480019923.01.T01;_AED=0.49;_eAED=0.50;_QI=0|0|0|1|1|0.75|4|0|113
Chr4 exon 29807243 29807322 29807243 ID=MsG0480019923.01.T01:exon:9752;Parent=MsG0480019923.01.T01
Chr4 exon 29807073 29807146 29807073 ID=MsG0480019923.01.T01:exon:9751;Parent=MsG0480019923.01.T01
Chr4 exon 29806762 29806832 29806762 ID=MsG0480019923.01.T01:exon:9750;Parent=MsG0480019923.01.T01
Chr4 exon 29805390 29805506 29805390 ID=MsG0480019923.01.T01:exon:9749;Parent=MsG0480019923.01.T01
Chr4 CDS 29807243 29807322 29807243 ID=MsG0480019923.01.T01:cds;Parent=MsG0480019923.01.T01
Chr4 CDS 29807073 29807146 29807073 ID=MsG0480019923.01.T01:cds;Parent=MsG0480019923.01.T01
Chr4 CDS 29806762 29806832 29806762 ID=MsG0480019923.01.T01:cds;Parent=MsG0480019923.01.T01
Chr4 CDS 29805390 29805506 29805390 ID=MsG0480019923.01.T01:cds;Parent=MsG0480019923.01.T01
Gene Sequence

>MsG0480019923.01.T01

CATCAAGATGTTGTTACCTTAGATGTCCATGCTACCAAAGATCTGCTAGATTCATCTGGTTACAATTATCTTGATGTGAGGACTGTGGAGGAATTCAATAAAAGCCATGTTGAGAATGCTATTAACGTCCCCTATTTGTTCAGCACAGAAGAAGGACGGGTGAAAAATCCAAATTTTGTTAACCAAGTAGAAGCAATATATAAGAGTGAGGATCACTTAATTGTGGGATTTAAACATATTGTTAACATGGGGGGAGGCTACTCTGCGTGGGTGGATGCTGGATTTGCAGGTGATGACAAGCCTGCAGAAGAGCTTAAAACAAGTTGCAAGTTTCGTCCATGA

Protein sequence

>MsG0480019923.01.T01

HQDVVTLDVHATKDLLDSSGYNYLDVRTVEEFNKSHVENAINVPYLFSTEEGRVKNPNFVNQVEAIYKSEDHLIVGFKHIVNMGGGYSAWVDAGFAGDDKPAEELKTSCKFRP*