AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010491.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010491.01.T01 MTR_2g085025 96.774 155 5 0 1 155 1 155 1.60e-106 301
MsG0280010491.01.T01 MTR_7g104020 65.909 132 43 1 20 151 14 143 2.40e-48 154
MsG0280010491.01.T01 MTR_7g104020 64.444 135 43 2 20 151 14 146 2.96e-46 149
MsG0280010491.01.T01 MTR_1g492930 54.286 140 63 1 17 155 1 140 8.12e-41 134
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010491.01.T01 AT2G27740 56.774 155 66 1 1 155 1 154 2.96e-57 177
MsG0280010491.01.T01 AT2G36410 67.544 114 37 0 38 151 57 170 3.99e-51 162
MsG0280010491.01.T01 AT2G36410 67.544 114 37 0 38 151 57 170 4.82e-51 162
MsG0280010491.01.T01 AT3G52920 69.298 114 35 0 38 151 28 141 1.61e-50 160
MsG0280010491.01.T01 AT3G52920 69.298 114 35 0 38 151 28 141 1.79e-50 160
MsG0280010491.01.T01 AT3G09980 68.595 121 38 0 31 151 35 155 9.64e-46 147
MsG0280010491.01.T01 AT2G27740 53.659 123 56 1 1 123 1 122 8.37e-42 136
MsG0280010491.01.T01 AT5G03660 65.517 116 40 0 38 153 36 151 1.68e-40 134
MsG0280010491.01.T01 AT5G03660 63.559 118 43 0 38 155 36 153 1.15e-39 132
MsG0280010491.01.T01 AT3G52900 50.376 133 66 0 23 155 13 145 8.71e-39 129
MsG0280010491.01.T01 AT2G36410 66.279 86 29 0 38 123 57 142 1.55e-35 121
MsG0280010491.01.T01 AT2G36355 49.265 136 63 2 22 155 5 136 7.82e-35 119
MsG0280010491.01.T01 AT2G36355 44.144 111 55 3 22 130 5 110 2.63e-22 86.7
MsG0280010491.01.T01 AT5G03660 49.153 118 38 1 38 155 36 131 6.04e-22 86.3
MsG0280010491.01.T01 AT2G36355 61.538 65 25 0 91 155 1 65 4.51e-21 82.0
MsG0280010491.01.T01 AT2G36355 60.294 68 27 0 88 155 27 94 4.92e-21 82.8

Find 25 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACTTCTAACCTCCACTAATT+TGG 0.202427 2:+70476439 None:intergenic
AGAAATTGAGAGAAGAAAAT+TGG 0.229998 2:-70477800 MsG0280010491.01.T01:CDS
ATTGCAACATCCTTCCTCTT+TGG 0.283049 2:+70477129 None:intergenic
TTTCATCTCTTCTTGGACTC+TGG 0.297684 2:+70477875 None:intergenic
GGGTCAAACCTGCCAGAAAA+AGG 0.317850 2:-70477061 MsG0280010491.01.T01:intron
GTGCAACATGTGAAGAATTC+AGG 0.351410 2:-70477913 MsG0280010491.01.T01:CDS
TCTAGCAATGTTTAGAGAAA+AGG 0.359449 2:-70477827 MsG0280010491.01.T01:CDS
TTCTGGCAGGTTTGACCCAA+TGG 0.366095 2:+70477066 None:intergenic
AAAATTGGAGGTTAGAGATA+AGG 0.419428 2:-70477785 MsG0280010491.01.T01:CDS
GAGTCCAAGAAGAGATGAAA+AGG 0.433573 2:-70477872 MsG0280010491.01.T01:CDS
TAACAAAGAGTTAAAGCCAT+TGG 0.438266 2:-70477082 MsG0280010491.01.T01:CDS
AACAAAGAGTTAAAGCCATT+GGG 0.451012 2:-70477081 MsG0280010491.01.T01:CDS
AGAAATTGCATAGGAGATTG+AGG 0.462032 2:-70477163 MsG0280010491.01.T01:intron
TCAACTTGTTACCAAATTAG+TGG 0.474598 2:-70476450 MsG0280010491.01.T01:CDS
GAAATTGCATAGGAGATTGA+GGG 0.490039 2:-70477162 MsG0280010491.01.T01:intron
GATAAGGTTCATGCTCATCT+TGG 0.506717 2:-70477769 MsG0280010491.01.T01:CDS
TCATCTTGGTCGAGTCGAAA+AGG 0.517837 2:-70477755 MsG0280010491.01.T01:CDS
AAGAAGAGATGAAAAGGAAG+AGG 0.527146 2:-70477866 MsG0280010491.01.T01:CDS
AATTGAGAGAAGAAAATTGG+AGG 0.531288 2:-70477797 MsG0280010491.01.T01:CDS
CGAAAAGGAAACAAAGCGAT+TGG 0.535815 2:-70477740 MsG0280010491.01.T01:CDS
AGAATACAATGAAGCTCTTG+AGG 0.569694 2:-70476501 MsG0280010491.01.T01:CDS
TTTCACAGATCCAAAGAGGA+AGG 0.618763 2:-70477139 MsG0280010491.01.T01:CDS
AGGGTTTCACAGATCCAAAG+AGG 0.622777 2:-70477143 MsG0280010491.01.T01:CDS
ACTTGTTACCAAATTAGTGG+AGG 0.627774 2:-70476447 MsG0280010491.01.T01:CDS
AGTTAGAAAGAAGATAGACA+TGG 0.715757 2:-70477106 MsG0280010491.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATTTTTTAAAAACAATGTA+CGG + Chr2:70477779-70477798 None:intergenic 10.0%
!! ATATGTTTATTTAGTTGTTT+AGG - Chr2:70477565-70477584 MsG0280010491.01.T01:intron 15.0%
!! CAAACAAAGATTATTTATAA+TGG + Chr2:70477202-70477221 None:intergenic 15.0%
!! GAAATTAAAGCAAATAATTA+AGG + Chr2:70477501-70477520 None:intergenic 15.0%
!! TTATAATATCTTTACAACAT+AGG - Chr2:70477394-70477413 MsG0280010491.01.T01:intron 15.0%
!! TTTAATATTGTAGAAAATCA+CGG - Chr2:70476885-70476904 MsG0280010491.01.T01:intron 15.0%
!!! AATTATTTGCTTTAATTTCT+TGG - Chr2:70477502-70477521 MsG0280010491.01.T01:intron 15.0%
!!! TTGTGAAACTATATATTTTT+GGG - Chr2:70477849-70477868 MsG0280010491.01.T01:CDS 15.0%
!! ATTAAAGCAAATAATTAAGG+TGG + Chr2:70477498-70477517 None:intergenic 20.0%
!!! CTTGTGAAACTATATATTTT+TGG - Chr2:70477848-70477867 MsG0280010491.01.T01:CDS 20.0%
!!! CTTTTGATGACATAATATAT+GGG + Chr2:70477529-70477548 None:intergenic 20.0%
!!! TGTGAAACTATATATTTTTG+GGG - Chr2:70477850-70477869 MsG0280010491.01.T01:CDS 20.0%
!!! TTCATTTGTTTGGTTTTTAT+TGG - Chr2:70476792-70476811 MsG0280010491.01.T01:intron 20.0%
!!! TTGTTTGTTTGGTTTTTTAT+TGG - Chr2:70476735-70476754 MsG0280010491.01.T01:intron 20.0%
! ACAATATAACGTTGAAATCA+CGG - Chr2:70476958-70476977 MsG0280010491.01.T01:intron 25.0%
! AGAAATTGAGAGAAGAAAAT+TGG - Chr2:70476585-70476604 MsG0280010491.01.T01:intron 25.0%
! ATATCAAAAGCAAAACACAT+TGG + Chr2:70477445-70477464 None:intergenic 25.0%
! ATGATGTTTCATTGTTTGTT+TGG - Chr2:70476724-70476743 MsG0280010491.01.T01:intron 25.0%
! ATTTCAACGTTATATTGTCA+CGG + Chr2:70476956-70476975 None:intergenic 25.0%
! CAATGAGAAAAACAAAGAAA+AGG - Chr2:70477911-70477930 MsG0280010491.01.T01:CDS 25.0%
! CCATATATTATGTCATCAAA+AGG - Chr2:70477527-70477546 MsG0280010491.01.T01:intron 25.0%
! TAAAACTAAAGCTTAATTCC+TGG + Chr2:70477022-70477041 None:intergenic 25.0%
! TATATTATGTCATCAAAAGG+AGG - Chr2:70477530-70477549 MsG0280010491.01.T01:intron 25.0%
! TATCAAAAGCAAAACACATT+GGG + Chr2:70477444-70477463 None:intergenic 25.0%
! TGTGCAAAGTTTCAAAATAA+TGG - Chr2:70476835-70476854 MsG0280010491.01.T01:intron 25.0%
! TGTTCAAAGTTTCATTTGTT+TGG - Chr2:70476782-70476801 MsG0280010491.01.T01:intron 25.0%
! TTACATTTGATCTATAGTCA+AGG - Chr2:70477039-70477058 MsG0280010491.01.T01:intron 25.0%
!!! CCTTTTGATGACATAATATA+TGG + Chr2:70477530-70477549 None:intergenic 25.0%
AAAATTGGAGGTTAGAGATA+AGG - Chr2:70476600-70476619 MsG0280010491.01.T01:intron 30.0%
AACAAAGAGTTAAAGCCATT+GGG - Chr2:70477304-70477323 MsG0280010491.01.T01:intron 30.0%
AACAGTTAGTACTAAACAGT+TGG + Chr2:70477359-70477378 None:intergenic 30.0%
AAGTTTCAAAATAATGGTCG+CGG - Chr2:70476841-70476860 MsG0280010491.01.T01:intron 30.0%
AATTGAGAGAAGAAAATTGG+AGG - Chr2:70476588-70476607 MsG0280010491.01.T01:intron 30.0%
AATTTGAATTCCGTCTGTTT+CGG + Chr2:70477702-70477721 None:intergenic 30.0%
AGTTAGAAAGAAGATAGACA+TGG - Chr2:70477279-70477298 MsG0280010491.01.T01:intron 30.0%
CAAATTCAGTGTTTGTTTAC+TGG + Chr2:70476691-70476710 None:intergenic 30.0%
CAATATTAAAGATTACTGCG+TGG + Chr2:70476875-70476894 None:intergenic 30.0%
TAACAAAGAGTTAAAGCCAT+TGG - Chr2:70477303-70477322 MsG0280010491.01.T01:intron 30.0%
TCTAGCAATGTTTAGAGAAA+AGG - Chr2:70476558-70476577 MsG0280010491.01.T01:intron 30.0%
TTAAAAACAATGTACGGAAG+AGG + Chr2:70477773-70477792 None:intergenic 30.0%
! CTTTGTTTGAGAAATTGCAT+AGG - Chr2:70477213-70477232 MsG0280010491.01.T01:intron 30.0%
! TACAACATAGGATTTGTTCA+AGG - Chr2:70477406-70477425 MsG0280010491.01.T01:intron 30.0%
! TGCTGATCATATGATCTTTT+TGG + Chr2:70476436-70476455 None:intergenic 30.0%
! TGGAAAATCTAACCTTTTTC+TGG + Chr2:70477339-70477358 None:intergenic 30.0%
!! TCAACTTGTTACCAAATTAG+TGG - Chr2:70477935-70477954 MsG0280010491.01.T01:CDS 30.0%
!!! CTATATATTTTTGGGGTTAC+AGG - Chr2:70477857-70477876 MsG0280010491.01.T01:CDS 30.0%
!!! CTGGTCAAGGTTTTAAAAAA+CGG + Chr2:70477003-70477022 None:intergenic 30.0%
AAGAAGAGATGAAAAGGAAG+AGG - Chr2:70476519-70476538 MsG0280010491.01.T01:intron 35.0%
ACTTCTAACCTCCACTAATT+TGG + Chr2:70477949-70477968 None:intergenic 35.0%
AGAAATTGCATAGGAGATTG+AGG - Chr2:70477222-70477241 MsG0280010491.01.T01:intron 35.0%
AGAATACAATGAAGCTCTTG+AGG - Chr2:70477884-70477903 MsG0280010491.01.T01:CDS 35.0%
AGACTAAAGTCTAAGCAATG+TGG + Chr2:70477470-70477489 None:intergenic 35.0%
CGGAATTCAAATTTCTCAGT+TGG - Chr2:70477709-70477728 MsG0280010491.01.T01:intron 35.0%
GAAATTGCATAGGAGATTGA+GGG - Chr2:70477223-70477242 MsG0280010491.01.T01:intron 35.0%
TAAAGCTTAATTCCTGGTCA+AGG + Chr2:70477016-70477035 None:intergenic 35.0%
TTGTCACGGATATCAAATTG+TGG + Chr2:70476942-70476961 None:intergenic 35.0%
! ACTTGTTACCAAATTAGTGG+AGG - Chr2:70477938-70477957 MsG0280010491.01.T01:CDS 35.0%
! TCTTCCTTTTCATCTCTTCT+TGG + Chr2:70476520-70476539 None:intergenic 35.0%
!! AAATCTAACCTTTTTCTGGC+AGG + Chr2:70477335-70477354 None:intergenic 35.0%
!! AACTAGCTTGTTTCAAACAC+TGG + Chr2:70477092-70477111 None:intergenic 35.0%
!!! CGTTTTTTAAAACCTTGACC+AGG - Chr2:70477001-70477020 MsG0280010491.01.T01:intron 35.0%
ATTGCAACATCCTTCCTCTT+TGG + Chr2:70477259-70477278 None:intergenic 40.0%
CGAAAAGGAAACAAAGCGAT+TGG - Chr2:70476645-70476664 MsG0280010491.01.T01:intron 40.0%
GACTTTGTAACCGAAACAGA+CGG - Chr2:70477689-70477708 MsG0280010491.01.T01:intron 40.0%
GAGTCCAAGAAGAGATGAAA+AGG - Chr2:70476513-70476532 MsG0280010491.01.T01:intron 40.0%
GATAAGGTTCATGCTCATCT+TGG - Chr2:70476616-70476635 MsG0280010491.01.T01:intron 40.0%
GTCAATCTCTTACCACCAAA+CGG + Chr2:70477672-70477691 None:intergenic 40.0%
GTGCAACATGTGAAGAATTC+AGG - Chr2:70476472-70476491 MsG0280010491.01.T01:CDS 40.0%
TCAAATTGTGGTCGCTATTG+CGG + Chr2:70476930-70476949 None:intergenic 40.0%
TTTCACAGATCCAAAGAGGA+AGG - Chr2:70477246-70477265 MsG0280010491.01.T01:intron 40.0%
TTTCATCTCTTCTTGGACTC+TGG + Chr2:70476513-70476532 None:intergenic 40.0%
! AAATAATGGTCGCGGTTTTG+CGG - Chr2:70476849-70476868 MsG0280010491.01.T01:intron 40.0%
AGGGTTTCACAGATCCAAAG+AGG - Chr2:70477242-70477261 MsG0280010491.01.T01:intron 45.0%
ATCTCTTACCACCAAACGGA+AGG + Chr2:70477668-70477687 None:intergenic 45.0%
TCATCTTGGTCGAGTCGAAA+AGG - Chr2:70476630-70476649 MsG0280010491.01.T01:intron 45.0%
TGCTTCTTGTTCCTTCCGTT+TGG - Chr2:70477654-70477673 MsG0280010491.01.T01:intron 45.0%
TTCTTGTTCCTTCCGTTTGG+TGG - Chr2:70477657-70477676 MsG0280010491.01.T01:intron 45.0%
!! AAATAAAATAAAATAAAATG+TGG - Chr2:70477125-70477144 MsG0280010491.01.T01:CDS 5.0%
GGGTCAAACCTGCCAGAAAA+AGG - Chr2:70477324-70477343 MsG0280010491.01.T01:intron 50.0%
TTCTGGCAGGTTTGACCCAA+TGG + Chr2:70477322-70477341 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr2 gene 70476424 70477983 70476424 ID=MsG0280010491.01;Name=MsG0280010491.01
Chr2 mRNA 70476424 70477983 70476424 ID=MsG0280010491.01.T01;Parent=MsG0280010491.01;Name=MsG0280010491.01.T01;_AED=0.39;_eAED=0.40;_QI=0|0|0|1|1|1|3|0|157
Chr2 exon 70477726 70477983 70477726 ID=MsG0280010491.01.T01:exon:10010;Parent=MsG0280010491.01.T01
Chr2 exon 70477062 70477172 70477062 ID=MsG0280010491.01.T01:exon:10009;Parent=MsG0280010491.01.T01
Chr2 exon 70476424 70476528 70476424 ID=MsG0280010491.01.T01:exon:10008;Parent=MsG0280010491.01.T01
Chr2 CDS 70477726 70477983 70477726 ID=MsG0280010491.01.T01:cds;Parent=MsG0280010491.01.T01
Chr2 CDS 70477062 70477172 70477062 ID=MsG0280010491.01.T01:cds;Parent=MsG0280010491.01.T01
Chr2 CDS 70476424 70476528 70476424 ID=MsG0280010491.01.T01:cds;Parent=MsG0280010491.01.T01
Gene Sequence

>MsG0280010491.01.T01

ATGGCAACACCAAAAAGATCATATGATCAGCAACAACAACTACAGATTGTGCAACATGTGAAGAATTCAGGAATGATTAACAACATCCAGAGTCCAAGAAGAGATGAAAAGGAAGAGGAAATGTCAAGATCAGTTCTAGCAATGTTTAGAGAAAAGGAAGAAGAAATTGAGAGAAGAAAATTGGAGGTTAGAGATAAGGTTCATGCTCATCTTGGTCGAGTCGAAAAGGAAACAAAGCGATTGGCTGAGATAAGAGAAGAGATTGAGGGTTTCACAGATCCAAAGAGGAAGGATGTTGCAATAGTTAGAAAGAAGATAGACATGGTTAACAAAGAGTTAAAGCCATTGGGTCAAACCTGCCAGAAAAAGGAGAGAGAATACAATGAAGCTCTTGAGGCTTTCAATGAGAAAAACAAAGAAAAGGCTCAACTTGTTACCAAATTAGTGGAGGTTAGAAGTTATTCATTGATTTAA

Protein sequence

>MsG0280010491.01.T01

MATPKRSYDQQQQLQIVQHVKNSGMINNIQSPRRDEKEEEMSRSVLAMFREKEEEIERRKLEVRDKVHAHLGRVEKETKRLAEIREEIEGFTDPKRKDVAIVRKKIDMVNKELKPLGQTCQKKEREYNEALEAFNEKNKEKAQLVTKLVEVRSYSLI*