AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010412.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280010412.01.T01 MTR_2g084495 81.609 87 16 0 1 87 33 119 3.83e-48 152
MsG0280010412.01.T01 MTR_2g060540 66.279 86 29 0 2 87 40 125 6.54e-35 116
MsG0280010412.01.T01 MTR_2g060500 66.279 86 29 0 2 87 40 125 6.57e-35 116
MsG0280010412.01.T01 MTR_2g083720 83.051 59 10 0 29 87 25 83 3.69e-31 105
MsG0280010412.01.T01 MTR_2g084510 59.524 84 34 0 2 85 33 116 4.27e-30 107
MsG0280010412.01.T01 MTR_2g084525 57.500 80 34 0 2 81 34 113 8.83e-29 103
MsG0280010412.01.T01 MTR_1g062160 52.778 72 34 0 1 72 35 106 1.77e-19 78.6
MsG0280010412.01.T01 MTR_5g030130 50.746 67 32 1 1 67 63 128 3.83e-18 74.7
MsG0280010412.01.T01 MTR_5g030130 50.746 67 32 1 1 67 63 128 4.35e-18 75.5
MsG0280010412.01.T01 MTR_5g007230 52.239 67 31 1 1 67 49 114 1.80e-17 73.6
MsG0280010412.01.T01 MTR_7g102790 51.351 74 34 1 1 72 35 108 5.66e-17 72.0
MsG0280010412.01.T01 MTR_4g078170 49.254 67 33 1 1 67 43 108 1.03e-15 68.9
MsG0280010412.01.T01 MTR_8g066820 44.444 72 39 1 1 72 61 131 2.07e-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
MsG0280010412.01.T01 AT4G17900 50.000 72 35 1 1 72 62 132 4.31e-19 78.2
MsG0280010412.01.T01 AT4G17900 53.731 67 30 1 1 67 48 113 5.63e-19 77.4
MsG0280010412.01.T01 AT1G43000 52.239 67 31 1 1 67 44 109 3.35e-17 73.2
MsG0280010412.01.T01 AT1G43000 52.239 67 31 1 1 67 37 102 3.37e-17 72.8
MsG0280010412.01.T01 AT1G32700 45.455 77 41 1 1 77 1 76 3.50e-17 72.0
MsG0280010412.01.T01 AT1G32700 45.455 77 41 1 1 77 40 115 7.40e-17 72.0
MsG0280010412.01.T01 AT2G27930 47.761 67 35 0 1 67 32 98 1.19e-14 65.5
MsG0280010412.01.T01 AT2G27930 47.761 67 35 0 1 67 32 98 1.19e-14 65.5
MsG0280010412.01.T01 AT2G27930 47.761 67 35 0 1 67 32 98 1.96e-14 65.1
MsG0280010412.01.T01 AT2G27930 47.761 67 35 0 1 67 32 98 1.96e-14 65.1
MsG0280010412.01.T01 AT1G21000 47.761 67 34 1 1 67 44 109 2.46e-14 65.9
MsG0280010412.01.T01 AT1G21000 47.761 67 34 1 1 67 41 106 2.51e-14 65.9
MsG0280010412.01.T01 AT5G46710 44.444 72 39 1 1 72 56 126 7.12e-14 63.2
MsG0280010412.01.T01 AT5G46710 43.243 74 41 1 1 74 40 112 9.04e-14 63.9
MsG0280010412.01.T01 AT5G46710 44.444 72 39 1 1 72 56 126 9.49e-14 63.9
MsG0280010412.01.T01 AT1G76590 44.776 67 36 1 1 67 46 111 1.26e-13 63.9

Find 11 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGGAATAAGATTGGTATAAT+TGG 0.240667 2:-69166677 MsG0280010412.01.T01:CDS
TTTATGCAAGATCCGCAAAA+TGG 0.319542 2:+69167031 None:intergenic
CAATCTTATTCCTCATAGAT+TGG 0.344916 2:+69166687 None:intergenic
TACAAACATTTGGACATTCT+AGG 0.347126 2:-69166770 MsG0280010412.01.T01:CDS
GATTGAGATTTACAAACATT+TGG 0.367665 2:-69166780 MsG0280010412.01.T01:CDS
AATCTTATTCCTCATAGATT+GGG 0.430616 2:+69166688 None:intergenic
GGCTTTATTCCCAATCTATG+AGG 0.493751 2:-69166697 MsG0280010412.01.T01:CDS
CAATCTATGAGGAATAAGAT+TGG 0.532302 2:-69166686 MsG0280010412.01.T01:CDS
TCTAGGAATTCAAACGTATG+TGG 0.541101 2:-69166753 MsG0280010412.01.T01:CDS
CATCTGTATTCATAAACAAG+AGG 0.562341 2:-69166718 MsG0280010412.01.T01:CDS
ATTGGTATAATTGGTTGTAG+TGG 0.583108 2:-69166668 MsG0280010412.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TATTTGATTTTTTTGACTTT+GGG - Chr2:69166836-69166855 MsG0280010412.01.T01:intron 15.0%
!!! TTATTTGATTTTTTTGACTT+TGG - Chr2:69166835-69166854 MsG0280010412.01.T01:intron 15.0%
!! ATTTGTAATTGCAAATATCA+AGG + Chr2:69166875-69166894 None:intergenic 20.0%
! AATCTTATTCCTCATAGATT+GGG + Chr2:69167028-69167047 None:intergenic 25.0%
! AGGAATAAGATTGGTATAAT+TGG - Chr2:69167036-69167055 MsG0280010412.01.T01:CDS 25.0%
! GATTGAGATTTACAAACATT+TGG - Chr2:69166933-69166952 MsG0280010412.01.T01:intron 25.0%
ATTGGTATAATTGGTTGTAG+TGG - Chr2:69167045-69167064 MsG0280010412.01.T01:CDS 30.0%
CAATCTATGAGGAATAAGAT+TGG - Chr2:69167027-69167046 MsG0280010412.01.T01:CDS 30.0%
CAATCTTATTCCTCATAGAT+TGG + Chr2:69167029-69167048 None:intergenic 30.0%
CATCTGTATTCATAAACAAG+AGG - Chr2:69166995-69167014 MsG0280010412.01.T01:intron 30.0%
TACAAACATTTGGACATTCT+AGG - Chr2:69166943-69166962 MsG0280010412.01.T01:intron 30.0%
TTGCAATTACAAATCATGTG+AGG - Chr2:69166881-69166900 MsG0280010412.01.T01:intron 30.0%
!! TGAGTGTTGTTTAAAGTGAT+AGG - Chr2:69166737-69166756 MsG0280010412.01.T01:CDS 30.0%
CACTTTAAACAACACTCACT+AGG + Chr2:69166735-69166754 None:intergenic 35.0%
TCTAGGAATTCAAACGTATG+TGG - Chr2:69166960-69166979 MsG0280010412.01.T01:intron 35.0%
TTTATGCAAGATCCGCAAAA+TGG + Chr2:69166685-69166704 None:intergenic 35.0%
! TGCAATGACAATCCATTTTG+CGG - Chr2:69166670-69166689 MsG0280010412.01.T01:CDS 35.0%
!! GGCTTTATTCCCAATCTATG+AGG - Chr2:69167016-69167035 MsG0280010412.01.T01:CDS 40.0%
Chromosome Type Strat End Strand Name
Chr2 gene 69166655 69167080 69166655 ID=MsG0280010412.01;Name=MsG0280010412.01
Chr2 mRNA 69166655 69167080 69166655 ID=MsG0280010412.01.T01;Parent=MsG0280010412.01;Name=MsG0280010412.01.T01;_AED=0.50;_eAED=0.50;_QI=0|0|0|1|0|0|2|0|87
Chr2 exon 69166655 69166837 69166655 ID=MsG0280010412.01.T01:exon:9703;Parent=MsG0280010412.01.T01
Chr2 exon 69167000 69167080 69167000 ID=MsG0280010412.01.T01:exon:9702;Parent=MsG0280010412.01.T01
Chr2 CDS 69167000 69167080 69167000 ID=MsG0280010412.01.T01:cds;Parent=MsG0280010412.01.T01
Chr2 CDS 69166655 69166837 69166655 ID=MsG0280010412.01.T01:cds;Parent=MsG0280010412.01.T01
Gene Sequence

>MsG0280010412.01.T01

ATGTTCTATCTCGATTGCAATGACAATCCATTTTGCGGATCTTGCATAAAATCTCATCACAAAGATCATCGAGTAATCCTAGTGAGGAGATTATCTTATACTGACGTCGTAAAGACGATTGAGATTTACAAACATTTGGACATTCTAGGAATTCAAACGTATGTGGTTAGCAACTTTACATCTGTATTCATAAACAAGAGGCTTTATTCCCAATCTATGAGGAATAAGATTGGTATAATTGGTTGTAGTGGTGACTATCTTTGA
Protein sequence

>MsG0280010412.01.T01

MFYLDCNDNPFCGSCIKSHHKDHRVILVRRLSYTDVVKTIEIYKHLDILGIQTYVVSNFTSVFINKRLYSQSMRNKIGIIGCSGDYL*