AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005393.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005393.01.T01 MTR_1g098690 55.392 204 44 3 1 157 1 204 6.60e-58 180
MsG0180005393.01.T01 MTR_1246s0010 63.492 63 22 1 1 63 1 62 1.06e-20 83.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005393.01.T01 AT1G76780 56.944 72 28 1 1 69 1 72 1.62e-19 84.7
MsG0180005393.01.T01 AT1G76780 56.944 72 28 1 1 69 1 72 1.62e-19 84.7
MsG0180005393.01.T01 AT1G76770 60.317 63 25 0 1 63 1 63 6.57e-18 77.8

Find 31 sgRNAs with CRISPR-Local

Find 50 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGTCCACCTTTGGTTCT+TGG 0.114619 1:+91241091 MsG0180005393.01.T01:CDS
CTAGGACGTCTCTTCTTAAC+AGG 0.275114 1:-91241056 None:intergenic
GACAGGTCCTGCTCTGTCTT+TGG 0.343396 1:-91240264 None:intergenic
ACAAGGTTGCCATGGTTTCT+AGG 0.350684 1:-91241074 None:intergenic
ATTGCTATGGAGGTTGAGTT+AGG 0.385137 1:+91240185 None:intergenic
ATGGCAACCTTGTCCACCTT+TGG 0.390972 1:+91241084 MsG0180005393.01.T01:CDS
TGTCCACCTTTGGTTCTTGG+AGG 0.424444 1:+91241094 MsG0180005393.01.T01:CDS
GGCAAACTGAAAATCAGAAA+TGG 0.432210 1:-91240243 None:intergenic
CAGTTTGCCAAAGACAGAGC+AGG 0.497784 1:+91240257 MsG0180005393.01.T01:CDS
AGAAGAAGTGAAGGAAGAAG+AGG 0.509148 1:+91240947 MsG0180005393.01.T01:CDS
GTTTCTTTAGATAAGAAGAC+AGG 0.514312 1:-91240281 None:intergenic
TAGCAAAAGGAGTGCTGAGT+GGG 0.529464 1:+91240917 MsG0180005393.01.T01:CDS
GACATCAACATTAACAAAGA+TGG 0.531815 1:+91240710 MsG0180005393.01.T01:CDS
CTGAAAATCAGAAATGGAAG+TGG 0.544169 1:-91240237 None:intergenic
GGGTGGAATAGAAGAAGTGA+AGG 0.548588 1:+91240938 MsG0180005393.01.T01:CDS
AAGTGCAAGAAAAGAAGTAA+AGG 0.549837 1:+91241001 MsG0180005393.01.T01:CDS
GAAGAAGTGAAGGAAGAAGA+GGG 0.550743 1:+91240948 MsG0180005393.01.T01:CDS
CCAAGAACCAAAGGTGGACA+AGG 0.550847 1:-91241091 None:intergenic
TACAGATGATAAGAGTGAAG+AGG 0.565214 1:+91241025 MsG0180005393.01.T01:CDS
CAAAGCTAAGTATTACGAAG+AGG 0.566739 1:+91240858 MsG0180005393.01.T01:intron
ACCTTTGAGATGTGCTGTGA+GGG 0.582015 1:-91240318 None:intergenic
GCTAAGTATTACGAAGAGGA+AGG 0.582114 1:+91240862 MsG0180005393.01.T01:intron
ACCCTCACAGCACATCTCAA+AGG 0.582279 1:+91240317 MsG0180005393.01.T01:CDS
AAAGGTGGACAAGGTTGCCA+TGG 0.584568 1:-91241082 None:intergenic
GTTGATCCTCCAAGAACCAA+AGG 0.621557 1:-91241100 None:intergenic
AAGAGACGTCCTAGAAACCA+TGG 0.643683 1:+91241065 MsG0180005393.01.T01:CDS
AAAAGGAGTGCTGAGTGGGG+TGG 0.656997 1:+91240921 MsG0180005393.01.T01:CDS
GATCCTCCAAGAACCAAAGG+TGG 0.669806 1:-91241097 None:intergenic
AGCAAAAGGAGTGCTGAGTG+GGG 0.706883 1:+91240918 MsG0180005393.01.T01:CDS
AACCTTTGAGATGTGCTGTG+AGG 0.714535 1:-91240319 None:intergenic
ATAGCAAAAGGAGTGCTGAG+TGG 0.729591 1:+91240916 MsG0180005393.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTAATTTGTTTTCAC+AGG - Chr1:91240522-91240541 None:intergenic 15.0%
! ATATGTTCATCATATCAACA+TGG - Chr1:91240666-91240685 None:intergenic 25.0%
!! AAGAAGTTTAAAATCCCTAA+TGG + Chr1:91240818-91240837 MsG0180005393.01.T01:intron 25.0%
AAGTGCAAGAAAAGAAGTAA+AGG + Chr1:91241001-91241020 MsG0180005393.01.T01:CDS 30.0%
CAACATGGTATCATTAACAT+AGG - Chr1:91240651-91240670 None:intergenic 30.0%
CGTCTTATGATATGTCTATA+AGG + Chr1:91240461-91240480 MsG0180005393.01.T01:intron 30.0%
GACATCAACATTAACAAAGA+TGG + Chr1:91240710-91240729 MsG0180005393.01.T01:CDS 30.0%
GTTTCTTTAGATAAGAAGAC+AGG - Chr1:91240284-91240303 None:intergenic 30.0%
TCAAGAAAGAGCTGAAAAAA+AGG + Chr1:91240788-91240807 MsG0180005393.01.T01:intron 30.0%
TTATCCAAACAACTCCATTA+GGG - Chr1:91240835-91240854 None:intergenic 30.0%
TTGATATGATGAACATATGC+AGG + Chr1:91240668-91240687 MsG0180005393.01.T01:intron 30.0%
!! TTTTTCAGCTCTTTCTTGAA+TGG - Chr1:91240787-91240806 None:intergenic 30.0%
AAATCCCTAATGGAGTTGTT+TGG + Chr1:91240828-91240847 MsG0180005393.01.T01:intron 35.0%
CAAAGCTAAGTATTACGAAG+AGG + Chr1:91240858-91240877 MsG0180005393.01.T01:intron 35.0%
CCAAAAACGGAAATAGCAAA+AGG + Chr1:91240904-91240923 MsG0180005393.01.T01:CDS 35.0%
CTGAAAATCAGAAATGGAAG+TGG - Chr1:91240240-91240259 None:intergenic 35.0%
CTTATCCAAACAACTCCATT+AGG - Chr1:91240836-91240855 None:intergenic 35.0%
GAGAATAGTGATGCCAAAAA+CGG + Chr1:91240891-91240910 MsG0180005393.01.T01:CDS 35.0%
GGCAAACTGAAAATCAGAAA+TGG - Chr1:91240246-91240265 None:intergenic 35.0%
TACAGATGATAAGAGTGAAG+AGG + Chr1:91241025-91241044 MsG0180005393.01.T01:CDS 35.0%
TGGTACAAAATTTCAGTGAG+TGG + Chr1:91240730-91240749 MsG0180005393.01.T01:intron 35.0%
! TCTTTTCTTGCACTTTGTTC+TGG - Chr1:91240996-91241015 None:intergenic 35.0%
! TTTTCACAGGCTATCATGAA+GGG - Chr1:91240509-91240528 None:intergenic 35.0%
!!! CCTTTTGCTATTTCCGTTTT+TGG - Chr1:91240907-91240926 None:intergenic 35.0%
AGAAGAAGTGAAGGAAGAAG+AGG + Chr1:91240947-91240966 MsG0180005393.01.T01:CDS 40.0%
GAAGAAGTGAAGGAAGAAGA+GGG + Chr1:91240948-91240967 MsG0180005393.01.T01:CDS 40.0%
GCTAAGTATTACGAAGAGGA+AGG + Chr1:91240862-91240881 MsG0180005393.01.T01:intron 40.0%
! GTTTTCACAGGCTATCATGA+AGG - Chr1:91240510-91240529 None:intergenic 40.0%
AAGAGACGTCCTAGAAACCA+TGG + Chr1:91241065-91241084 MsG0180005393.01.T01:CDS 45.0%
ACAAGGTTGCCATGGTTTCT+AGG - Chr1:91241077-91241096 None:intergenic 45.0%
CCACTTGTAAGACTGTTCGA+CGG + Chr1:91240426-91240445 MsG0180005393.01.T01:intron 45.0%
CTAGGACGTCTCTTCTTAAC+AGG - Chr1:91241059-91241078 None:intergenic 45.0%
GGGTGGAATAGAAGAAGTGA+AGG + Chr1:91240938-91240957 MsG0180005393.01.T01:CDS 45.0%
GTTGATCCTCCAAGAACCAA+AGG - Chr1:91241103-91241122 None:intergenic 45.0%
!! AACCTTTGAGATGTGCTGTG+AGG - Chr1:91240322-91240341 None:intergenic 45.0%
!! ACCTTTGAGATGTGCTGTGA+GGG - Chr1:91240321-91240340 None:intergenic 45.0%
!! ATAGCAAAAGGAGTGCTGAG+TGG + Chr1:91240916-91240935 MsG0180005393.01.T01:CDS 45.0%
!! TAGCAAAAGGAGTGCTGAGT+GGG + Chr1:91240917-91240936 MsG0180005393.01.T01:CDS 45.0%
AAAGGTGGACAAGGTTGCCA+TGG - Chr1:91241085-91241104 None:intergenic 50.0%
ACCCTCACAGCACATCTCAA+AGG + Chr1:91240317-91240336 MsG0180005393.01.T01:CDS 50.0%
ATGGCAACCTTGTCCACCTT+TGG + Chr1:91241084-91241103 MsG0180005393.01.T01:CDS 50.0%
CAGTTTGCCAAAGACAGAGC+AGG + Chr1:91240257-91240276 MsG0180005393.01.T01:CDS 50.0%
CCAAGAACCAAAGGTGGACA+AGG - Chr1:91241094-91241113 None:intergenic 50.0%
CCGTCGAACAGTCTTACAAG+TGG - Chr1:91240429-91240448 None:intergenic 50.0%
GATCCTCCAAGAACCAAAGG+TGG - Chr1:91241100-91241119 None:intergenic 50.0%
!! AGCAAAAGGAGTGCTGAGTG+GGG + Chr1:91240918-91240937 MsG0180005393.01.T01:CDS 50.0%
!! CCTTGTCCACCTTTGGTTCT+TGG + Chr1:91241091-91241110 MsG0180005393.01.T01:CDS 50.0%
!! TGTCCACCTTTGGTTCTTGG+AGG + Chr1:91241094-91241113 MsG0180005393.01.T01:CDS 50.0%
GACAGGTCCTGCTCTGTCTT+TGG - Chr1:91240267-91240286 None:intergenic 55.0%
!! AAAAGGAGTGCTGAGTGGGG+TGG + Chr1:91240921-91240940 MsG0180005393.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr1 gene 91240191 91241151 91240191 ID=MsG0180005393.01;Name=MsG0180005393.01
Chr1 mRNA 91240191 91241151 91240191 ID=MsG0180005393.01.T01;Parent=MsG0180005393.01;Name=MsG0180005393.01.T01;_AED=0.13;_eAED=0.34;_QI=0|0|0|1|1|1|3|0|157
Chr1 exon 91240191 91240338 91240191 ID=MsG0180005393.01.T01:exon:17603;Parent=MsG0180005393.01.T01
Chr1 exon 91240690 91240731 91240690 ID=MsG0180005393.01.T01:exon:17604;Parent=MsG0180005393.01.T01
Chr1 exon 91240868 91241151 91240868 ID=MsG0180005393.01.T01:exon:17605;Parent=MsG0180005393.01.T01
Chr1 CDS 91240191 91240338 91240191 ID=MsG0180005393.01.T01:cds;Parent=MsG0180005393.01.T01
Chr1 CDS 91240690 91240731 91240690 ID=MsG0180005393.01.T01:cds;Parent=MsG0180005393.01.T01
Chr1 CDS 91240868 91241151 91240868 ID=MsG0180005393.01.T01:cds;Parent=MsG0180005393.01.T01
Gene Sequence

>MsG0180005393.01.T01

ATGGAGGTTGAGTTAGGTCTAAAGATTACAAGAACAAAAGATGACACCACTTCCATTTCTGATTTTCAGTTTGCCAAAGACAGAGCAGGACCTGTCTTCTTATCTAAAGAAACTGATGCAACTTTCACCCTCACAGCACATCTCAAAGGTTATAAGAAAGAGAACATTGACATCAACATTAACAAAGATGTATTACGAAGAGGAAGGAGTGCTGAGAATAGTGATGCCAAAAACGGAAATAGCAAAAGGAGTGCTGAGTGGGGTGGAATAGAAGAAGTGAAGGAAGAAGAGGGTGCAAGTAGCATTATAGAAGAACCAGAACAAAGTGCAAGAAAAGAAGTAAAGGTTACAGATGATAAGAGTGAAGAGGAAAATGCTCCTGTTAAGAAGAGACGTCCTAGAAACCATGGCAACCTTGTCCACCTTTGGTTCTTGGAGGATCAACTTTGCTTGTATCTATTATCTTTCTTGTAA

Protein sequence

>MsG0180005393.01.T01

MEVELGLKITRTKDDTTSISDFQFAKDRAGPVFLSKETDATFTLTAHLKGYKKENIDININKDVLRRGRSAENSDAKNGNSKRSAEWGGIEEVKEEEGASSIIEEPEQSARKEVKVTDDKSEEENAPVKKRRPRNHGNLVHLWFLEDQLCLYLLSFL*