AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023252.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023252.01.T02 MTR_8g089920 91.045 67 6 0 1 67 83 149 2.19e-38 124
MsG0480023252.01.T01 MTR_8g089920 93.289 149 10 0 1 149 1 149 7.81e-102 288
MsG0480023252.01.T01 MTR_3g086830 43.137 153 75 4 1 143 4 154 3.46e-23 89.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 29 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATATGGTTAATTTCAATTA+TGG 0.201378 4:+82716516 MsG0480023252.01.T01:CDS
TGAACGTGTGAAAGCTTCTT+TGG 0.251848 4:-82716673 None:intergenic
TGATTTCCCTATCTCTGATT+TGG 0.302555 4:-82716578 None:intergenic
CAAGAAGCCAAATCAGAGAT+AGG 0.355674 4:+82716571 MsG0480023252.01.T01:CDS
ATCATAAGAAAAGAAGCTTT+TGG 0.366357 4:+82716619 MsG0480023252.01.T01:CDS
GAGAAGGTTTGAGGAGATTG+AGG 0.374689 4:-82716408 None:intergenic
AATCTGTCACACTAGAAGTT+TGG 0.436538 4:-82716482 None:intergenic
GATTTGGCTTCTTGAATCAA+AGG 0.476574 4:-82716562 None:intergenic
AATTGCTGAGGTTGAAGAGA+AGG 0.495615 4:-82716424 None:intergenic
GAGGTTGAAGAGAAGGTTTG+AGG 0.504838 4:-82716417 None:intergenic
AAGAAGCTTTCACACGTTCA+AGG 0.506620 4:+82716676 MsG0480023252.01.T01:CDS
TAGAAGTTTGGCGGCGGTGA+CGG 0.511622 4:-82716470 None:intergenic
GCTACTCAAATTGACAAGAA+AGG 0.520563 4:+82716647 MsG0480023252.01.T01:CDS
TTGTCAGAGTTAGAAGCAGC+AGG 0.525527 4:+82716279 MsG0480023252.01.T01:CDS
GGAAATCAATGGAGATAACC+AGG 0.535671 4:+82716593 MsG0480023252.01.T01:CDS
AAGAAGCCAAATCAGAGATA+GGG 0.536255 4:+82716572 MsG0480023252.01.T01:CDS
ATCAGAGATAGGGAAATCAA+TGG 0.542074 4:+82716582 MsG0480023252.01.T01:CDS
AAGTTTGGCGGCGGTGACGG+CGG 0.545140 4:-82716467 None:intergenic
CACACGTTCAAGGACAGTGA+GGG 0.564456 4:+82716686 MsG0480023252.01.T01:CDS
CTGTCACACTAGAAGTTTGG+CGG 0.564777 4:-82716479 None:intergenic
TCAGCAATTTATATGTCTCA+TGG 0.564801 4:+82716438 MsG0480023252.01.T01:CDS
TCAAATGACAAACAACTACC+TGG 0.600195 4:+82716321 MsG0480023252.01.T01:CDS
TCACACTAGAAGTTTGGCGG+CGG 0.649605 4:-82716476 None:intergenic
CACGTTCAAGGACAGTGAGG+GGG 0.652331 4:+82716688 MsG0480023252.01.T01:CDS
ATGAGACATATAAATTGCTG+AGG 0.658796 4:-82716436 None:intergenic
GAAATCAATGGAGATAACCA+GGG 0.659361 4:+82716594 MsG0480023252.01.T01:CDS
ACACGTTCAAGGACAGTGAG+GGG 0.663586 4:+82716687 MsG0480023252.01.T01:CDS
AAGCAATAACAACAAACACC+AGG 0.676498 4:-82716339 None:intergenic
TCACACGTTCAAGGACAGTG+AGG 0.684808 4:+82716685 MsG0480023252.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATATGGTTAATTTCAATTA+TGG + Chr4:82716516-82716535 MsG0480023252.01.T01:CDS 15.0%
!!! AGATTCTTTTTCTTCAAATA+TGG + Chr4:82716500-82716519 MsG0480023252.01.T01:CDS 20.0%
!! ATCATAAGAAAAGAAGCTTT+TGG + Chr4:82716619-82716638 MsG0480023252.01.T01:CDS 25.0%
ATGAGACATATAAATTGCTG+AGG - Chr4:82716439-82716458 None:intergenic 30.0%
TCAGCAATTTATATGTCTCA+TGG + Chr4:82716438-82716457 MsG0480023252.01.T01:CDS 30.0%
! TTCTTTTCTTATGATTTCCC+TGG - Chr4:82716614-82716633 None:intergenic 30.0%
AAGAAGCCAAATCAGAGATA+GGG + Chr4:82716572-82716591 MsG0480023252.01.T01:CDS 35.0%
AAGCAATAACAACAAACACC+AGG - Chr4:82716342-82716361 None:intergenic 35.0%
AATCTGTCACACTAGAAGTT+TGG - Chr4:82716485-82716504 None:intergenic 35.0%
ATCAGAGATAGGGAAATCAA+TGG + Chr4:82716582-82716601 MsG0480023252.01.T01:CDS 35.0%
GAAATCAATGGAGATAACCA+GGG + Chr4:82716594-82716613 MsG0480023252.01.T01:CDS 35.0%
GCTACTCAAATTGACAAGAA+AGG + Chr4:82716647-82716666 MsG0480023252.01.T01:CDS 35.0%
TCAAATGACAAACAACTACC+TGG + Chr4:82716321-82716340 MsG0480023252.01.T01:CDS 35.0%
TGATTTCCCTATCTCTGATT+TGG - Chr4:82716581-82716600 None:intergenic 35.0%
! GATTTGGCTTCTTGAATCAA+AGG - Chr4:82716565-82716584 None:intergenic 35.0%
AAGAAGCTTTCACACGTTCA+AGG + Chr4:82716676-82716695 MsG0480023252.01.T01:CDS 40.0%
AATTGCTGAGGTTGAAGAGA+AGG - Chr4:82716427-82716446 None:intergenic 40.0%
CAAGAAGCCAAATCAGAGAT+AGG + Chr4:82716571-82716590 MsG0480023252.01.T01:CDS 40.0%
GGAAATCAATGGAGATAACC+AGG + Chr4:82716593-82716612 MsG0480023252.01.T01:CDS 40.0%
TGAACGTGTGAAAGCTTCTT+TGG - Chr4:82716676-82716695 None:intergenic 40.0%
CTGTCACACTAGAAGTTTGG+CGG - Chr4:82716482-82716501 None:intergenic 45.0%
GAGAAGGTTTGAGGAGATTG+AGG - Chr4:82716411-82716430 None:intergenic 45.0%
GAGGTTGAAGAGAAGGTTTG+AGG - Chr4:82716420-82716439 None:intergenic 45.0%
TTGTCAGAGTTAGAAGCAGC+AGG + Chr4:82716279-82716298 MsG0480023252.01.T01:CDS 45.0%
ACACGTTCAAGGACAGTGAG+GGG + Chr4:82716687-82716706 MsG0480023252.01.T01:CDS 50.0%
CACACGTTCAAGGACAGTGA+GGG + Chr4:82716686-82716705 MsG0480023252.01.T01:CDS 50.0%
TCACACGTTCAAGGACAGTG+AGG + Chr4:82716685-82716704 MsG0480023252.01.T01:CDS 50.0%
TCACACTAGAAGTTTGGCGG+CGG - Chr4:82716479-82716498 None:intergenic 50.0%
AAGGACAGTGAGGGGGAGAA+TGG + Chr4:82716695-82716714 MsG0480023252.01.T01:CDS 55.0%
AGGACAGTGAGGGGGAGAAT+GGG + Chr4:82716696-82716715 MsG0480023252.01.T01:CDS 55.0%
CACGTTCAAGGACAGTGAGG+GGG + Chr4:82716688-82716707 MsG0480023252.01.T01:CDS 55.0%
TAGAAGTTTGGCGGCGGTGA+CGG - Chr4:82716473-82716492 None:intergenic 55.0%
! AAGTTTGGCGGCGGTGACGG+CGG - Chr4:82716470-82716489 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr4 gene 82716273 82716722 82716273 ID=MsG0480023252.01;Name=MsG0480023252.01
Chr4 mRNA 82716273 82716722 82716273 ID=MsG0480023252.01.T01;Parent=MsG0480023252.01;Name=MsG0480023252.01.T01;_AED=0.44;_eAED=0.44;_QI=0|-1|0|1|-1|0|1|0|149
Chr4 exon 82716273 82716722 82716273 ID=MsG0480023252.01.T01:exon:5333;Parent=MsG0480023252.01.T01
Chr4 CDS 82716273 82716722 82716273 ID=MsG0480023252.01.T01:cds;Parent=MsG0480023252.01.T01
Chr4 mRNA 82716519 82716722 82716519 ID=MsG0480023252.01.T02;Parent=MsG0480023252.01;Name=MsG0480023252.01.T02;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|0|1|0|67
Chr4 exon 82716519 82716722 82716519 ID=MsG0480023252.01.T02:exon:5334;Parent=MsG0480023252.01.T02
Chr4 CDS 82716519 82716722 82716519 ID=MsG0480023252.01.T02:cds;Parent=MsG0480023252.01.T02
Gene Sequence

>MsG0480023252.01.T02

ATGGTTAATTTCAATTATGGTTTAAAGAAGAGCAATTCGATTGCCTTTGATTCAAGAAGCCAAATCAGAGATAGGGAAATCAATGGAGATAACCAGGGAAATCATAAGAAAAGAAGCTTTTGGTCAAAGCTACTCAAATTGACAAGAAAGGACTCCAAAGAAGCTTTCACACGTTCAAGGACAGTGAGGGGGAGAATGGGTTGA

>MsG0480023252.01.T01

ATGAAGTTGTCAGAGTTAGAAGCAGCAGGAACAAAGTGCAAAGAGCACTCAAATGACAAACAACTACCTGGTGTTTGTTGTTATTGCTTAAGAGACAAACTCTCAAAGCTCAATAACAGACAAATTCATCATGTACCTCAATCTCCTCAAACCTTCTCTTCAACCTCAGCAATTTATATGTCTCATGGTCATAGCCGCCGTCACCGCCGCCAAACTTCTAGTGTGACAGATTCTTTTTCTTCAAATATGGTTAATTTCAATTATGGTTTAAAGAAGAGCAATTCGATTGCCTTTGATTCAAGAAGCCAAATCAGAGATAGGGAAATCAATGGAGATAACCAGGGAAATCATAAGAAAAGAAGCTTTTGGTCAAAGCTACTCAAATTGACAAGAAAGGACTCCAAAGAAGCTTTCACACGTTCAAGGACAGTGAGGGGGAGAATGGGTTGA
Protein sequence

>MsG0480023252.01.T02

MVNFNYGLKKSNSIAFDSRSQIRDREINGDNQGNHKKRSFWSKLLKLTRKDSKEAFTRSRTVRGRMG*

>MsG0480023252.01.T01

MKLSELEAAGTKCKEHSNDKQLPGVCCYCLRDKLSKLNNRQIHHVPQSPQTFSSTSAIYMSHGHSRRHRRQTSSVTDSFSSNMVNFNYGLKKSNSIAFDSRSQIRDREINGDNQGNHKKRSFWSKLLKLTRKDSKEAFTRSRTVRGRMG*