AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180000594.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000594.01.T01 MTR_1g012620 89.815 108 11 0 38 145 35 142 2.66e-60 198
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180000594.01.T01 AT4G32190 39.200 125 60 5 32 145 34 153 1.35e-12 64.3

Find 25 sgRNAs with CRISPR-Local

Find 78 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCGAGAAGCCTAGCAGATTC+TGG 0.328588 1:-8438843 None:intergenic
TGCAGTTGTTGTGCTCTCTT+AGG 0.332854 1:+8438690 MsG0180000594.01.T01:intron
AGCAGCTTTAATTACTCTCT+TGG 0.368668 1:-8439058 None:intergenic
GGAGAAGGAGGATCATTTAC+AGG 0.372000 1:+8438971 MsG0180000594.01.T01:CDS
TGTGCTCTCTTAGGTACAAT+AGG 0.375275 1:+8438699 MsG0180000594.01.T01:CDS
GTCTGCGCTCATGGAATTGA+AGG 0.397775 1:+8438950 MsG0180000594.01.T01:CDS
GGAGGATCATTTACAGGAAG+TGG 0.406116 1:+8438977 MsG0180000594.01.T01:CDS
GGAAGAAAAGGTCGTTGGTT+AGG 0.407229 1:+8438757 MsG0180000594.01.T01:CDS
AAGTTGGACAACCGGATGAT+AGG 0.434647 1:+8438888 MsG0180000594.01.T01:CDS
GTTGTGACTCAAGGAAGAAA+AGG 0.469931 1:+8438745 MsG0180000594.01.T01:CDS
AGACACAAAAGTTGGACAAC+CGG 0.482352 1:+8438880 MsG0180000594.01.T01:CDS
TGTTTGTACAAAGTGATGAA+TGG 0.501204 1:+8437419 MsG0180000594.01.T01:CDS
GACTCAAAATCACGAAGATC+TGG 0.507607 1:-8438918 None:intergenic
GTTTGAGCAGACACAAAAGT+TGG 0.519353 1:+8438872 MsG0180000594.01.T01:CDS
GTGAGCAGGAGGGACACGTC+AGG 0.519542 1:+8437449 MsG0180000594.01.T01:CDS
CTGGTTCCTCTCCTATCATC+CGG 0.543300 1:-8438899 None:intergenic
AAAGCTGAAGGATGCGAAAG+AGG 0.552340 1:+8439025 MsG0180000594.01.T01:CDS
CTCAAGGAAGAAAAGGTCGT+TGG 0.577956 1:+8438752 MsG0180000594.01.T01:CDS
GTTGGAGAATGGAAAGCTGA+AGG 0.579685 1:+8439013 MsG0180000594.01.T01:CDS
AAAAGGTCGTTGGTTAGGAA+TGG 0.579718 1:+8438762 MsG0180000594.01.T01:CDS
ATGGAGCGCCAGAATCTGCT+AGG 0.595279 1:+8438835 MsG0180000594.01.T01:CDS
GCTCCATAATTGTTAAAACT+AGG 0.598816 1:-8438819 None:intergenic
GCTCATGGAATTGAAGGAGA+AGG 0.604339 1:+8438956 MsG0180000594.01.T01:CDS
CATGGAATTGAAGGAGAAGG+AGG 0.638231 1:+8438959 MsG0180000594.01.T01:CDS
GGACAACCGGATGATAGGAG+AGG 0.688688 1:+8438893 MsG0180000594.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAATTCAACTAAAAAAAT+TGG + Chr1:8438158-8438177 MsG0180000594.01.T01:intron 15.0%
!! TCTATATTATGTATAACTTA+TGG + Chr1:8438551-8438570 MsG0180000594.01.T01:intron 15.0%
!!! ATCAATATTTTAAAGCAAAA+TGG + Chr1:8438471-8438490 MsG0180000594.01.T01:intron 15.0%
!! GGTATATAATATAGAAAAAG+AGG - Chr1:8437835-8437854 None:intergenic 20.0%
!! TATGAATGATGAATATTGAT+CGG + Chr1:8438638-8438657 MsG0180000594.01.T01:intron 20.0%
!! TTGATTCTGTAAAAAATTGA+AGG + Chr1:8438278-8438297 MsG0180000594.01.T01:intron 20.0%
!!! TATTAATACTGTTTCTGTTA+CGG + Chr1:8437965-8437984 MsG0180000594.01.T01:intron 20.0%
! AAGGAAACAGAAAAAACAAA+AGG - Chr1:8437856-8437875 None:intergenic 25.0%
! GTAAAAAATTGAAGGTAAAG+TGG + Chr1:8438286-8438305 MsG0180000594.01.T01:intron 25.0%
!! CTACTACTATTAAACTTTTG+TGG + Chr1:8437550-8437569 MsG0180000594.01.T01:intron 25.0%
!! GTCAAAATCAATTTTTGTCA+CGG - Chr1:8438240-8438259 None:intergenic 25.0%
!! TCAAAATCAATTTTTGTCAC+GGG - Chr1:8438239-8438258 None:intergenic 25.0%
!!! AAGAAAAAGTTTTGTTTGAG+AGG - Chr1:8437522-8437541 None:intergenic 25.0%
!!! AGACCTAGTTTTAACAATTA+TGG + Chr1:8438816-8438835 MsG0180000594.01.T01:CDS 25.0%
!!! TTACACTTGAACTCATTTTT+AGG - Chr1:8438334-8438353 None:intergenic 25.0%
AAATGGTGAATTGTGAAATG+TGG + Chr1:8438488-8438507 MsG0180000594.01.T01:intron 30.0%
AAGAGAAAAAAAGATGTCGA+TGG - Chr1:8437629-8437648 None:intergenic 30.0%
AATATTGATCGGATCATGAT+TGG + Chr1:8438649-8438668 MsG0180000594.01.T01:intron 30.0%
GCGTACATAAAAAATAACGA+AGG - Chr1:8437875-8437894 None:intergenic 30.0%
GCTCCATAATTGTTAAAACT+AGG - Chr1:8438822-8438841 None:intergenic 30.0%
TGTTTGTACAAAGTGATGAA+TGG + Chr1:8437419-8437438 MsG0180000594.01.T01:CDS 30.0%
!! ATCAATTTTGTTGTGACTCA+AGG + Chr1:8438736-8438755 MsG0180000594.01.T01:CDS 30.0%
!! CTGAATGATTTTGACATGTT+TGG - Chr1:8438409-8438428 None:intergenic 30.0%
AGAAAAAAAGATGTCGATGG+AGG - Chr1:8437626-8437645 None:intergenic 35.0%
AGTGCAAATGCATTTACAGA+AGG - Chr1:8437729-8437748 None:intergenic 35.0%
GAAAAAAAGATGTCGATGGA+GGG - Chr1:8437625-8437644 None:intergenic 35.0%
GTGAATTGTGAAATGTGGAA+TGG + Chr1:8438493-8438512 MsG0180000594.01.T01:intron 35.0%
! CAAAGTGATGAATGGCTTTT+TGG + Chr1:8437427-8437446 MsG0180000594.01.T01:CDS 35.0%
!! AGAACTGTTTTGTTGGAGAA+TGG + Chr1:8439002-8439021 MsG0180000594.01.T01:CDS 35.0%
!! AGATCTTCGTGATTTTGAGT+CGG + Chr1:8438920-8438939 MsG0180000594.01.T01:CDS 35.0%
!! CTGTTACTTCAGTAGTGTTT+TGG + Chr1:8438209-8438228 MsG0180000594.01.T01:intron 35.0%
!! GGTAAAGTGGTGTTTTTGTT+TGG + Chr1:8438299-8438318 MsG0180000594.01.T01:intron 35.0%
AGACACAAAAGTTGGACAAC+CGG + Chr1:8438880-8438899 MsG0180000594.01.T01:CDS 40.0%
GAAGAAGAATTCTCAGGTGA+CGG - Chr1:8437497-8437516 None:intergenic 40.0%
GAAGTAACAAACCTGAGAGT+AGG - Chr1:8437809-8437828 None:intergenic 40.0%
GACTCAAAATCACGAAGATC+TGG - Chr1:8438921-8438940 None:intergenic 40.0%
GAGGTAGAAGAAGAATTCTC+AGG - Chr1:8437503-8437522 None:intergenic 40.0%
GCAAGTTTGATGAGTAGAGT+TGG + Chr1:8438613-8438632 MsG0180000594.01.T01:intron 40.0%
GTTGTGACTCAAGGAAGAAA+AGG + Chr1:8438745-8438764 MsG0180000594.01.T01:CDS 40.0%
GTTTGAGCAGACACAAAAGT+TGG + Chr1:8438872-8438891 MsG0180000594.01.T01:CDS 40.0%
TAACAAACCTGAGAGTAGGA+AGG - Chr1:8437805-8437824 None:intergenic 40.0%
TGATCGGATCATGATTGGAA+TGG + Chr1:8438654-8438673 MsG0180000594.01.T01:intron 40.0%
TGTGCTCTCTTAGGTACAAT+AGG + Chr1:8438699-8438718 MsG0180000594.01.T01:CDS 40.0%
! AAAAGGTCGTTGGTTAGGAA+TGG + Chr1:8438762-8438781 MsG0180000594.01.T01:CDS 40.0%
! AGTGGAGAGAACTGTTTTGT+TGG + Chr1:8438995-8439014 MsG0180000594.01.T01:CDS 40.0%
! CTGTTACGGACTGTGATTTA+CGG + Chr1:8437979-8437998 MsG0180000594.01.T01:intron 40.0%
AAAAAGATGTCGATGGAGGG+AGG - Chr1:8437622-8437641 None:intergenic 45.0%
AAAAGATGTCGATGGAGGGA+GGG - Chr1:8437621-8437640 None:intergenic 45.0%
AAACAATAGCACGCTAGCGT+TGG - Chr1:8437690-8437709 None:intergenic 45.0%
AAAGCTGAAGGATGCGAAAG+AGG + Chr1:8439025-8439044 MsG0180000594.01.T01:CDS 45.0%
AAGTTGGACAACCGGATGAT+AGG + Chr1:8438888-8438907 MsG0180000594.01.T01:CDS 45.0%
ATGGAGGGAGGGAAAAGTTA+TGG - Chr1:8437610-8437629 None:intergenic 45.0%
CATGGAATTGAAGGAGAAGG+AGG + Chr1:8438959-8438978 MsG0180000594.01.T01:CDS 45.0%
CTCAAGGAAGAAAAGGTCGT+TGG + Chr1:8438752-8438771 MsG0180000594.01.T01:CDS 45.0%
GCTCATGGAATTGAAGGAGA+AGG + Chr1:8438956-8438975 MsG0180000594.01.T01:CDS 45.0%
GGAGAAGGAGGATCATTTAC+AGG + Chr1:8438971-8438990 MsG0180000594.01.T01:CDS 45.0%
GGAGGATCATTTACAGGAAG+TGG + Chr1:8438977-8438996 MsG0180000594.01.T01:CDS 45.0%
GTTGGAGAATGGAAAGCTGA+AGG + Chr1:8439013-8439032 MsG0180000594.01.T01:CDS 45.0%
TCCACATCTCACTGTTCGAA+GGG + Chr1:8438433-8438452 MsG0180000594.01.T01:intron 45.0%
TGCAGTTGTTGTGCTCTCTT+AGG + Chr1:8438690-8438709 MsG0180000594.01.T01:intron 45.0%
TTCCACATCTCACTGTTCGA+AGG + Chr1:8438432-8438451 MsG0180000594.01.T01:intron 45.0%
! GGAAGAAAAGGTCGTTGGTT+AGG + Chr1:8438757-8438776 MsG0180000594.01.T01:CDS 45.0%
!! TGAATGGCTTTTTGGTGAGC+AGG + Chr1:8437435-8437454 MsG0180000594.01.T01:CDS 45.0%
CTCTTCTCCTTCCTACTCTC+AGG + Chr1:8437795-8437814 MsG0180000594.01.T01:intron 50.0%
CTGAGAGTAGGAAGGAGAAG+AGG - Chr1:8437797-8437816 None:intergenic 50.0%
CTGGTTCCTCTCCTATCATC+CGG - Chr1:8438902-8438921 None:intergenic 50.0%
GAGTAGGAAGGAGAAGAGGT+AGG - Chr1:8437793-8437812 None:intergenic 50.0%
GTCTGCGCTCATGGAATTGA+AGG + Chr1:8438950-8438969 MsG0180000594.01.T01:CDS 50.0%
TCCCTTCGAACAGTGAGATG+TGG - Chr1:8438437-8438456 None:intergenic 50.0%
TCGAGAAGCCTAGCAGATTC+TGG - Chr1:8438846-8438865 None:intergenic 50.0%
! CGCTAGCGTGCTATTGTTTC+TGG + Chr1:8437691-8437710 MsG0180000594.01.T01:intron 50.0%
! GAATTCTCAGGTGACGGTCT+TGG - Chr1:8437491-8437510 None:intergenic 50.0%
! GGATCTTTTGTCTGCGCTCA+TGG + Chr1:8438941-8438960 MsG0180000594.01.T01:CDS 50.0%
!! ATGGCTTTTTGGTGAGCAGG+AGG + Chr1:8437438-8437457 MsG0180000594.01.T01:CDS 50.0%
!! TGGCTTTTTGGTGAGCAGGA+GGG + Chr1:8437439-8437458 MsG0180000594.01.T01:CDS 50.0%
GGACAACCGGATGATAGGAG+AGG + Chr1:8438893-8438912 MsG0180000594.01.T01:CDS 55.0%
! ATGGAGCGCCAGAATCTGCT+AGG + Chr1:8438835-8438854 MsG0180000594.01.T01:CDS 55.0%
GTGAGCAGGAGGGACACGTC+AGG + Chr1:8437449-8437468 MsG0180000594.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr1 gene 8437406 8439073 8437406 ID=MsG0180000594.01;Name=MsG0180000594.01
Chr1 mRNA 8437406 8439073 8437406 ID=MsG0180000594.01.T01;Parent=MsG0180000594.01;Name=MsG0180000594.01.T01;_AED=0.47;_eAED=0.48;_QI=0|0|0.5|1|1|1|2|0|147
Chr1 exon 8438695 8439073 8438695 ID=MsG0180000594.01.T01:exon:2473;Parent=MsG0180000594.01.T01
Chr1 exon 8437406 8437470 8437406 ID=MsG0180000594.01.T01:exon:2472;Parent=MsG0180000594.01.T01
Chr1 CDS 8437406 8437470 8437406 ID=MsG0180000594.01.T01:cds;Parent=MsG0180000594.01.T01
Chr1 CDS 8438695 8439073 8438695 ID=MsG0180000594.01.T01:cds;Parent=MsG0180000594.01.T01
Gene Sequence

>MsG0180000594.01.T01

ATGACAAATTATTTGTTTGTACAAAGTGATGAATGGCTTTTTGGTGAGCAGGAGGGACACGTCAGTTGTTGTGCTCTCTTAGGTACAATAGGAAGCTTCGTAGCAAATCAATTTTGTTGTGACTCAAGGAAGAAAAGGTCGTTGGTTAGGAATGGTGTTAGTGTTAAATCAGTGTTGAATGACAATAGACCTAGTTTTAACAATTATGGAGCGCCAGAATCTGCTAGGCTTCTCGAGAGATTGTTTGAGCAGACACAAAAGTTGGACAACCGGATGATAGGAGAGGAACCAGATCTTCGTGATTTTGAGTCGGATCTTTTGTCTGCGCTCATGGAATTGAAGGAGAAGGAGGATCATTTACAGGAAGTGGAGAGAACTGTTTTGTTGGAGAATGGAAAGCTGAAGGATGCGAAAGAGGAATTAGAGCGCCAAGAGAGTAATTAA
Protein sequence

>MsG0180000594.01.T01

MTNYLFVQSDEWLFGEQEGHVSCCALLGTIGSFVANQFCCDSRKKRSLVRNGVSVKSVLNDNRPSFNNYGAPESARLLERLFEQTQKLDNRMIGEEPDLRDFESDLLSALMELKEKEDHLQEVERTVLLENGKLKDAKEELERQESN*