AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012801.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012801.01.T01 MTR_3g030860 93.333 105 7 0 1 105 1 105 1.69e-57 172
MsG0380012801.01.T01 MTR_3g030850 80.000 105 20 1 1 104 1 105 6.76e-52 159
MsG0380012801.01.T01 MTR_4g037505 69.444 108 30 3 1 105 1 108 8.78e-40 128
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012801.01.T01 AT1G51400 54.206 107 44 3 1 104 1 105 9.34e-28 97.8
MsG0380012801.01.T01 AT3G21055 53.271 107 44 4 1 105 1 103 9.64e-24 87.4
MsG0380012801.01.T01 AT3G21055 53.271 107 44 4 1 105 41 143 2.00e-23 87.8

Find 32 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGCTGTTTGCTCTGTTGC+TGG 0.185357 3:-24777532 MsG0380012801.01.T01:CDS
GCCTCTGGGGTGCCTCTTCT+TGG 0.187436 3:+24777487 None:intergenic
CTGCTGTTTGCTCTGTTGCT+GGG 0.300217 3:-24777531 MsG0380012801.01.T01:CDS
ATTGCTACCCTCCTTGTCAT+TGG 0.354454 3:+24777588 None:intergenic
GTTGGGTTAGTGACACAAAC+AGG 0.359822 3:+24777448 None:intergenic
CTCTGTTGCTGGGGTTGCAA+TGG 0.391387 3:-24777521 MsG0380012801.01.T01:CDS
TACTGATGACCGGTTGGTTA+TGG 0.419612 3:+24777678 None:intergenic
ACCATGACATCCTCAATAGT+TGG 0.463538 3:-24777709 MsG0380012801.01.T01:CDS
GCTAGGATTTGTCGCTATTG+AGG 0.474783 3:-24777424 None:intergenic
GTTTCCCTGCCATAACCAAC+CGG 0.496175 3:-24777687 MsG0380012801.01.T01:CDS
GCTGTGTTGCTACTGATGAC+CGG 0.507748 3:+24777668 None:intergenic
TGCTGTTTGCTCTGTTGCTG+GGG 0.508878 3:-24777530 MsG0380012801.01.T01:CDS
GATGACCGGTTGGTTATGGC+AGG 0.509879 3:+24777682 None:intergenic
TAGCGACAAATCCTAGCAGT+TGG 0.523285 3:+24777430 None:intergenic
AGCGACAAATCCTAGCAGTT+GGG 0.546386 3:+24777431 None:intergenic
AGTGCTGTAAGAGCAGTTGA+AGG 0.554404 3:-24777631 MsG0380012801.01.T01:CDS
GTGTCACTAACCCAACTGCT+AGG 0.567214 3:-24777441 MsG0380012801.01.T01:CDS
AATGACAAGGAGGGTAGCAA+TGG 0.572603 3:-24777586 MsG0380012801.01.T01:CDS
ACCAACTATTGAGGATGTCA+TGG 0.574051 3:+24777708 None:intergenic
GTGCTGTAAGAGCAGTTGAA+GGG 0.585017 3:-24777630 MsG0380012801.01.T01:CDS
TGTTGCTACTGATGACCGGT+TGG 0.591177 3:+24777672 None:intergenic
GGCAGGGAAACCAACTATTG+AGG 0.593922 3:+24777699 None:intergenic
ACAAGGAGGGTAGCAATGGA+AGG 0.594273 3:-24777582 MsG0380012801.01.T01:CDS
TGCTGTAAGAGCAGTTGAAG+GGG 0.596756 3:-24777629 MsG0380012801.01.T01:CDS
AGCAGTTGAAGGGGAAAAGA+CGG 0.619574 3:-24777620 MsG0380012801.01.T01:CDS
GCAGATGATGAACCAAGAAG+AGG 0.660121 3:-24777499 MsG0380012801.01.T01:CDS
ATGACCGGTTGGTTATGGCA+GGG 0.676181 3:+24777683 None:intergenic
TTGGGTTAGTGACACAAACA+GGG 0.691418 3:+24777449 None:intergenic
CAGTTGTACCAATGACAAGG+AGG 0.694597 3:-24777596 MsG0380012801.01.T01:CDS
AGTTGTACCAATGACAAGGA+GGG 0.697533 3:-24777595 MsG0380012801.01.T01:CDS
ACCAAGAAGAGGCACCCCAG+AGG 0.700077 3:-24777488 MsG0380012801.01.T01:CDS
GGTCAGTTGTACCAATGACA+AGG 0.701301 3:-24777599 MsG0380012801.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCAACTATTGAGGATGTCA+TGG + Chr3:24777442-24777461 None:intergenic 40.0%
ACCATGACATCCTCAATAGT+TGG - Chr3:24777438-24777457 MsG0380012801.01.T01:CDS 40.0%
AGTTGTACCAATGACAAGGA+GGG - Chr3:24777552-24777571 MsG0380012801.01.T01:CDS 40.0%
!! TTGGGTTAGTGACACAAACA+GGG + Chr3:24777701-24777720 None:intergenic 40.0%
!!! AACAGGGCCATACTTTTTCT+TGG + Chr3:24777685-24777704 None:intergenic 40.0%
!!! ATACTTTTTCTTGGCCTCTG+GGG + Chr3:24777676-24777695 None:intergenic 40.0%
!!! CATACTTTTTCTTGGCCTCT+GGG + Chr3:24777677-24777696 None:intergenic 40.0%
AATGACAAGGAGGGTAGCAA+TGG - Chr3:24777561-24777580 MsG0380012801.01.T01:CDS 45.0%
AGCAGTTGAAGGGGAAAAGA+CGG - Chr3:24777527-24777546 MsG0380012801.01.T01:CDS 45.0%
AGCGACAAATCCTAGCAGTT+GGG + Chr3:24777719-24777738 None:intergenic 45.0%
AGTGCTGTAAGAGCAGTTGA+AGG - Chr3:24777516-24777535 MsG0380012801.01.T01:CDS 45.0%
ATTGCTACCCTCCTTGTCAT+TGG + Chr3:24777562-24777581 None:intergenic 45.0%
CAGTTGTACCAATGACAAGG+AGG - Chr3:24777551-24777570 MsG0380012801.01.T01:CDS 45.0%
CCAGAGGCCAAGAAAAAGTA+TGG - Chr3:24777675-24777694 MsG0380012801.01.T01:CDS 45.0%
GCAGATGATGAACCAAGAAG+AGG - Chr3:24777648-24777667 MsG0380012801.01.T01:CDS 45.0%
GGTCAGTTGTACCAATGACA+AGG - Chr3:24777548-24777567 MsG0380012801.01.T01:CDS 45.0%
GTGCTGTAAGAGCAGTTGAA+GGG - Chr3:24777517-24777536 MsG0380012801.01.T01:CDS 45.0%
TAGCGACAAATCCTAGCAGT+TGG + Chr3:24777720-24777739 None:intergenic 45.0%
TGCTGTAAGAGCAGTTGAAG+GGG - Chr3:24777518-24777537 MsG0380012801.01.T01:CDS 45.0%
! TACTGATGACCGGTTGGTTA+TGG + Chr3:24777472-24777491 None:intergenic 45.0%
!! GTTGGGTTAGTGACACAAAC+AGG + Chr3:24777702-24777721 None:intergenic 45.0%
!!! CCATACTTTTTCTTGGCCTC+TGG + Chr3:24777678-24777697 None:intergenic 45.0%
ACAAGGAGGGTAGCAATGGA+AGG - Chr3:24777565-24777584 MsG0380012801.01.T01:CDS 50.0%
GGCAGGGAAACCAACTATTG+AGG + Chr3:24777451-24777470 None:intergenic 50.0%
GTTTCCCTGCCATAACCAAC+CGG - Chr3:24777460-24777479 MsG0380012801.01.T01:CDS 50.0%
TGTTGCTACTGATGACCGGT+TGG + Chr3:24777478-24777497 None:intergenic 50.0%
! ATGACCGGTTGGTTATGGCA+GGG + Chr3:24777467-24777486 None:intergenic 50.0%
! CTGCTGTTTGCTCTGTTGCT+GGG - Chr3:24777616-24777635 MsG0380012801.01.T01:CDS 50.0%
! GCTGTGTTGCTACTGATGAC+CGG + Chr3:24777482-24777501 None:intergenic 50.0%
! GTGTCACTAACCCAACTGCT+AGG - Chr3:24777706-24777725 MsG0380012801.01.T01:CDS 50.0%
! TGCTGTTTGCTCTGTTGCTG+GGG - Chr3:24777617-24777636 MsG0380012801.01.T01:CDS 50.0%
CTCTGTTGCTGGGGTTGCAA+TGG - Chr3:24777626-24777645 MsG0380012801.01.T01:CDS 55.0%
! GATGACCGGTTGGTTATGGC+AGG + Chr3:24777468-24777487 None:intergenic 55.0%
! GCTGCTGTTTGCTCTGTTGC+TGG - Chr3:24777615-24777634 MsG0380012801.01.T01:CDS 55.0%
!! ACCAAGAAGAGGCACCCCAG+AGG - Chr3:24777659-24777678 MsG0380012801.01.T01:CDS 60.0%
!! GCCTCTGGGGTGCCTCTTCT+TGG + Chr3:24777663-24777682 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 24777426 24777743 24777426 ID=MsG0380012801.01;Name=MsG0380012801.01
Chr3 mRNA 24777426 24777743 24777426 ID=MsG0380012801.01.T01;Parent=MsG0380012801.01;Name=MsG0380012801.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|105
Chr3 exon 24777426 24777743 24777426 ID=MsG0380012801.01.T01:exon:22436;Parent=MsG0380012801.01.T01
Chr3 CDS 24777426 24777743 24777426 ID=MsG0380012801.01.T01:cds;Parent=MsG0380012801.01.T01
Gene Sequence

>MsG0380012801.01.T01

ATGGCATCAATCACCATGACATCCTCAATAGTTGGTTTCCCTGCCATAACCAACCGGTCATCAGTAGCAACACAGCGAAAATTTGTTGTCAGTGCTGTAAGAGCAGTTGAAGGGGAAAAGACGGTCAGTTGTACCAATGACAAGGAGGGTAGCAATGGAAGGAGAGATTTGATGTTTGCTGCAGCAGCAGCTGCTGTTTGCTCTGTTGCTGGGGTTGCAATGGCAGATGATGAACCAAGAAGAGGCACCCCAGAGGCCAAGAAAAAGTATGGCCCTGTTTGTGTCACTAACCCAACTGCTAGGATTTGTCGCTATTGA

Protein sequence

>MsG0380012801.01.T01

MASITMTSSIVGFPAITNRSSVATQRKFVVSAVRAVEGEKTVSCTNDKEGSNGRRDLMFAAAAAAVCSVAGVAMADDEPRRGTPEAKKKYGPVCVTNPTARICRY*