AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031646.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031646.01.T01 MTR_6g027760 97.059 68 2 0 1 68 815 882 2.73e-40 139
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 20 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCACGACCATCACAATTC+TGG 0.264551 6:+23886620 None:intergenic
CGTGCAGCATTTCCTGCTTC+CGG 0.299177 6:-23886505 MsG0680031646.01.T01:CDS
CTACCTTGTTGAAATTGTTT+AGG 0.309737 6:+23886532 None:intergenic
GCAATGAACCATGTGAAGTT+TGG 0.359777 6:-23886667 MsG0680031646.01.T01:CDS
AACAATTTCAACAAGGTAGA+AGG 0.361242 6:-23886528 MsG0680031646.01.T01:CDS
GTGCAGCATTTCCTGCTTCC+GGG 0.362027 6:-23886504 MsG0680031646.01.T01:CDS
GAATGTTGCACTGCGATTCC+CGG 0.399481 6:+23886486 None:intergenic
AGCACGACCATCACAATTCT+GGG 0.470356 6:+23886621 None:intergenic
GCACTGCGATTCCCGGAAGC+AGG 0.521367 6:+23886493 None:intergenic
CCATCACAATTCTGGGAGGA+TGG 0.533429 6:+23886628 None:intergenic
AAGAAGAAGCGTTCAACGAT+AGG 0.546184 6:-23886577 MsG0680031646.01.T01:CDS
AATTGTTTAGGCAAATCACT+TGG 0.551556 6:+23886544 None:intergenic
CCATCCTCCCAGAATTGTGA+TGG 0.600937 6:-23886628 MsG0680031646.01.T01:CDS
TGATGGTCGTGCTGAGAAAG+AGG 0.621332 6:-23886611 MsG0680031646.01.T01:CDS
AAGCGTTCAACGATAGGAGA+GGG 0.625904 6:-23886571 MsG0680031646.01.T01:CDS
GAAGCGTTCAACGATAGGAG+AGG 0.642542 6:-23886572 MsG0680031646.01.T01:CDS
GCTGAGAAAGAGGACGCAGG+TGG 0.677640 6:-23886601 MsG0680031646.01.T01:CDS
CGTGCTGAGAAAGAGGACGC+AGG 0.681833 6:-23886604 MsG0680031646.01.T01:CDS
TTGCCTAAACAATTTCAACA+AGG 0.687999 6:-23886535 MsG0680031646.01.T01:CDS
ACGACCATCACAATTCTGGG+AGG 0.760116 6:+23886624 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACAATTTCAACAAGGTAGA+AGG - Chr6:23886616-23886635 MsG0680031646.01.T01:CDS 30.0%
AATTGTTTAGGCAAATCACT+TGG + Chr6:23886603-23886622 None:intergenic 30.0%
CTACCTTGTTGAAATTGTTT+AGG + Chr6:23886615-23886634 None:intergenic 30.0%
TTGCCTAAACAATTTCAACA+AGG - Chr6:23886609-23886628 MsG0680031646.01.T01:CDS 30.0%
!!! TTTTTTCTCCAAACTTCACA+TGG + Chr6:23886488-23886507 None:intergenic 30.0%
!! AAGAAGAAGCGTTCAACGAT+AGG - Chr6:23886567-23886586 MsG0680031646.01.T01:CDS 40.0%
AAGCGTTCAACGATAGGAGA+GGG - Chr6:23886573-23886592 MsG0680031646.01.T01:CDS 45.0%
AGCACGACCATCACAATTCT+GGG + Chr6:23886526-23886545 None:intergenic 45.0%
ACGACCATCACAATTCTGGG+AGG + Chr6:23886523-23886542 None:intergenic 50.0%
CAGCACGACCATCACAATTC+TGG + Chr6:23886527-23886546 None:intergenic 50.0%
CCATCCTCCCAGAATTGTGA+TGG - Chr6:23886516-23886535 MsG0680031646.01.T01:CDS 50.0%
GAATGTTGCACTGCGATTCC+CGG + Chr6:23886661-23886680 None:intergenic 50.0%
TGATGGTCGTGCTGAGAAAG+AGG - Chr6:23886533-23886552 MsG0680031646.01.T01:CDS 50.0%
! CCATCACAATTCTGGGAGGA+TGG + Chr6:23886519-23886538 None:intergenic 50.0%
! GAAGCGTTCAACGATAGGAG+AGG - Chr6:23886572-23886591 MsG0680031646.01.T01:CDS 50.0%
CGTGCAGCATTTCCTGCTTC+CGG - Chr6:23886639-23886658 MsG0680031646.01.T01:CDS 55.0%
GTGCAGCATTTCCTGCTTCC+GGG - Chr6:23886640-23886659 MsG0680031646.01.T01:CDS 55.0%
CGTGCTGAGAAAGAGGACGC+AGG - Chr6:23886540-23886559 MsG0680031646.01.T01:CDS 60.0%
GCTGAGAAAGAGGACGCAGG+TGG - Chr6:23886543-23886562 MsG0680031646.01.T01:CDS 60.0%
GCACTGCGATTCCCGGAAGC+AGG + Chr6:23886654-23886673 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr6 gene 23886480 23886686 23886480 ID=MsG0680031646.01;Name=MsG0680031646.01
Chr6 mRNA 23886480 23886686 23886480 ID=MsG0680031646.01.T01;Parent=MsG0680031646.01;Name=MsG0680031646.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|68
Chr6 exon 23886480 23886686 23886480 ID=MsG0680031646.01.T01:exon:14800;Parent=MsG0680031646.01.T01
Chr6 CDS 23886480 23886686 23886480 ID=MsG0680031646.01.T01:cds;Parent=MsG0680031646.01.T01
Gene Sequence

>MsG0680031646.01.T01

ATGAACCATGTGAAGTTTGGAGAAAAAAAGAAGAATCCATCCTCCCAGAATTGTGATGGTCGTGCTGAGAAAGAGGACGCAGGTGGCAAGAAGAAGCGTTCAACGATAGGAGAGGGACAACCAAGTGATTTGCCTAAACAATTTCAACAAGGTAGAAGGCGTGCAGCATTTCCTGCTTCCGGGAATCGCAGTGCAACATTCCGCTGA

Protein sequence

>MsG0680031646.01.T01

MNHVKFGEKKKNPSSQNCDGRAEKEDAGGKKKRSTIGEGQPSDLPKQFQQGRRRAAFPASGNRSATFR*