AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280010449.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 21 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATATTCCCTCCAATGAATT+TGG 0.196935 2:-69818009 MsG0280010449.01.T01:CDS
ACAAACAACACTATGAAATT+AGG 0.279840 2:+69817946 None:intergenic
TGTTCGGAGGAAATCAAATA+AGG 0.337502 2:-69817926 MsG0280010449.01.T01:CDS
AAGAGGCTTCCTGAAAAGTA+TGG 0.354589 2:+69817860 None:intergenic
CTGCATTTCATTAAAGATCA+AGG 0.381460 2:+69817825 None:intergenic
GGTAACATTGTGCATGCTAT+TGG 0.393207 2:+69818077 None:intergenic
ATTTCATAGTGTTGTTTGTT+CGG 0.398308 2:-69817942 MsG0280010449.01.T01:CDS
AACTAAATCACCAAATTCAT+TGG 0.400924 2:+69817999 None:intergenic
TGAAACGGATAGTAAGACTT+TGG 0.491973 2:-69818052 MsG0280010449.01.T01:CDS
GCACAATGTTACCTTTGAAA+CGG 0.499938 2:-69818067 MsG0280010449.01.T01:CDS
TGCATTTCATTAAAGATCAA+GGG 0.508510 2:+69817826 None:intergenic
AATTAGGATTACTATATAAG+AGG 0.515376 2:+69817962 None:intergenic
AGTCTTACTATCCGTTTCAA+AGG 0.532227 2:+69818056 None:intergenic
AGAGGCTTCCTGAAAAGTAT+GGG 0.536340 2:+69817861 None:intergenic
AACGGATAGTAAGACTTTGG+TGG 0.546276 2:-69818049 MsG0280010449.01.T01:CDS
TAAATCACCAAATTCATTGG+AGG 0.553375 2:+69818002 None:intergenic
TCATAGTGTTGTTTGTTCGG+AGG 0.580270 2:-69817939 MsG0280010449.01.T01:CDS
AAATCACCAAATTCATTGGA+GGG 0.593067 2:+69818003 None:intergenic
CAAGGGATACAATGTAGAAG+AGG 0.599731 2:+69817843 None:intergenic
GAGGCTTCCTGAAAAGTATG+GGG 0.613046 2:+69817862 None:intergenic
AGGCTTCCTGAAAAGTATGG+GGG 0.700410 2:+69817863 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAGGATTACTATATAAG+AGG + Chr2:69817950-69817969 None:intergenic 20.0%
! AACTAAATCACCAAATTCAT+TGG + Chr2:69817913-69817932 None:intergenic 25.0%
! ACAAACAACACTATGAAATT+AGG + Chr2:69817966-69817985 None:intergenic 25.0%
! TGCATTTCATTAAAGATCAA+GGG + Chr2:69818086-69818105 None:intergenic 25.0%
!!! ATTTCATAGTGTTGTTTGTT+CGG - Chr2:69817967-69817986 MsG0280010449.01.T01:CDS 25.0%
AAATCACCAAATTCATTGGA+GGG + Chr2:69817909-69817928 None:intergenic 30.0%
AATATTCCCTCCAATGAATT+TGG - Chr2:69817900-69817919 MsG0280010449.01.T01:CDS 30.0%
CTGCATTTCATTAAAGATCA+AGG + Chr2:69818087-69818106 None:intergenic 30.0%
TAAATCACCAAATTCATTGG+AGG + Chr2:69817910-69817929 None:intergenic 30.0%
AGTCTTACTATCCGTTTCAA+AGG + Chr2:69817856-69817875 None:intergenic 35.0%
TGAAACGGATAGTAAGACTT+TGG - Chr2:69817857-69817876 MsG0280010449.01.T01:CDS 35.0%
TGTTCGGAGGAAATCAAATA+AGG - Chr2:69817983-69818002 MsG0280010449.01.T01:CDS 35.0%
! GCACAATGTTACCTTTGAAA+CGG - Chr2:69817842-69817861 MsG0280010449.01.T01:CDS 35.0%
AACGGATAGTAAGACTTTGG+TGG - Chr2:69817860-69817879 MsG0280010449.01.T01:CDS 40.0%
AAGAGGCTTCCTGAAAAGTA+TGG + Chr2:69818052-69818071 None:intergenic 40.0%
CAAGGGATACAATGTAGAAG+AGG + Chr2:69818069-69818088 None:intergenic 40.0%
GGTAACATTGTGCATGCTAT+TGG + Chr2:69817835-69817854 None:intergenic 40.0%
! AGAGGCTTCCTGAAAAGTAT+GGG + Chr2:69818051-69818070 None:intergenic 40.0%
!! TCATAGTGTTGTTTGTTCGG+AGG - Chr2:69817970-69817989 MsG0280010449.01.T01:CDS 40.0%
! AGGCTTCCTGAAAAGTATGG+GGG + Chr2:69818049-69818068 None:intergenic 45.0%
! GAGGCTTCCTGAAAAGTATG+GGG + Chr2:69818050-69818069 None:intergenic 45.0%
! CCTGAAAAGTATGGGGGCTA+GGG + Chr2:69818043-69818062 None:intergenic 50.0%
! TCCTGAAAAGTATGGGGGCT+AGG + Chr2:69818044-69818063 None:intergenic 50.0%
ATGGGGGCTAGGGTGTGATA+AGG + Chr2:69818033-69818052 None:intergenic 55.0%
! CCCTAGCCCCCATACTTTTC+AGG - Chr2:69818040-69818059 MsG0280010449.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 69817822 69818109 69817822 ID=MsG0280010449.01;Name=MsG0280010449.01
Chr2 mRNA 69817822 69818109 69817822 ID=MsG0280010449.01.T01;Parent=MsG0280010449.01;Name=MsG0280010449.01.T01;_AED=0.08;_eAED=0.08;_QI=0|-1|0|1|-1|0|1|0|95
Chr2 exon 69817822 69818109 69817822 ID=MsG0280010449.01.T01:exon:9909;Parent=MsG0280010449.01.T01
Chr2 CDS 69817822 69818109 69817822 ID=MsG0280010449.01.T01:cds;Parent=MsG0280010449.01.T01
Gene Sequence

>MsG0280010449.01.T01

ATGGTAATCTCCAATAGCATGCACAATGTTACCTTTGAAACGGATAGTAAGACTTTGGTGGACGCTCTTTCAGCTTGCAATATTCCCTCCAATGAATTTGGTGATTTAGTTTTTGAATGTAAGAGCCTCTTATATAGTAATCCTAATTTCATAGTGTTGTTTGTTCGGAGGAAATCAAATAAGGTAGCTCATAACATAGCTAGAGCTGCCTTATCACACCCTAGCCCCCATACTTTTCAGGAAGCCTCTTCTACATTGTATCCCTTGATCTTTAATGAAATGCAGTAA
Protein sequence

>MsG0280010449.01.T01

MVISNSMHNVTFETDSKTLVDALSACNIPSNEFGDLVFECKSLLYSNPNFIVLFVRRKSNKVAHNIARAALSHPSPHTFQEASSTLYPLIFNEMQ*