AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580026749.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026749.01.T01 MTR_4g124640 92.975 242 10 1 20 261 1 235 5.49e-167 461
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580026749.01.T01 AT4G33250 75.221 226 51 2 36 261 6 226 3.65e-125 355

Find 57 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGGATCATTAAATTCATTTC+TGG 0.142858 5:-43574101 None:intergenic
GCACAGTTCTAGTAATATTT+TGG 0.186846 5:-43573961 None:intergenic
TTATCATCACATTGAAAATT+AGG 0.220004 5:-43573431 None:intergenic
CTGGAAGGTTTCGTCAGTTC+TGG 0.234923 5:+43573843 MsG0580026749.01.T01:CDS
CACATTGAAAATTAGGAATA+TGG 0.260139 5:-43573424 None:intergenic
TCGAGATCTGGAAGAATATC+AGG 0.283637 5:-43573578 None:intergenic
TCCTCCATTTGCACACGTTC+CGG 0.335385 5:-43573779 None:intergenic
GGATCATTAAATTCATTTCT+GGG 0.389991 5:-43574100 None:intergenic
TGATAACTTGATTTCGATCA+TGG 0.396588 5:+43573448 MsG0580026749.01.T01:CDS
TGGATTGCCTGCTCAAATCC+TGG 0.411523 5:-43573905 None:intergenic
AGTTGGCTACTTGGTGTTCA+AGG 0.416300 5:-43574027 None:intergenic
CGTTGCTCGCATATTGGTTA+AGG 0.419052 5:+43573706 MsG0580026749.01.T01:CDS
GCTGAGGCTATCAATGTAGA+AGG 0.426504 5:+43573986 MsG0580026749.01.T01:CDS
AAGAGACACAGGCTGAAGTC+TGG 0.427245 5:-43573749 None:intergenic
CGAAAATTATGTCAATGATC+AGG 0.427681 5:+43573598 MsG0580026749.01.T01:CDS
CATATAGTTGAAGCCGTGCC+AGG 0.433378 5:+43573887 MsG0580026749.01.T01:CDS
CCCAACCAGAGTTGGCTACT+TGG 0.435040 5:-43574036 None:intergenic
TGGAAGGTTTCGTCAGTTCT+GGG 0.441956 5:+43573844 MsG0580026749.01.T01:CDS
ATAGAAAATCAGCTAAGAAT+AGG 0.455595 5:-43574181 None:intergenic
GATTCCGGAACGTGTGCAAA+TGG 0.456092 5:+43573775 MsG0580026749.01.T01:CDS
CTCAATAACCCAACCAGAGT+TGG 0.468021 5:-43574044 None:intergenic
TCAGATCGTTGCTCGCATAT+TGG 0.484728 5:+43573700 MsG0580026749.01.T01:CDS
CTGTCTCACTATTTAGAGAC+TGG 0.488200 5:+43573824 MsG0580026749.01.T01:CDS
CAATGTAGAAGGTTTATCCT+TGG 0.488911 5:+43573997 MsG0580026749.01.T01:CDS
TCCTTGCTGTTGTACTTGTA+CGG 0.492803 5:-43573501 None:intergenic
TCTCAGGTTCAAACTGGTAG+AGG 0.496339 5:-43573667 None:intergenic
CACTGCAGATAGTGTACCAT+TGG 0.497181 5:+43574138 MsG0580026749.01.T01:CDS
CATTAAATTCATTTCTGGGA+AGG 0.506668 5:-43574096 None:intergenic
GAACATGAATCGCATAGCCT+TGG 0.508528 5:-43573925 None:intergenic
CCAAGTAGCCAACTCTGGTT+GGG 0.517284 5:+43574036 MsG0580026749.01.T01:CDS
ACAAGTACAACAGCAAGGAC+AGG 0.520513 5:+43573505 MsG0580026749.01.T01:CDS
CAAACTGGTAGAGGCGAAGA+AGG 0.520837 5:-43573658 None:intergenic
CTCACTATTTAGAGACTGGA+AGG 0.523087 5:+43573828 MsG0580026749.01.T01:CDS
GAAGGCAGAGATTTGATTCG+AGG 0.526051 5:-43573640 None:intergenic
CATATTGGTTAAGGCCCTCA+TGG 0.529992 5:+43573715 MsG0580026749.01.T01:CDS
CACAGGCTGAAGTCTGGAGC+TGG 0.532716 5:-43573743 None:intergenic
ACCAAGTAGCCAACTCTGGT+TGG 0.542756 5:+43574035 MsG0580026749.01.T01:CDS
AGCCGTGCCAGGATTTGAGC+AGG 0.543997 5:+43573898 MsG0580026749.01.T01:CDS
TGGGTTATTGAGAAAAGCCA+TGG 0.552914 5:+43574055 MsG0580026749.01.T01:CDS
CGATGAGTTGACCCTTCCCA+TGG 0.561563 5:-43574072 None:intergenic
GGATTTGAGCAGGCAATCCA+AGG 0.567214 5:+43573908 MsG0580026749.01.T01:CDS
TGGAGCTGGCATAGCCATGA+GGG 0.570416 5:-43573729 None:intergenic
GTGTTCAAGGAATTTGTCCA+AGG 0.573518 5:-43574014 None:intergenic
GAACACCAAGTAGCCAACTC+TGG 0.578457 5:+43574031 MsG0580026749.01.T01:CDS
ATGCGTCTAATGTGCTCCAA+TGG 0.595546 5:-43574154 None:intergenic
TATTGAGAAAAGCCATGGGA+AGG 0.595576 5:+43574060 MsG0580026749.01.T01:CDS
GATAACTTGATTTCGATCAT+GGG 0.598344 5:+43573449 MsG0580026749.01.T01:CDS
TACTAGAACTGTGCTTGCTG+AGG 0.616507 5:+43573970 MsG0580026749.01.T01:CDS
ATTGAGAAAAGCCATGGGAA+GGG 0.616926 5:+43574061 MsG0580026749.01.T01:CDS
CAAGTACAACAGCAAGGACA+GGG 0.623697 5:+43573506 MsG0580026749.01.T01:CDS
TGCCTGCTCAAATCCTGGCA+CGG 0.624671 5:-43573900 None:intergenic
TCCGGAACGTGTGCAAATGG+AGG 0.627671 5:+43573778 MsG0580026749.01.T01:CDS
AAGCTGTTCGACAGTGTAAG+CGG 0.629108 5:-43573534 None:intergenic
CTGGAGCTGGCATAGCCATG+AGG 0.661849 5:-43573730 None:intergenic
GGGTTATTGAGAAAAGCCAT+GGG 0.665510 5:+43574056 MsG0580026749.01.T01:CDS
GCCGTACAAGTACAACAGCA+AGG 0.674180 5:+43573500 MsG0580026749.01.T01:CDS
GTACAACAGCAAGGACAGGG+AGG 0.722492 5:+43573509 MsG0580026749.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TTATCATCACATTGAAAATT+AGG - Chr5:43573434-43573453 None:intergenic 20.0%
! CACATTGAAAATTAGGAATA+TGG - Chr5:43573427-43573446 None:intergenic 25.0%
! GGATCATTAAATTCATTTCT+GGG - Chr5:43574103-43574122 None:intergenic 25.0%
! TGGATCATTAAATTCATTTC+TGG - Chr5:43574104-43574123 None:intergenic 25.0%
!!! AGTAATATTTTGGTAAGTCA+AGG - Chr5:43573954-43573973 None:intergenic 25.0%
CGAAAATTATGTCAATGATC+AGG + Chr5:43573598-43573617 MsG0580026749.01.T01:CDS 30.0%
GATAACTTGATTTCGATCAT+GGG + Chr5:43573449-43573468 MsG0580026749.01.T01:CDS 30.0%
TGATAACTTGATTTCGATCA+TGG + Chr5:43573448-43573467 MsG0580026749.01.T01:CDS 30.0%
! CATTAAATTCATTTCTGGGA+AGG - Chr5:43574099-43574118 None:intergenic 30.0%
! GCAGTGTTTTTCTTCAAAAT+TGG - Chr5:43574124-43574143 None:intergenic 30.0%
!! GCACAGTTCTAGTAATATTT+TGG - Chr5:43573964-43573983 None:intergenic 30.0%
!! TTGACATAATTTTCGAGATC+TGG - Chr5:43573593-43573612 None:intergenic 30.0%
CAATGTAGAAGGTTTATCCT+TGG + Chr5:43573997-43574016 MsG0580026749.01.T01:CDS 35.0%
! ATCTGAGAACTCATTTTCTC+AGG - Chr5:43573686-43573705 None:intergenic 35.0%
! TCATTTTCTCAGGTTCAAAC+TGG - Chr5:43573676-43573695 None:intergenic 35.0%
ATTGAGAAAAGCCATGGGAA+GGG + Chr5:43574061-43574080 MsG0580026749.01.T01:CDS 40.0%
CTCACTATTTAGAGACTGGA+AGG + Chr5:43573828-43573847 MsG0580026749.01.T01:CDS 40.0%
CTGTCTCACTATTTAGAGAC+TGG + Chr5:43573824-43573843 MsG0580026749.01.T01:CDS 40.0%
GGGTTATTGAGAAAAGCCAT+GGG + Chr5:43574056-43574075 MsG0580026749.01.T01:CDS 40.0%
GTGTTCAAGGAATTTGTCCA+AGG - Chr5:43574017-43574036 None:intergenic 40.0%
TATTGAGAAAAGCCATGGGA+AGG + Chr5:43574060-43574079 MsG0580026749.01.T01:CDS 40.0%
TCGAGATCTGGAAGAATATC+AGG - Chr5:43573581-43573600 None:intergenic 40.0%
TGGGTTATTGAGAAAAGCCA+TGG + Chr5:43574055-43574074 MsG0580026749.01.T01:CDS 40.0%
!! CCTGTGTCTCTTTTTGATTC+CGG + Chr5:43573760-43573779 MsG0580026749.01.T01:CDS 40.0%
!! TCCTTGCTGTTGTACTTGTA+CGG - Chr5:43573504-43573523 None:intergenic 40.0%
AAGCTGTTCGACAGTGTAAG+CGG - Chr5:43573537-43573556 None:intergenic 45.0%
ACAAGTACAACAGCAAGGAC+AGG + Chr5:43573505-43573524 MsG0580026749.01.T01:CDS 45.0%
ATGCGTCTAATGTGCTCCAA+TGG - Chr5:43574157-43574176 None:intergenic 45.0%
CAAGTACAACAGCAAGGACA+GGG + Chr5:43573506-43573525 MsG0580026749.01.T01:CDS 45.0%
CACTGCAGATAGTGTACCAT+TGG + Chr5:43574138-43574157 MsG0580026749.01.T01:CDS 45.0%
CCGGAATCAAAAAGAGACAC+AGG - Chr5:43573763-43573782 None:intergenic 45.0%
CTCAATAACCCAACCAGAGT+TGG - Chr5:43574047-43574066 None:intergenic 45.0%
GAACATGAATCGCATAGCCT+TGG - Chr5:43573928-43573947 None:intergenic 45.0%
GCTGAGGCTATCAATGTAGA+AGG + Chr5:43573986-43574005 MsG0580026749.01.T01:CDS 45.0%
TCAGATCGTTGCTCGCATAT+TGG + Chr5:43573700-43573719 MsG0580026749.01.T01:CDS 45.0%
TCTCAGGTTCAAACTGGTAG+AGG - Chr5:43573670-43573689 None:intergenic 45.0%
TGGAAGGTTTCGTCAGTTCT+GGG + Chr5:43573844-43573863 MsG0580026749.01.T01:CDS 45.0%
! CATATTGGTTAAGGCCCTCA+TGG + Chr5:43573715-43573734 MsG0580026749.01.T01:CDS 45.0%
! CGTTGCTCGCATATTGGTTA+AGG + Chr5:43573706-43573725 MsG0580026749.01.T01:CDS 45.0%
! GAAGGCAGAGATTTGATTCG+AGG - Chr5:43573643-43573662 None:intergenic 45.0%
! TACTAGAACTGTGCTTGCTG+AGG + Chr5:43573970-43573989 MsG0580026749.01.T01:CDS 45.0%
!! AGTTGGCTACTTGGTGTTCA+AGG - Chr5:43574030-43574049 None:intergenic 45.0%
AAGAGACACAGGCTGAAGTC+TGG - Chr5:43573752-43573771 None:intergenic 50.0%
ACCAAGTAGCCAACTCTGGT+TGG + Chr5:43574035-43574054 MsG0580026749.01.T01:CDS 50.0%
CAAACTGGTAGAGGCGAAGA+AGG - Chr5:43573661-43573680 None:intergenic 50.0%
CATATAGTTGAAGCCGTGCC+AGG + Chr5:43573887-43573906 MsG0580026749.01.T01:CDS 50.0%
CCAAGTAGCCAACTCTGGTT+GGG + Chr5:43574036-43574055 MsG0580026749.01.T01:CDS 50.0%
CTGGAAGGTTTCGTCAGTTC+TGG + Chr5:43573843-43573862 MsG0580026749.01.T01:CDS 50.0%
GAACACCAAGTAGCCAACTC+TGG + Chr5:43574031-43574050 MsG0580026749.01.T01:CDS 50.0%
GATTCCGGAACGTGTGCAAA+TGG + Chr5:43573775-43573794 MsG0580026749.01.T01:CDS 50.0%
GCCGTACAAGTACAACAGCA+AGG + Chr5:43573500-43573519 MsG0580026749.01.T01:CDS 50.0%
GGATTTGAGCAGGCAATCCA+AGG + Chr5:43573908-43573927 MsG0580026749.01.T01:CDS 50.0%
TCCTCCATTTGCACACGTTC+CGG - Chr5:43573782-43573801 None:intergenic 50.0%
TGGATTGCCTGCTCAAATCC+TGG - Chr5:43573908-43573927 None:intergenic 50.0%
CCCAACCAGAGTTGGCTACT+TGG - Chr5:43574039-43574058 None:intergenic 55.0%
GTACAACAGCAAGGACAGGG+AGG + Chr5:43573509-43573528 MsG0580026749.01.T01:CDS 55.0%
TCCGGAACGTGTGCAAATGG+AGG + Chr5:43573778-43573797 MsG0580026749.01.T01:CDS 55.0%
TGCCTGCTCAAATCCTGGCA+CGG - Chr5:43573903-43573922 None:intergenic 55.0%
TGGAGCTGGCATAGCCATGA+GGG - Chr5:43573732-43573751 None:intergenic 55.0%
! CGATGAGTTGACCCTTCCCA+TGG - Chr5:43574075-43574094 None:intergenic 55.0%
AGCCGTGCCAGGATTTGAGC+AGG + Chr5:43573898-43573917 MsG0580026749.01.T01:CDS 60.0%
CTGGAGCTGGCATAGCCATG+AGG - Chr5:43573733-43573752 None:intergenic 60.0%
! CACAGGCTGAAGTCTGGAGC+TGG - Chr5:43573746-43573765 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr5 gene 43573410 43574195 43573410 ID=MsG0580026749.01;Name=MsG0580026749.01
Chr5 mRNA 43573410 43574195 43573410 ID=MsG0580026749.01.T01;Parent=MsG0580026749.01;Name=MsG0580026749.01.T01;_AED=0.11;_eAED=0.11;_QI=0|-1|0|1|-1|1|1|0|261
Chr5 exon 43573410 43574195 43573410 ID=MsG0580026749.01.T01:exon:13649;Parent=MsG0580026749.01.T01
Chr5 CDS 43573410 43574195 43573410 ID=MsG0580026749.01.T01:cds;Parent=MsG0580026749.01.T01
Gene Sequence

>MsG0580026749.01.T01

ATGTTGCAAAACATCCATATTCCTAATTTTCAATGTGATGATAACTTGATTTCGATCATGGGAAGAGAAGCAGCAGCTGCAGCAGCAGCAGCCGTACAAGTACAACAGCAAGGACAGGGAGGAACCGCTTACACTGTCGAACAGCTTGTTGCATTCAATCGTTACAATCCTGATATTCTTCCAGATCTCGAAAATTATGTCAATGATCAGGTTTCATCGCAAACTTACAGCCTCGAATCAAATCTCTGCCTTCTTCGCCTCTACCAGTTTGAACCTGAGAAAATGAGTTCTCAGATCGTTGCTCGCATATTGGTTAAGGCCCTCATGGCTATGCCAGCTCCAGACTTCAGCCTGTGTCTCTTTTTGATTCCGGAACGTGTGCAAATGGAGGAGCAGTTCAAGACTCTGATTGTTCTGTCTCACTATTTAGAGACTGGAAGGTTTCGTCAGTTCTGGGATGAATCATCGAAAAGTCGTCATATAGTTGAAGCCGTGCCAGGATTTGAGCAGGCAATCCAAGGCTATGCGATTCATGTTCTATCCTTGACTTACCAAAATATTACTAGAACTGTGCTTGCTGAGGCTATCAATGTAGAAGGTTTATCCTTGGACAAATTCCTTGAACACCAAGTAGCCAACTCTGGTTGGGTTATTGAGAAAAGCCATGGGAAGGGTCAACTCATCGTCCTTCCCAGAAATGAATTTAATGATCCAATTTTGAAGAAAAACACTGCAGATAGTGTACCATTGGAGCACATTAGACGCATCTTTCCTATTCTTAGCTGA

Protein sequence

>MsG0580026749.01.T01

MLQNIHIPNFQCDDNLISIMGREAAAAAAAAVQVQQQGQGGTAYTVEQLVAFNRYNPDILPDLENYVNDQVSSQTYSLESNLCLLRLYQFEPEKMSSQIVARILVKALMAMPAPDFSLCLFLIPERVQMEEQFKTLIVLSHYLETGRFRQFWDESSKSRHIVEAVPGFEQAIQGYAIHVLSLTYQNITRTVLAEAINVEGLSLDKFLEHQVANSGWVIEKSHGKGQLIVLPRNEFNDPILKKNTADSVPLEHIRRIFPILS*