AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017895.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017895.01.T01 MTR_3g114850 98.802 167 2 0 1 167 1 167 4.05e-118 331
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017895.01.T01 AT1G20340 65.868 167 57 0 1 167 1 167 7.77e-73 216
MsG0380017895.01.T01 AT1G76100 64.327 171 57 2 1 167 1 171 1.33e-72 216
MsG0380017895.01.T01 AT1G76100 64.327 171 57 2 1 167 37 207 2.55e-72 216

Find 50 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTTCAGGCATGGAAATTT+TGG 0.145348 3:+101960036 None:intergenic
CTTTGCTTGCGTTTGCCTTA+AGG 0.331286 3:+101960350 None:intergenic
GCGTTCACTGTGAAATTGTT+TGG 0.355945 3:+101960148 None:intergenic
TCCATCATTCACAGGCCTTA+AGG 0.363430 3:-101960365 MsG0380017895.01.T01:CDS
CTTGCAGTTGAAGTGTTGCT+TGG 0.408427 3:-101960199 MsG0380017895.01.T01:CDS
CAGCAACTCCAAAGTCTTTG+AGG 0.421507 3:+101960263 None:intergenic
AGAGCTTCCCTCAAAGACTT+TGG 0.423979 3:-101960271 MsG0380017895.01.T01:CDS
GCATTGAGAAGATCTTCTTC+AGG 0.435974 3:+101960022 None:intergenic
GAAGATCTTCTCAATGCTCC+TGG 0.437678 3:-101960016 MsG0380017895.01.T01:CDS
CAGCGTTACTTTGGATGCTA+AGG 0.446131 3:-101959984 MsG0380017895.01.T01:CDS
GGCAATTGAGAAGTTGAAGT+TGG 0.447601 3:+101960307 None:intergenic
AGGTGAACAGTAGAATTTGT+AGG 0.459706 3:+101959958 None:intergenic
GGAGACTTACAGCGTTACTT+TGG 0.478413 3:-101959993 MsG0380017895.01.T01:CDS
TGTTGCTTGGTGCTAGTGAT+GGG 0.479693 3:-101960186 MsG0380017895.01.T01:CDS
GTGTTGCTTGGTGCTAGTGA+TGG 0.482949 3:-101960187 MsG0380017895.01.T01:CDS
ACCTCACGCAGGAGCTGGTA+TGG 0.490163 3:-101959939 MsG0380017895.01.T01:CDS
GCCTTAAGGCCTGTGAATGA+TGG 0.494140 3:+101960364 None:intergenic
ATTACATTCAAGAACAATGC+TGG 0.496557 3:-101960115 MsG0380017895.01.T01:CDS
AGCATTGTTCTTGAATGTAA+TGG 0.506572 3:+101960117 None:intergenic
AAGATCTTCTCAATGCTCCT+GGG 0.518214 3:-101960015 MsG0380017895.01.T01:CDS
AGCAACTCCAAAGTCTTTGA+GGG 0.521503 3:+101960264 None:intergenic
CTTCAACTTCTCAATTGCCA+AGG 0.523550 3:-101960303 MsG0380017895.01.T01:CDS
TGTTCACCTCACGCAGGAGC+TGG 0.531287 3:-101959944 MsG0380017895.01.T01:CDS
TTGGCTGCATCAACCCCGCT+TGG 0.532446 3:+101960055 None:intergenic
TCATCGAAGATAACGTTATG+AGG 0.532941 3:+101960088 None:intergenic
GAGAAGATCTTCTTCAGGCA+TGG 0.537563 3:+101960027 None:intergenic
CACGCAGGAGCTGGTATGGT+TGG 0.542139 3:-101959935 MsG0380017895.01.T01:CDS
AACAATTTCACAGTGAACGC+TGG 0.547209 3:-101960145 MsG0380017895.01.T01:CDS
TAACAATGCACTTGCAGCAG+TGG 0.551331 3:+101960234 None:intergenic
AGCAACGGTGGTGGAAGTAA+CGG 0.554653 3:+101960390 None:intergenic
CAAAGTTAATGCCATAGCTA+AGG 0.556491 3:-101960332 MsG0380017895.01.T01:CDS
GAAGCTCTGACACAAAGCCT+TGG 0.567176 3:+101960286 None:intergenic
GTTGCTATTCCATCATTCAC+AGG 0.569968 3:-101960373 MsG0380017895.01.T01:CDS
TGAAGTTGGAACCTTAGCTA+TGG 0.578592 3:+101960321 None:intergenic
GTTGCTTGGTGCTAGTGATG+GGG 0.579404 3:-101960185 MsG0380017895.01.T01:CDS
AGCGTTACTTTGGATGCTAA+GGG 0.580511 3:-101959983 MsG0380017895.01.T01:CDS
GTAACGCTGTAAGTCTCCCC+AGG 0.594723 3:+101959998 None:intergenic
TGATGGAATAGCAACGGTGG+TGG 0.597217 3:+101960381 None:intergenic
CAAGCAACACTTCAACTGCA+AGG 0.598151 3:+101960200 None:intergenic
TTGCTTGGTGCTAGTGATGG+GGG 0.603056 3:-101960184 MsG0380017895.01.T01:CDS
ATGAAGACGAGATTCCAAGC+GGG 0.608107 3:-101960069 MsG0380017895.01.T01:CDS
AAGCAACACTTCAACTGCAA+GGG 0.614894 3:+101960201 None:intergenic
ACCATACCAGCTCCTGCGTG+AGG 0.641555 3:+101959938 None:intergenic
TGAAGACGAGATTCCAAGCG+GGG 0.662660 3:-101960068 MsG0380017895.01.T01:CDS
AGATCTTCTCAATGCTCCTG+GGG 0.672138 3:-101960014 MsG0380017895.01.T01:CDS
AACGGTGGTGGAAGTAACGG+TGG 0.682356 3:+101960393 None:intergenic
TTCTACTGTTCACCTCACGC+AGG 0.697342 3:-101959950 MsG0380017895.01.T01:CDS
TGTGAATGATGGAATAGCAA+CGG 0.697370 3:+101960375 None:intergenic
GATGAAGACGAGATTCCAAG+CGG 0.752965 3:-101960070 MsG0380017895.01.T01:CDS
GAATGATGGAATAGCAACGG+TGG 0.782143 3:+101960378 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGCATTGTTCTTGAATGTAA+TGG + Chr3:101960199-101960218 None:intergenic 30.0%
ATTACATTCAAGAACAATGC+TGG - Chr3:101960198-101960217 MsG0380017895.01.T01:CDS 30.0%
AGGTGAACAGTAGAATTTGT+AGG + Chr3:101960358-101960377 None:intergenic 35.0%
CAAAGTTAATGCCATAGCTA+AGG - Chr3:101959981-101960000 MsG0380017895.01.T01:CDS 35.0%
TCATCGAAGATAACGTTATG+AGG + Chr3:101960228-101960247 None:intergenic 35.0%
! TGTGAATGATGGAATAGCAA+CGG + Chr3:101959941-101959960 None:intergenic 35.0%
! TTCTTCAGGCATGGAAATTT+TGG + Chr3:101960280-101960299 None:intergenic 35.0%
AACAATTTCACAGTGAACGC+TGG - Chr3:101960168-101960187 MsG0380017895.01.T01:CDS 40.0%
AAGATCTTCTCAATGCTCCT+GGG - Chr3:101960298-101960317 MsG0380017895.01.T01:CDS 40.0%
AAGCAACACTTCAACTGCAA+GGG + Chr3:101960115-101960134 None:intergenic 40.0%
AGCAACTCCAAAGTCTTTGA+GGG + Chr3:101960052-101960071 None:intergenic 40.0%
CTTCAACTTCTCAATTGCCA+AGG - Chr3:101960010-101960029 MsG0380017895.01.T01:CDS 40.0%
GCATTGAGAAGATCTTCTTC+AGG + Chr3:101960294-101960313 None:intergenic 40.0%
GCGTTCACTGTGAAATTGTT+TGG + Chr3:101960168-101960187 None:intergenic 40.0%
GGCAATTGAGAAGTTGAAGT+TGG + Chr3:101960009-101960028 None:intergenic 40.0%
TGAAGTTGGAACCTTAGCTA+TGG + Chr3:101959995-101960014 None:intergenic 40.0%
! AGCGTTACTTTGGATGCTAA+GGG - Chr3:101960330-101960349 MsG0380017895.01.T01:CDS 40.0%
! GTTGCTATTCCATCATTCAC+AGG - Chr3:101959940-101959959 MsG0380017895.01.T01:CDS 40.0%
AGAGCTTCCCTCAAAGACTT+TGG - Chr3:101960042-101960061 MsG0380017895.01.T01:CDS 45.0%
AGATCTTCTCAATGCTCCTG+GGG - Chr3:101960299-101960318 MsG0380017895.01.T01:CDS 45.0%
ATGAAGACGAGATTCCAAGC+GGG - Chr3:101960244-101960263 MsG0380017895.01.T01:CDS 45.0%
CAAGCAACACTTCAACTGCA+AGG + Chr3:101960116-101960135 None:intergenic 45.0%
CAGCAACTCCAAAGTCTTTG+AGG + Chr3:101960053-101960072 None:intergenic 45.0%
CTTTGCTTGCGTTTGCCTTA+AGG + Chr3:101959966-101959985 None:intergenic 45.0%
GAAGATCTTCTCAATGCTCC+TGG - Chr3:101960297-101960316 MsG0380017895.01.T01:CDS 45.0%
GAGAAGATCTTCTTCAGGCA+TGG + Chr3:101960289-101960308 None:intergenic 45.0%
GATGAAGACGAGATTCCAAG+CGG - Chr3:101960243-101960262 MsG0380017895.01.T01:CDS 45.0%
GGAGACTTACAGCGTTACTT+TGG - Chr3:101960320-101960339 MsG0380017895.01.T01:CDS 45.0%
TAACAATGCACTTGCAGCAG+TGG + Chr3:101960082-101960101 None:intergenic 45.0%
TCCATCATTCACAGGCCTTA+AGG - Chr3:101959948-101959967 MsG0380017895.01.T01:CDS 45.0%
! CAGCGTTACTTTGGATGCTA+AGG - Chr3:101960329-101960348 MsG0380017895.01.T01:CDS 45.0%
! GAATGATGGAATAGCAACGG+TGG + Chr3:101959938-101959957 None:intergenic 45.0%
!! CTTGCAGTTGAAGTGTTGCT+TGG - Chr3:101960114-101960133 MsG0380017895.01.T01:CDS 45.0%
!! TGTTGCTTGGTGCTAGTGAT+GGG - Chr3:101960127-101960146 MsG0380017895.01.T01:CDS 45.0%
GCCTTAAGGCCTGTGAATGA+TGG + Chr3:101959952-101959971 None:intergenic 50.0%
TGAAGACGAGATTCCAAGCG+GGG - Chr3:101960245-101960264 MsG0380017895.01.T01:CDS 50.0%
TGATGGAATAGCAACGGTGG+TGG + Chr3:101959935-101959954 None:intergenic 50.0%
TTCTACTGTTCACCTCACGC+AGG - Chr3:101960363-101960382 MsG0380017895.01.T01:CDS 50.0%
! GAAGCTCTGACACAAAGCCT+TGG + Chr3:101960030-101960049 None:intergenic 50.0%
!! AGCAACGGTGGTGGAAGTAA+CGG + Chr3:101959926-101959945 None:intergenic 50.0%
!! GTGTTGCTTGGTGCTAGTGA+TGG - Chr3:101960126-101960145 MsG0380017895.01.T01:CDS 50.0%
!! GTTGCTTGGTGCTAGTGATG+GGG - Chr3:101960128-101960147 MsG0380017895.01.T01:CDS 50.0%
!! TTGCTTGGTGCTAGTGATGG+GGG - Chr3:101960129-101960148 MsG0380017895.01.T01:CDS 50.0%
GTAACGCTGTAAGTCTCCCC+AGG + Chr3:101960318-101960337 None:intergenic 55.0%
! TGGTGCTAGTGATGGGGGTT+TGG - Chr3:101960134-101960153 MsG0380017895.01.T01:CDS 55.0%
!! AACGGTGGTGGAAGTAACGG+TGG + Chr3:101959923-101959942 None:intergenic 55.0%
ACCATACCAGCTCCTGCGTG+AGG + Chr3:101960378-101960397 None:intergenic 60.0%
ACCTCACGCAGGAGCTGGTA+TGG - Chr3:101960374-101960393 MsG0380017895.01.T01:CDS 60.0%
CACGCAGGAGCTGGTATGGT+TGG - Chr3:101960378-101960397 MsG0380017895.01.T01:CDS 60.0%
TGTTCACCTCACGCAGGAGC+TGG - Chr3:101960369-101960388 MsG0380017895.01.T01:CDS 60.0%
TTGGCTGCATCAACCCCGCT+TGG + Chr3:101960261-101960280 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr3 gene 101959916 101960419 101959916 ID=MsG0380017895.01;Name=MsG0380017895.01
Chr3 mRNA 101959916 101960419 101959916 ID=MsG0380017895.01.T01;Parent=MsG0380017895.01;Name=MsG0380017895.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|167
Chr3 exon 101959916 101960419 101959916 ID=MsG0380017895.01.T01:exon:18219;Parent=MsG0380017895.01.T01
Chr3 CDS 101959916 101960419 101959916 ID=MsG0380017895.01.T01:cds;Parent=MsG0380017895.01.T01
Gene Sequence

>MsG0380017895.01.T01

ATGGCCACCGTTACTTCCACCACCGTTGCTATTCCATCATTCACAGGCCTTAAGGCAAACGCAAGCAAAGTTAATGCCATAGCTAAGGTTCCAACTTCAACTTCTCAATTGCCAAGGCTTTGTGTCAGAGCTTCCCTCAAAGACTTTGGAGTTGCTGTTGTTGCCACTGCTGCAAGTGCATTGTTAGCTAGCAATGCCCTTGCAGTTGAAGTGTTGCTTGGTGCTAGTGATGGGGGTTTGGCTTTTGTTCCAAACAATTTCACAGTGAACGCTGGAGACACCATTACATTCAAGAACAATGCTGGTTTTCCTCATAACGTTATCTTCGATGAAGACGAGATTCCAAGCGGGGTTGATGCAGCCAAAATTTCCATGCCTGAAGAAGATCTTCTCAATGCTCCTGGGGAGACTTACAGCGTTACTTTGGATGCTAAGGGAACCTACAAATTCTACTGTTCACCTCACGCAGGAGCTGGTATGGTTGGACAAGTCACTGTTAATTAA

Protein sequence

>MsG0380017895.01.T01

MATVTSTTVAIPSFTGLKANASKVNAIAKVPTSTSQLPRLCVRASLKDFGVAVVATAASALLASNALAVEVLLGASDGGLAFVPNNFTVNAGDTITFKNNAGFPHNVIFDEDEIPSGVDAAKISMPEEDLLNAPGETYSVTLDAKGTYKFYCSPHAGAGMVGQVTVN*