AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180001524.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001524.01.T01 MTR_4g073100 44.828 203 86 5 1 183 1 197 1.04e-51 167
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180001524.01.T01 AT3G51960 56.250 128 50 1 41 162 10 137 1.40e-47 154
MsG0180001524.01.T01 AT3G51960 49.405 168 75 4 4 162 10 176 1.95e-47 155
MsG0180001524.01.T01 AT3G51960 49.701 167 75 4 4 162 10 175 2.43e-47 154
MsG0180001524.01.T01 AT2G16770 55.882 136 47 5 46 169 35 169 5.72e-46 152
MsG0180001524.01.T01 AT2G16770 55.882 136 47 5 46 169 35 169 5.72e-46 152
MsG0180001524.01.T01 AT4G35040 46.703 182 75 6 1 165 1 177 4.04e-45 150
MsG0180001524.01.T01 AT4G35040 46.703 182 75 6 1 165 1 177 4.04e-45 150
MsG0180001524.01.T01 AT4G35040 46.703 182 75 6 1 165 1 177 4.04e-45 150
MsG0180001524.01.T01 AT4G35040 46.703 182 75 6 1 165 1 177 4.04e-45 150

Find 19 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAAAATTGCTACATGATTC+TGG 0.223560 1:-22659049 None:intergenic
GTCAAGGTTAAGGAACATTT+TGG 0.239454 1:+22659399 MsG0180001524.01.T01:CDS
GGAAAAGTTGACAATGAATT+AGG 0.247864 1:+22659433 MsG0180001524.01.T01:CDS
AAAGTATAGGGAGAAGAAAA+AGG 0.319200 1:+22659276 MsG0180001524.01.T01:CDS
GTAGTTTCCTTAAAAGTTGT+TGG 0.338670 1:-22659348 None:intergenic
AAGCTGAATTGTCAAGGTTA+AGG 0.395629 1:+22659389 MsG0180001524.01.T01:CDS
ACATGCAGGATCATCATCTA+AGG 0.417339 1:+22659495 MsG0180001524.01.T01:CDS
AAGAAAGAAAATATGGAAGA+TGG 0.479572 1:+22658977 None:intergenic
CTGAAGATGACACAAATTCA+AGG 0.502147 1:+22659218 MsG0180001524.01.T01:CDS
CCATGTTTGCATCCACATGC+AGG 0.525489 1:+22659481 MsG0180001524.01.T01:CDS
TTTAAGGAAACTACAAGGGC+AGG 0.534031 1:+22659357 MsG0180001524.01.T01:CDS
GTCCTGTAGTACTACTCATG+TGG 0.547038 1:-22659541 None:intergenic
CCTGCATGTGGATGCAAACA+TGG 0.553344 1:-22659481 None:intergenic
TGTGTGTGATAAGCATCATC+AGG 0.565504 1:-22659160 None:intergenic
TACTTGAAGCTGAATTGTCA+AGG 0.575730 1:+22659383 MsG0180001524.01.T01:CDS
TGATAAGCATCATCAGGACC+AGG 0.614933 1:-22659154 None:intergenic
TTAGATGATGATCCTGCATG+TGG 0.661059 1:-22659493 None:intergenic
ACTCACACTTGTAATCCACC+TGG 0.661329 1:+22659136 MsG0180001524.01.T01:CDS
TAAGCATCATCAGGACCAGG+TGG 0.696090 1:-22659151 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AGAAGCTGTTAAAAAGTATA+GGG + Chr1:22659264-22659283 MsG0180001524.01.T01:CDS 25.0%
!!! AACTTTTAAGGAAACTACAA+GGG + Chr1:22659353-22659372 MsG0180001524.01.T01:CDS 25.0%
AAAGTATAGGGAGAAGAAAA+AGG + Chr1:22659276-22659295 MsG0180001524.01.T01:CDS 30.0%
GGAAAAGTTGACAATGAATT+AGG + Chr1:22659433-22659452 MsG0180001524.01.T01:CDS 30.0%
GTAGTTTCCTTAAAAGTTGT+TGG - Chr1:22659351-22659370 None:intergenic 30.0%
TGAAAATTGCTACATGATTC+TGG - Chr1:22659052-22659071 None:intergenic 30.0%
! CTATTTCCAGAAGTTCTTTT+TGG - Chr1:22659244-22659263 None:intergenic 30.0%
! GAGAAGCTGTTAAAAAGTAT+AGG + Chr1:22659263-22659282 MsG0180001524.01.T01:CDS 30.0%
! TTGTGAACCAACAACTTTTA+AGG + Chr1:22659341-22659360 MsG0180001524.01.T01:CDS 30.0%
!! AACATTTTGGTACAGCTTAA+GGG + Chr1:22659412-22659431 MsG0180001524.01.T01:CDS 30.0%
!! CAACTTTTAAGGAAACTACA+AGG + Chr1:22659352-22659371 MsG0180001524.01.T01:CDS 30.0%
AAGCTGAATTGTCAAGGTTA+AGG + Chr1:22659389-22659408 MsG0180001524.01.T01:CDS 35.0%
CTGAAGATGACACAAATTCA+AGG + Chr1:22659218-22659237 MsG0180001524.01.T01:CDS 35.0%
TACTTGAAGCTGAATTGTCA+AGG + Chr1:22659383-22659402 MsG0180001524.01.T01:CDS 35.0%
! CATGGCAGATTTTTCTCAAA+AGG - Chr1:22659466-22659485 None:intergenic 35.0%
! GTCAAGGTTAAGGAACATTT+TGG + Chr1:22659399-22659418 MsG0180001524.01.T01:CDS 35.0%
!! AGTGTGAATGCATGTTTTTG+TGG - Chr1:22659119-22659138 None:intergenic 35.0%
!! GAACATTTTGGTACAGCTTA+AGG + Chr1:22659411-22659430 MsG0180001524.01.T01:CDS 35.0%
ACATGCAGGATCATCATCTA+AGG + Chr1:22659495-22659514 MsG0180001524.01.T01:CDS 40.0%
TCAAGGCCAAAAAGAACTTC+TGG + Chr1:22659235-22659254 MsG0180001524.01.T01:CDS 40.0%
TGTGTGTGATAAGCATCATC+AGG - Chr1:22659163-22659182 None:intergenic 40.0%
TTAGATGATGATCCTGCATG+TGG - Chr1:22659496-22659515 None:intergenic 40.0%
TTTAAGGAAACTACAAGGGC+AGG + Chr1:22659357-22659376 MsG0180001524.01.T01:CDS 40.0%
ACTCACACTTGTAATCCACC+TGG + Chr1:22659136-22659155 MsG0180001524.01.T01:CDS 45.0%
TGATAAGCATCATCAGGACC+AGG - Chr1:22659157-22659176 None:intergenic 45.0%
CCATGTTTGCATCCACATGC+AGG + Chr1:22659481-22659500 MsG0180001524.01.T01:CDS 50.0%
CCTGCATGTGGATGCAAACA+TGG - Chr1:22659484-22659503 None:intergenic 50.0%
TAAGCATCATCAGGACCAGG+TGG - Chr1:22659154-22659173 None:intergenic 50.0%
Chromosome Type Strat End Strand Name
Chr1 gene 22658989 22659552 22658989 ID=MsG0180001524.01;Name=MsG0180001524.01
Chr1 mRNA 22658989 22659552 22658989 ID=MsG0180001524.01.T01;Parent=MsG0180001524.01;Name=MsG0180001524.01.T01;_AED=0.48;_eAED=0.48;_QI=0|-1|0|1|-1|1|1|0|187
Chr1 exon 22658989 22659552 22658989 ID=MsG0180001524.01.T01:exon:13699;Parent=MsG0180001524.01.T01
Chr1 CDS 22658989 22659552 22658989 ID=MsG0180001524.01.T01:cds;Parent=MsG0180001524.01.T01
Gene Sequence

>MsG0180001524.01.T01

ATGGAAGATGGAAATTCTGAAGTTTCTGATAAACTTTCAGATAATGTTCTATTTTCAAATCCAGAATCATGTAGCAATTTTCAAACTTCAACATCTTTGAACACAGTTACTGAATTGTCTAATAGCACCACAAAAACATGCATTCACACTCACACTTGTAATCCACCTGGTCCTGATGATGCTTATCACACACACACATGTTTTCACACACATACTCAAGTTTTTGCATCTGAAGATGACACAAATTCAAGGCCAAAAAGAACTTCTGGAAATAGAGAAGCTGTTAAAAAGTATAGGGAGAAGAAAAAGGCAGAAACAGCTTATTTAGAAGAAGAAGTTAAGAAATTGAAACTTGTGAACCAACAACTTTTAAGGAAACTACAAGGGCAGGCACTACTTGAAGCTGAATTGTCAAGGTTAAGGAACATTTTGGTACAGCTTAAGGGAAAAGTTGACAATGAATTAGGTTCTTTTCCTTTTGAGAAAAATCTGCCATGTTTGCATCCACATGCAGGATCATCATCTAAGGTTAACACTTGTGCATATTGCAAACCACATGAGTAG
Protein sequence

>MsG0180001524.01.T01

MEDGNSEVSDKLSDNVLFSNPESCSNFQTSTSLNTVTELSNSTTKTCIHTHTCNPPGPDDAYHTHTCFHTHTQVFASEDDTNSRPKRTSGNREAVKKYREKKKAETAYLEEEVKKLKLVNQQLLRKLQGQALLEAELSRLRNILVQLKGKVDNELGSFPFEKNLPCLHPHAGSSSKVNTCAYCKPHE*