AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580029596.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029596.01.T01 MTR_5g089100 93.780 209 12 1 1 209 1 208 6.87e-134 382
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580029596.01.T01 AT2G26530 34.021 194 91 9 28 199 7 185 8.06e-11 61.2

Find 36 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGGATTCATTGCCTACTA+TGG 0.314743 5:+99170274 MsG0580029596.01.T01:CDS
TTTCGGTTTGTCTTAGTTCT+CGG 0.336891 5:-99170215 None:intergenic
CCTCCAAGACTAGTTCAAAA+TGG 0.363341 5:+99170359 MsG0580029596.01.T01:CDS
AGTTTAAGAGGCGGCATCAT+TGG 0.387438 5:-99170335 None:intergenic
TATGATGATCTTGGTGTTGT+AGG 0.396948 5:-99170125 None:intergenic
AAATTCAAACCGATCTAGAT+TGG 0.397332 5:-99170162 None:intergenic
TAAACCATGTTCTCTACCCT+TGG 0.408496 5:-99170528 None:intergenic
GCATCTTCATATGATGATCT+TGG 0.413582 5:-99170134 None:intergenic
TTCTCAAAAGCCACCTTGAA+TGG 0.424398 5:-99170479 None:intergenic
TTCTTCCACAAGCGTGCAAA+AGG 0.442067 5:-99170443 None:intergenic
GAACACAGTGGTTATCAAAC+AGG 0.451484 5:+99170101 MsG0580029596.01.T01:CDS
TCATCAGCAAATGCCATAGT+AGG 0.468021 5:-99170287 None:intergenic
TTGAGTCTGCTAGGACTAGT+TGG 0.469582 5:-99170071 None:intergenic
AGTCTTGGAGGAAGTTTAAG+AGG 0.473364 5:-99170347 None:intergenic
TAGATCCCTTTCTCCATTGA+GGG 0.480062 5:+99170559 MsG0580029596.01.T01:CDS
AGGTAAGAGAAGAGAAGAGA+GGG 0.481109 5:+99170501 MsG0580029596.01.T01:CDS
TCTATTAATTTGAGTCTGCT+AGG 0.481735 5:-99170080 None:intergenic
AGCATCGATCCTGGAGACTT+AGG 0.484828 5:-99170413 None:intergenic
GGAAGTCTAAGCATCGATCC+TGG 0.487384 5:-99170422 None:intergenic
TTGTTGTTGAAGTCCCTCAA+TGG 0.492128 5:-99170572 None:intergenic
CTAGATCCCTTTCTCCATTG+AGG 0.518421 5:+99170558 MsG0580029596.01.T01:CDS
GAAGTCCCTCAATGGAGAAA+GGG 0.528545 5:-99170564 None:intergenic
TGAAGTCCCTCAATGGAGAA+AGG 0.529754 5:-99170565 None:intergenic
ATGCATTTGAGCAGCATCAA+AGG 0.548678 5:+99170246 MsG0580029596.01.T01:CDS
GTAGAGAACATGGTTTAAGA+AGG 0.552832 5:+99170534 MsG0580029596.01.T01:CDS
GCGACATCTCCTAAGTCTCC+AGG 0.561265 5:+99170404 MsG0580029596.01.T01:CDS
AAGGTAAGAGAAGAGAAGAG+AGG 0.568003 5:+99170500 MsG0580029596.01.T01:CDS
GAGAAGAGAGGGAAATCCAA+GGG 0.582015 5:+99170512 MsG0580029596.01.T01:CDS
AGAGAAGAGAGGGAAATCCA+AGG 0.583317 5:+99170511 MsG0580029596.01.T01:CDS
AAATCCAAGGGTAGAGAACA+TGG 0.594905 5:+99170524 MsG0580029596.01.T01:CDS
ATGCAAACACCAATCTAGAT+CGG 0.598062 5:+99170153 MsG0580029596.01.T01:CDS
GCAGCATCAAAGGCTTTGTG+AGG 0.620784 5:+99170256 MsG0580029596.01.T01:CDS
CAACAAGTGTGACAAACACA+AGG 0.649874 5:+99170589 MsG0580029596.01.T01:CDS
CTTGGAGGAAGTTTAAGAGG+CGG 0.649976 5:-99170344 None:intergenic
ACTCATGTAACATAACTCGT+TGG 0.670365 5:-99170003 None:intergenic
CTCAAATTAATAGAACACAG+TGG 0.795850 5:+99170089 MsG0580029596.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAATTCAAACCGATCTAGAT+TGG - Chr5:99170165-99170184 None:intergenic 30.0%
CTCAAATTAATAGAACACAG+TGG + Chr5:99170089-99170108 MsG0580029596.01.T01:CDS 30.0%
! CAAATGCATTCACATCTTTT+CGG - Chr5:99170235-99170254 None:intergenic 30.0%
! TCTATTAATTTGAGTCTGCT+AGG - Chr5:99170083-99170102 None:intergenic 30.0%
!! TGATGATTTTGATCCATTCA+AGG + Chr5:99170466-99170485 MsG0580029596.01.T01:CDS 30.0%
ACTCATGTAACATAACTCGT+TGG - Chr5:99170006-99170025 None:intergenic 35.0%
ATGCAAACACCAATCTAGAT+CGG + Chr5:99170153-99170172 MsG0580029596.01.T01:CDS 35.0%
GCATCTTCATATGATGATCT+TGG - Chr5:99170137-99170156 None:intergenic 35.0%
GTAGAGAACATGGTTTAAGA+AGG + Chr5:99170534-99170553 MsG0580029596.01.T01:CDS 35.0%
! TTTCGGTTTGTCTTAGTTCT+CGG - Chr5:99170218-99170237 None:intergenic 35.0%
!! TATGATGATCTTGGTGTTGT+AGG - Chr5:99170128-99170147 None:intergenic 35.0%
!! TCTCCATTTTGAACTAGTCT+TGG - Chr5:99170365-99170384 None:intergenic 35.0%
!! TGATTTTGATCCATTCAAGG+TGG + Chr5:99170469-99170488 MsG0580029596.01.T01:CDS 35.0%
AAATCCAAGGGTAGAGAACA+TGG + Chr5:99170524-99170543 MsG0580029596.01.T01:CDS 40.0%
AAGGTAAGAGAAGAGAAGAG+AGG + Chr5:99170500-99170519 MsG0580029596.01.T01:CDS 40.0%
AGGTAAGAGAAGAGAAGAGA+GGG + Chr5:99170501-99170520 MsG0580029596.01.T01:CDS 40.0%
AGTCTTGGAGGAAGTTTAAG+AGG - Chr5:99170350-99170369 None:intergenic 40.0%
ATGCATTTGAGCAGCATCAA+AGG + Chr5:99170246-99170265 MsG0580029596.01.T01:CDS 40.0%
CAACAAGTGTGACAAACACA+AGG + Chr5:99170589-99170608 MsG0580029596.01.T01:CDS 40.0%
GAACACAGTGGTTATCAAAC+AGG + Chr5:99170101-99170120 MsG0580029596.01.T01:CDS 40.0%
TAAACCATGTTCTCTACCCT+TGG - Chr5:99170531-99170550 None:intergenic 40.0%
TAGATCCCTTTCTCCATTGA+GGG + Chr5:99170559-99170578 MsG0580029596.01.T01:CDS 40.0%
TCATCAGCAAATGCCATAGT+AGG - Chr5:99170290-99170309 None:intergenic 40.0%
TGAGGATTCATTGCCTACTA+TGG + Chr5:99170274-99170293 MsG0580029596.01.T01:CDS 40.0%
TTCTCAAAAGCCACCTTGAA+TGG - Chr5:99170482-99170501 None:intergenic 40.0%
! CCTCCAAGACTAGTTCAAAA+TGG + Chr5:99170359-99170378 MsG0580029596.01.T01:CDS 40.0%
! TTGTTGTTGAAGTCCCTCAA+TGG - Chr5:99170575-99170594 None:intergenic 40.0%
!! ATTCAAGGTGGCTTTTGAGA+AGG + Chr5:99170481-99170500 MsG0580029596.01.T01:CDS 40.0%
!!! CCATTTTGAACTAGTCTTGG+AGG - Chr5:99170362-99170381 None:intergenic 40.0%
AGAGAAGAGAGGGAAATCCA+AGG + Chr5:99170511-99170530 MsG0580029596.01.T01:CDS 45.0%
AGTTTAAGAGGCGGCATCAT+TGG - Chr5:99170338-99170357 None:intergenic 45.0%
CTAGATCCCTTTCTCCATTG+AGG + Chr5:99170558-99170577 MsG0580029596.01.T01:CDS 45.0%
CTTGGAGGAAGTTTAAGAGG+CGG - Chr5:99170347-99170366 None:intergenic 45.0%
GAAGTCCCTCAATGGAGAAA+GGG - Chr5:99170567-99170586 None:intergenic 45.0%
GAGAAGAGAGGGAAATCCAA+GGG + Chr5:99170512-99170531 MsG0580029596.01.T01:CDS 45.0%
TGAAGTCCCTCAATGGAGAA+AGG - Chr5:99170568-99170587 None:intergenic 45.0%
TTCTTCCACAAGCGTGCAAA+AGG - Chr5:99170446-99170465 None:intergenic 45.0%
! GCTGATGAGCTCTTTTGTGA+TGG + Chr5:99170302-99170321 MsG0580029596.01.T01:CDS 45.0%
! TTGAGTCTGCTAGGACTAGT+TGG - Chr5:99170074-99170093 None:intergenic 45.0%
! GACTTCCTTTTGCACGCTTG+TGG + Chr5:99170438-99170457 MsG0580029596.01.T01:CDS 50.0%
! GCAGCATCAAAGGCTTTGTG+AGG + Chr5:99170256-99170275 MsG0580029596.01.T01:CDS 50.0%
!! AGCATCGATCCTGGAGACTT+AGG - Chr5:99170416-99170435 None:intergenic 50.0%
!! GGAAGTCTAAGCATCGATCC+TGG - Chr5:99170425-99170444 None:intergenic 50.0%
GCGACATCTCCTAAGTCTCC+AGG + Chr5:99170404-99170423 MsG0580029596.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 99169984 99170667 99169984 ID=MsG0580029596.01;Name=MsG0580029596.01
Chr5 mRNA 99169984 99170667 99169984 ID=MsG0580029596.01.T01;Parent=MsG0580029596.01;Name=MsG0580029596.01.T01;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|227
Chr5 exon 99169984 99170667 99169984 ID=MsG0580029596.01.T01:exon:26110;Parent=MsG0580029596.01.T01
Chr5 CDS 99169984 99170667 99169984 ID=MsG0580029596.01.T01:cds;Parent=MsG0580029596.01.T01
Gene Sequence

>MsG0580029596.01.T01

ATGATGGATATCTCATTTTCCAACGAGTTATGTTACATGAGTGCAAGTAGCTGCAATCAAGACAAAGATTTGTTCTTCTATAGTGCACCAACTAGTCCTAGCAGACTCAAATTAATAGAACACAGTGGTTATCAAACAGGTCCTACAACACCAAGATCATCATATGAAGATGCAAACACCAATCTAGATCGGTTTGAATTTGAAACAAGTCGTCGTTTCAATCATAGTGAACCGAGAACTAAGACAAACCGAAAAGATGTGAATGCATTTGAGCAGCATCAAAGGCTTTGTGAGGATTCATTGCCTACTATGGCATTTGCTGATGAGCTCTTTTGTGATGGAAAAGTAATTCCAATGATGCCGCCTCTTAAACTTCCTCCAAGACTAGTTCAAAATGGAGATAGTACTCAAAGCTCAAGAGCGACATCTCCTAAGTCTCCAGGATCGATGCTTAGACTTCCTTTTGCACGCTTGTGGAAGAATGATGATTTTGATCCATTCAAGGTGGCTTTTGAGAAGGTAAGAGAAGAGAAGAGAGGGAAATCCAAGGGTAGAGAACATGGTTTAAGAAGGACTAGATCCCTTTCTCCATTGAGGGACTTCAACAACAAGTGTGACAAACACAAGGACTATCAGAATCACATAAACATGATCAATCGCATTGTTGTGAAAAACTTCCTTTGA
Protein sequence

>MsG0580029596.01.T01

MMDISFSNELCYMSASSCNQDKDLFFYSAPTSPSRLKLIEHSGYQTGPTTPRSSYEDANTNLDRFEFETSRRFNHSEPRTKTNRKDVNAFEQHQRLCEDSLPTMAFADELFCDGKVIPMMPPLKLPPRLVQNGDSTQSSRATSPKSPGSMLRLPFARLWKNDDFDPFKVAFEKVREEKRGKSKGREHGLRRTRSLSPLRDFNNKCDKHKDYQNHINMINRIVVKNFL*