AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280011301.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011301.01.T01 MTR_2g101820 76.871 147 15 3 1 128 1 147 1.64e-67 200
MsG0280011301.01.T01 MTR_2g101820 92.593 54 3 1 1 53 1 54 5.61e-26 94.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280011301.01.T01 AT1G52230 60.274 146 39 3 1 128 1 145 1.04e-50 158
MsG0280011301.01.T01 AT3G16140 58.904 146 41 3 1 128 1 145 8.85e-49 153

Find 51 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTTCAAATCCAAGAATTTA+AGG 0.134528 2:+82161265 MsG0280011301.01.T01:CDS
GTGAAAGTACCTTAAATTCT+TGG 0.244082 2:-82161274 None:intergenic
CTTGCTGGCAGTTCCATTAC+TGG 0.265222 2:+82161210 MsG0280011301.01.T01:CDS
TATTAGAAACTTTCGGTATT+GGG 0.309147 2:+82162987 MsG0280011301.01.T01:three_prime_UTR
TACTTCAGTGCCACAGCTTC+AGG 0.317013 2:+82162520 MsG0280011301.01.T01:CDS
TACTTTGATTTGGAGGATAT+TGG 0.323961 2:+82161595 MsG0280011301.01.T01:CDS
CAAGAGTGTGTACTTTGATT+TGG 0.336220 2:+82161585 MsG0280011301.01.T01:CDS
TAGTATGCAGCAATTTCATT+AGG 0.352262 2:+82162782 MsG0280011301.01.T01:three_prime_UTR
ATATTAGAAACTTTCGGTAT+TGG 0.353474 2:+82162986 MsG0280011301.01.T01:three_prime_UTR
TTGCCACGGGGACCGAGCTT+TGG 0.360365 2:-82162580 None:intergenic
ACTTTATTAAGACTAGTAAT+AGG 0.360570 2:-82162722 None:intergenic
CTCAATGTTAAGGGTCTTGC+TGG 0.365303 2:+82161195 MsG0280011301.01.T01:CDS
ATATGAAAATGAAGATAATA+AGG 0.379488 2:-82162908 None:intergenic
AAAAGTAAAACACATTGAAC+TGG 0.381599 2:-82162619 None:intergenic
CCACTTAATTCTCTTCCTCT+TGG 0.382783 2:-82161115 None:intergenic
ACCAGCTGGTCTCAATGTTA+AGG 0.384673 2:+82161185 MsG0280011301.01.T01:CDS
CCACGGGGACCGAGCTTTGG+TGG 0.404075 2:-82162577 None:intergenic
TTAGGATGTTGGTCTTAATT+CGG 0.409293 2:+82162800 MsG0280011301.01.T01:three_prime_UTR
AGCTGTGGACCTTTCTTGAT+TGG 0.426964 2:-82162553 None:intergenic
CACTTGATATTAGAAACTTT+CGG 0.427007 2:+82162980 MsG0280011301.01.T01:three_prime_UTR
GATCAAAATGTGACATGCTT+TGG 0.427622 2:-82161091 None:intergenic
CAGCAATTTCATTAGGATGT+TGG 0.439676 2:+82162789 MsG0280011301.01.T01:three_prime_UTR
CCAGCTGGTCTCAATGTTAA+GGG 0.447321 2:+82161186 MsG0280011301.01.T01:CDS
GTGGAAAATAATAAACCATA+TGG 0.455212 2:+82161134 MsG0280011301.01.T01:exon
GAGTGTGTACTTTGATTTGG+AGG 0.467087 2:+82161588 MsG0280011301.01.T01:CDS
GAACGTATAAAACACATAAA+CGG 0.473990 2:-82162823 None:intergenic
GAGGATATTGGCAACACTAC+AGG 0.483887 2:+82161607 MsG0280011301.01.T01:CDS
AATTCTTGGATTTGAAACTC+TGG 0.485960 2:-82161260 None:intergenic
CAAGAGTTGAACCACCTCCT+AGG 0.515089 2:-82162495 None:intergenic
AATAATCCTCTCTTTGTGAA+TGG 0.515909 2:-82162457 None:intergenic
CCCTTAACATTGAGACCAGC+TGG 0.523582 2:-82161186 None:intergenic
AGGTAGCAAGGGAAGCCATA+TGG 0.523790 2:-82161149 None:intergenic
CCGAGCTTTGGTGGAAGCTG+TGG 0.524654 2:-82162568 None:intergenic
GACATTCTACCAATCAAGAA+AGG 0.540823 2:+82162544 MsG0280011301.01.T01:CDS
AGATAGCTTAGTTCCAGTAA+TGG 0.548416 2:-82161223 None:intergenic
AGCTGGTTGTACACAAGCTA+AGG 0.551993 2:-82161169 None:intergenic
GCAGCTCCATTCACAAAGAG+AGG 0.555627 2:+82162451 MsG0280011301.01.T01:CDS
TTAGCTTGTGTACAACCAGC+TGG 0.579471 2:+82161171 MsG0280011301.01.T01:CDS
GTACACAAGCTAAGGTAGCA+AGG 0.579499 2:-82161161 None:intergenic
CCAAGAGGAAGAGAATTAAG+TGG 0.581906 2:+82161115 MsG0280011301.01.T01:five_prime_UTR
GATTTGAAACTCTGGCGAGA+GGG 0.583566 2:-82161252 None:intergenic
CCACAGCTTCCACCAAAGCT+CGG 0.583979 2:+82162568 MsG0280011301.01.T01:CDS
AACTAGATTAGATCTTGCCA+CGG 0.597660 2:-82162594 None:intergenic
GGATTTGAAACTCTGGCGAG+AGG 0.599558 2:-82161253 None:intergenic
ACTAGATTAGATCTTGCCAC+GGG 0.603116 2:-82162593 None:intergenic
TACACAAGCTAAGGTAGCAA+GGG 0.622521 2:-82161160 None:intergenic
TACTTGCAGGAGTGGCTCTG+TGG 0.649900 2:+82161547 MsG0280011301.01.T01:intron
AAAGTAAAACACATTGAACT+GGG 0.652851 2:-82162618 None:intergenic
CCACCAAAGCTCGGTCCCCG+TGG 0.657534 2:+82162577 MsG0280011301.01.T01:CDS
TAGAATGTCACCTGAAGCTG+TGG 0.676047 2:-82162530 None:intergenic
CTAGATTAGATCTTGCCACG+GGG 0.731168 2:-82162592 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTAGCGTAATAAAAAAAA+CGG - Chr2:82161353-82161372 None:intergenic 15.0%
!! ATAACTTATCTAATCTAAAT+AGG - Chr2:82161446-82161465 None:intergenic 15.0%
!! ATATGAAAATGAAGATAATA+AGG - Chr2:82162911-82162930 None:intergenic 15.0%
!! ATCAAAGAAATCAATTAATT+TGG - Chr2:82162357-82162376 None:intergenic 15.0%
!! TTATATTAAGTGTCTTTATA+AGG + Chr2:82162021-82162040 MsG0280011301.01.T01:intron 15.0%
!!! TTATTATCTTCATTTTCATA+TGG + Chr2:82162910-82162929 MsG0280011301.01.T01:three_prime_UTR 15.0%
!! AATAAGCTGAAAATAACTTA+TGG + Chr2:82161924-82161943 MsG0280011301.01.T01:intron 20.0%
!! ACTTTATTAAGACTAGTAAT+AGG - Chr2:82162725-82162744 None:intergenic 20.0%
!! TAGATCAACAAAATAATCTA+TGG - Chr2:82161789-82161808 None:intergenic 20.0%
!!! AAATGTAATTAGTTCTTCAT+TGG + Chr2:82162194-82162213 MsG0280011301.01.T01:intron 20.0%
!!! CTTCTTGTTTTCTTATAATA+AGG - Chr2:82162136-82162155 None:intergenic 20.0%
! AAAAGTAAAACACATTGAAC+TGG - Chr2:82162622-82162641 None:intergenic 25.0%
! AAAGTAAAACACATTGAACT+GGG - Chr2:82162621-82162640 None:intergenic 25.0%
! AACATAACATAATTACTTGC+AGG + Chr2:82161534-82161553 MsG0280011301.01.T01:intron 25.0%
! AGACATTTAATATGAGAATG+AGG + Chr2:82162263-82162282 MsG0280011301.01.T01:intron 25.0%
! ATATTAGAAACTTTCGGTAT+TGG + Chr2:82162986-82163005 MsG0280011301.01.T01:three_prime_UTR 25.0%
! CACTTGATATTAGAAACTTT+CGG + Chr2:82162980-82162999 MsG0280011301.01.T01:three_prime_UTR 25.0%
! GAACGTATAAAACACATAAA+CGG - Chr2:82162826-82162845 None:intergenic 25.0%
! GACATTTAATATGAGAATGA+GGG + Chr2:82162264-82162283 MsG0280011301.01.T01:intron 25.0%
! GTGGAAAATAATAAACCATA+TGG + Chr2:82161134-82161153 MsG0280011301.01.T01:exon 25.0%
! GTTTCAAATCCAAGAATTTA+AGG + Chr2:82161265-82161284 MsG0280011301.01.T01:CDS 25.0%
! TATTAGAAACTTTCGGTATT+GGG + Chr2:82162987-82163006 MsG0280011301.01.T01:three_prime_UTR 25.0%
!! CTCATTTGTTGATATAAACT+TGG + Chr2:82162399-82162418 MsG0280011301.01.T01:intron 25.0%
!! TGCTGTAACAAATTGATTTA+TGG + Chr2:82162307-82162326 MsG0280011301.01.T01:intron 25.0%
!! TGTTTTCTTATAATAAGGAC+TGG - Chr2:82162131-82162150 None:intergenic 25.0%
!!! CTTATTTTCATAAGTTTTCC+AGG - Chr2:82161910-82161929 None:intergenic 25.0%
AATAATCCTCTCTTTGTGAA+TGG - Chr2:82162460-82162479 None:intergenic 30.0%
AGACACTTAATATAACACAG+AGG - Chr2:82162016-82162035 None:intergenic 30.0%
AGTGATGTTTATATGTGTCT+AGG + Chr2:82161753-82161772 MsG0280011301.01.T01:intron 30.0%
GACACTTAATATAACACAGA+GGG - Chr2:82162015-82162034 None:intergenic 30.0%
TAGTATGCAGCAATTTCATT+AGG + Chr2:82162782-82162801 MsG0280011301.01.T01:three_prime_UTR 30.0%
! AATTCTTGGATTTGAAACTC+TGG - Chr2:82161263-82161282 None:intergenic 30.0%
!! GTGAAAGTACCTTAAATTCT+TGG - Chr2:82161277-82161296 None:intergenic 30.0%
!! TACTTTGATTTGGAGGATAT+TGG + Chr2:82161595-82161614 MsG0280011301.01.T01:CDS 30.0%
!! TTAGGATGTTGGTCTTAATT+CGG + Chr2:82162800-82162819 MsG0280011301.01.T01:three_prime_UTR 30.0%
AACATAATTACTTGCAGGAG+TGG + Chr2:82161539-82161558 MsG0280011301.01.T01:intron 35.0%
AACTAGATTAGATCTTGCCA+CGG - Chr2:82162597-82162616 None:intergenic 35.0%
AGATAGCTTAGTTCCAGTAA+TGG - Chr2:82161226-82161245 None:intergenic 35.0%
CAGCAATTTCATTAGGATGT+TGG + Chr2:82162789-82162808 MsG0280011301.01.T01:three_prime_UTR 35.0%
GACATTCTACCAATCAAGAA+AGG + Chr2:82162544-82162563 MsG0280011301.01.T01:CDS 35.0%
GATCAAAATGTGACATGCTT+TGG - Chr2:82161094-82161113 None:intergenic 35.0%
GTTTATATGTGTCTAGGCTT+AGG + Chr2:82161759-82161778 MsG0280011301.01.T01:intron 35.0%
TATAGTCTATAGGACAGCAA+AGG - Chr2:82161990-82162009 None:intergenic 35.0%
! CAAGAGTGTGTACTTTGATT+TGG + Chr2:82161585-82161604 MsG0280011301.01.T01:CDS 35.0%
! TTGCTCAAGTTTTTGATCCT+AGG + Chr2:82162478-82162497 MsG0280011301.01.T01:CDS 35.0%
AAAAAACGGACAGACGAGTA+TGG - Chr2:82161339-82161358 None:intergenic 40.0%
ACTAGATTAGATCTTGCCAC+GGG - Chr2:82162596-82162615 None:intergenic 40.0%
ATATGTGTCTAGGCTTAGGA+AGG + Chr2:82161763-82161782 MsG0280011301.01.T01:intron 40.0%
CACTAGCTACTACTTTAGCA+AGG - Chr2:82162162-82162181 None:intergenic 40.0%
CCAAGAGGAAGAGAATTAAG+TGG + Chr2:82161115-82161134 MsG0280011301.01.T01:five_prime_UTR 40.0%
CCACTTAATTCTCTTCCTCT+TGG - Chr2:82161118-82161137 None:intergenic 40.0%
TACACAAGCTAAGGTAGCAA+GGG - Chr2:82161163-82161182 None:intergenic 40.0%
! AAGTTTTTGATCCTAGGAGG+TGG + Chr2:82162484-82162503 MsG0280011301.01.T01:CDS 40.0%
! ACAGAGGGAGTATAGTCTAT+AGG - Chr2:82162000-82162019 None:intergenic 40.0%
! CTCAAGTTTTTGATCCTAGG+AGG + Chr2:82162481-82162500 MsG0280011301.01.T01:CDS 40.0%
!! AGCTGTTTCTATAAGCTACC+TGG + Chr2:82161889-82161908 MsG0280011301.01.T01:intron 40.0%
!! GAGTGTGTACTTTGATTTGG+AGG + Chr2:82161588-82161607 MsG0280011301.01.T01:CDS 40.0%
!! GTCACATTTTGATCACCAAG+AGG + Chr2:82161100-82161119 MsG0280011301.01.T01:five_prime_UTR 40.0%
ACAGGTCAGTGGGATTTGTA+CGG + Chr2:82161625-82161644 MsG0280011301.01.T01:intron 45.0%
AGCTGGTTGTACACAAGCTA+AGG - Chr2:82161172-82161191 None:intergenic 45.0%
AGCTGTGGACCTTTCTTGAT+TGG - Chr2:82162556-82162575 None:intergenic 45.0%
AGTCTATAGGACAGCAAAGG+AGG - Chr2:82161987-82162006 None:intergenic 45.0%
CAAACCTGAAGAGGGTTGTA+TGG - Chr2:82161667-82161686 None:intergenic 45.0%
CCAGTAGACAAACCTGAAGA+GGG - Chr2:82161675-82161694 None:intergenic 45.0%
CTAGATTAGATCTTGCCACG+GGG - Chr2:82162595-82162614 None:intergenic 45.0%
CTCAATGTTAAGGGTCTTGC+TGG + Chr2:82161195-82161214 MsG0280011301.01.T01:CDS 45.0%
GAGGATATTGGCAACACTAC+AGG + Chr2:82161607-82161626 MsG0280011301.01.T01:CDS 45.0%
GTACACAAGCTAAGGTAGCA+AGG - Chr2:82161164-82161183 None:intergenic 45.0%
TAGAATGTCACCTGAAGCTG+TGG - Chr2:82162533-82162552 None:intergenic 45.0%
TCCAGTAGACAAACCTGAAG+AGG - Chr2:82161676-82161695 None:intergenic 45.0%
TGAAGAGGGTTGTATGGTGA+GGG - Chr2:82161661-82161680 None:intergenic 45.0%
! ACCAGCTGGTCTCAATGTTA+AGG + Chr2:82161185-82161204 MsG0280011301.01.T01:CDS 45.0%
! CCAGCTGGTCTCAATGTTAA+GGG + Chr2:82161186-82161205 MsG0280011301.01.T01:CDS 45.0%
! GATTTGAAACTCTGGCGAGA+GGG - Chr2:82161255-82161274 None:intergenic 45.0%
!! TTAGCTTGTGTACAACCAGC+TGG + Chr2:82161171-82161190 MsG0280011301.01.T01:CDS 45.0%
AGGTAGCAAGGGAAGCCATA+TGG - Chr2:82161152-82161171 None:intergenic 50.0%
CAAGAGTTGAACCACCTCCT+AGG - Chr2:82162498-82162517 None:intergenic 50.0%
CCCTTAACATTGAGACCAGC+TGG - Chr2:82161189-82161208 None:intergenic 50.0%
CTCACCATACAACCCTCTTC+AGG + Chr2:82161660-82161679 MsG0280011301.01.T01:intron 50.0%
CTGAAGAGGGTTGTATGGTG+AGG - Chr2:82161662-82161681 None:intergenic 50.0%
CTTGCTGGCAGTTCCATTAC+TGG + Chr2:82161210-82161229 MsG0280011301.01.T01:CDS 50.0%
GCAGCTCCATTCACAAAGAG+AGG + Chr2:82162451-82162470 MsG0280011301.01.T01:CDS 50.0%
TACTTCAGTGCCACAGCTTC+AGG + Chr2:82162520-82162539 MsG0280011301.01.T01:CDS 50.0%
TGGCAACACTACAGGTCAGT+GGG + Chr2:82161615-82161634 MsG0280011301.01.T01:intron 50.0%
TTGGCAACACTACAGGTCAG+TGG + Chr2:82161614-82161633 MsG0280011301.01.T01:intron 50.0%
! CCCTCTTCAGGTTTGTCTAC+TGG + Chr2:82161672-82161691 MsG0280011301.01.T01:intron 50.0%
! GGATTTGAAACTCTGGCGAG+AGG - Chr2:82161256-82161275 None:intergenic 50.0%
CCACAGCTTCCACCAAAGCT+CGG + Chr2:82162568-82162587 MsG0280011301.01.T01:CDS 55.0%
! TACTTGCAGGAGTGGCTCTG+TGG + Chr2:82161547-82161566 MsG0280011301.01.T01:intron 55.0%
! CCGAGCTTTGGTGGAAGCTG+TGG - Chr2:82162571-82162590 None:intergenic 60.0%
TTGCCACGGGGACCGAGCTT+TGG - Chr2:82162583-82162602 None:intergenic 65.0%
CCACCAAAGCTCGGTCCCCG+TGG + Chr2:82162577-82162596 MsG0280011301.01.T01:CDS 70.0%
! CCACGGGGACCGAGCTTTGG+TGG - Chr2:82162580-82162599 None:intergenic 70.0%
Chromosome Type Strat End Strand Name
Chr2 gene 82161090 82163075 82161090 ID=MsG0280011301.01;Name=MsG0280011301.01
Chr2 mRNA 82161090 82163075 82161090 ID=MsG0280011301.01.T01;Parent=MsG0280011301.01;Name=MsG0280011301.01.T01;_AED=0.27;_eAED=0.27;_QI=63|1|1|1|1|1|3|466|128
Chr2 exon 82161090 82161286 82161090 ID=MsG0280011301.01.T01:exon:12245;Parent=MsG0280011301.01.T01
Chr2 exon 82161556 82161628 82161556 ID=MsG0280011301.01.T01:exon:12246;Parent=MsG0280011301.01.T01
Chr2 exon 82162430 82163075 82162430 ID=MsG0280011301.01.T01:exon:12247;Parent=MsG0280011301.01.T01
Chr2 five_prime_UTR 82161090 82161152 82161090 ID=MsG0280011301.01.T01:five_prime_utr;Parent=MsG0280011301.01.T01
Chr2 CDS 82161153 82161286 82161153 ID=MsG0280011301.01.T01:cds;Parent=MsG0280011301.01.T01
Chr2 CDS 82161556 82161628 82161556 ID=MsG0280011301.01.T01:cds;Parent=MsG0280011301.01.T01
Chr2 CDS 82162430 82162609 82162430 ID=MsG0280011301.01.T01:cds;Parent=MsG0280011301.01.T01
Chr2 three_prime_UTR 82162610 82163075 82162610 ID=MsG0280011301.01.T01:three_prime_utr;Parent=MsG0280011301.01.T01
Gene Sequence

>MsG0280011301.01.T01

ATGGCTTCCCTTGCTACCTTAGCTTGTGTACAACCAGCTGGTCTCAATGTTAAGGGTCTTGCTGGCAGTTCCATTACTGGAACTAAGCTATCTTTCAAGCCCTCTCGCCAGAGTTTCAAATCCAAGAATTTAAGGAGTGGCTCTGTGGTAGCAAAGTATGTGACAAGAGTGTGTACTTTGATTTGGAGGATATTGGCAACACTACAGAGCAAGTTCTTTGAGACATTTGCAGCTCCATTCACAAAGAGAGGATTATTGCTCAAGTTTTTGATCCTAGGAGGTGGTTCAACTCTTGCATACTTCAGTGCCACAGCTTCAGGTGACATTCTACCAATCAAGAAAGGTCCACAGCTTCCACCAAAGCTCGGTCCCCGTGGCAAGATCTAA

Protein sequence

>MsG0280011301.01.T01

MASLATLACVQPAGLNVKGLAGSSITGTKLSFKPSRQSFKSKNLRSGSVVAKYVTRVCTLIWRILATLQSKFFETFAAPFTKRGLLLKFLILGGGSTLAYFSATASGDILPIKKGPQLPPKLGPRGKI*