AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680035636.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035636.01.T01 MTR_6g086280 94.495 109 6 0 1 109 4 112 4.42e-71 209
MsG0680035636.01.T01 MTR_6g086280 94.495 109 6 0 1 109 4 112 4.87e-71 209
MsG0680035636.01.T01 MTR_4g080090 46.154 104 56 0 6 109 4 107 2.78e-22 85.1
MsG0680035636.01.T01 MTR_2g084220 44.660 103 57 0 7 109 3 105 2.79e-22 85.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680035636.01.T01 AT3G24500 63.964 111 38 1 1 109 1 111 3.50e-43 138
MsG0680035636.01.T01 AT3G24500 58.947 95 37 1 1 93 1 95 3.81e-33 111
MsG0680035636.01.T01 AT3G58680 46.154 104 56 0 6 109 4 107 7.53e-24 89.4
MsG0680035636.01.T01 AT2G42680 45.192 104 57 0 6 109 4 107 4.27e-23 87.4

Find 36 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GGTTCGGAGGGCTTGGTTTA+TGG 0.142766 6:-109794849 None:intergenic
ACCCTTTCATTAATCATTTC+GGG 0.196748 6:-109795068 None:intergenic
AACCCTTTCATTAATCATTT+CGG 0.212324 6:-109795069 None:intergenic
CTGCTCCGGTTCGGAGGGCT+TGG 0.299889 6:-109794856 None:intergenic
AGGGCTTGGTTTATGGCCTT+TGG 0.306456 6:-109794842 None:intergenic
TTACGAAGGTCTTGTGCTTT+GGG 0.313592 6:-109794818 None:intergenic
GTTACGAAGGTCTTGTGCTT+TGG 0.324998 6:-109794819 None:intergenic
CGCGATACAGAAAGCGCGTT+TGG 0.332684 6:+109795012 MsG0680035636.01.T01:CDS
GAAGATGAGTCAAGGTGATT+TGG 0.369482 6:+109795039 MsG0680035636.01.T01:CDS
AAGGTCTTGTGCTTTGGGTT+TGG 0.379299 6:-109794813 None:intergenic
AGCTTCCTCGCGTTTAAAAC+CGG 0.385062 6:-109794935 None:intergenic
GGGCTTGGTTTATGGCCTTT+GGG 0.397588 6:-109794841 None:intergenic
GCTAGATGAAGCGGCTGAAC+CGG 0.412538 6:+109794955 MsG0680035636.01.T01:CDS
CTGAACCGGCAGCGTTGGAG+CGG 0.424143 6:+109794969 MsG0680035636.01.T01:CDS
TAGGAACAATAAAACAAGAC+TGG 0.459948 6:+109794768 MsG0680035636.01.T01:CDS
GCAGCGTTGGAGCGGGTTGG+TGG 0.463582 6:+109794977 MsG0680035636.01.T01:CDS
AGCGGCTGAACCGGCAGCGT+TGG 0.470397 6:+109794964 MsG0680035636.01.T01:CDS
ATAAACCAAGCCCTCCGAAC+CGG 0.471149 6:+109794851 MsG0680035636.01.T01:CDS
GACTGTTAAGACCTCTGCTC+CGG 0.499262 6:-109794870 None:intergenic
TTAAGACCTCTGCTCCGGTT+CGG 0.505245 6:-109794865 None:intergenic
GACCTCTGCTCCGGTTCGGA+GGG 0.511130 6:-109794861 None:intergenic
TGAACCGGCAGCGTTGGAGC+GGG 0.513996 6:+109794970 MsG0680035636.01.T01:CDS
AGACCTCTGCTCCGGTTCGG+AGG 0.519624 6:-109794862 None:intergenic
ATTGTTCCTACTGTTCGTGT+CGG 0.524804 6:-109794755 None:intergenic
TTTAAAACCGGTCCGCTCGT+CGG 0.530698 6:-109794923 None:intergenic
CCAACCCGCTCCAACGCTGC+CGG 0.561045 6:-109794974 None:intergenic
CGCGAGGAAGCTAGATGAAG+CGG 0.564479 6:+109794946 MsG0680035636.01.T01:CDS
AGCCCTCCGAACCGGAGCAG+AGG 0.582656 6:+109794859 MsG0680035636.01.T01:CDS
CCGGCAGCGTTGGAGCGGGT+TGG 0.582916 6:+109794974 MsG0680035636.01.T01:CDS
TTATGGCCTTTGGGTTACGA+AGG 0.594530 6:-109794832 None:intergenic
AGGAACAATAAAACAAGACT+GGG 0.609753 6:+109794769 MsG0680035636.01.T01:CDS
AAAACAAGACTGGGAACCAG+TGG 0.626445 6:+109794778 MsG0680035636.01.T01:CDS
AGGATGCCGACACGAACAGT+AGG 0.635380 6:+109794749 None:intergenic
ACAGTCAAGAAACCAACAGC+CGG 0.641212 6:+109794887 MsG0680035636.01.T01:CDS
TTGGATAAGAAGATGAGTCA+AGG 0.656596 6:+109795031 MsG0680035636.01.T01:CDS
ACAAGACCTTCGTAACCCAA+AGG 0.679598 6:+109794826 MsG0680035636.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGGAACAATAAAACAAGACT+GGG + Chr6:109794769-109794788 MsG0680035636.01.T01:CDS 30.0%
TAGGAACAATAAAACAAGAC+TGG + Chr6:109794768-109794787 MsG0680035636.01.T01:CDS 30.0%
TTGGATAAGAAGATGAGTCA+AGG + Chr6:109795031-109795050 MsG0680035636.01.T01:CDS 35.0%
ATTGTTCCTACTGTTCGTGT+CGG - Chr6:109794758-109794777 None:intergenic 40.0%
GAAGATGAGTCAAGGTGATT+TGG + Chr6:109795039-109795058 MsG0680035636.01.T01:CDS 40.0%
! TTACGAAGGTCTTGTGCTTT+GGG - Chr6:109794821-109794840 None:intergenic 40.0%
AAAACAAGACTGGGAACCAG+TGG + Chr6:109794778-109794797 MsG0680035636.01.T01:CDS 45.0%
ACAAGACCTTCGTAACCCAA+AGG + Chr6:109794826-109794845 MsG0680035636.01.T01:CDS 45.0%
ACAGTCAAGAAACCAACAGC+CGG + Chr6:109794887-109794906 MsG0680035636.01.T01:CDS 45.0%
TCGAACAAAAAACCGACGAG+CGG + Chr6:109794911-109794930 MsG0680035636.01.T01:CDS 45.0%
! AAGGTCTTGTGCTTTGGGTT+TGG - Chr6:109794816-109794835 None:intergenic 45.0%
! AGCTTCCTCGCGTTTAAAAC+CGG - Chr6:109794938-109794957 None:intergenic 45.0%
! GTTACGAAGGTCTTGTGCTT+TGG - Chr6:109794822-109794841 None:intergenic 45.0%
! TTATGGCCTTTGGGTTACGA+AGG - Chr6:109794835-109794854 None:intergenic 45.0%
! TTTTTGTTCGAACCGGCTGT+TGG - Chr6:109794902-109794921 None:intergenic 45.0%
!!! CGTCGGTTTTTTGTTCGAAC+CGG - Chr6:109794909-109794928 None:intergenic 45.0%
!!! GTGCTTTGGGTTTGGTTTTG+TGG - Chr6:109794808-109794827 None:intergenic 45.0%
!!! TTGGTTTTGTGGAGAACCAC+TGG - Chr6:109794797-109794816 None:intergenic 45.0%
ATAAACCAAGCCCTCCGAAC+CGG + Chr6:109794851-109794870 MsG0680035636.01.T01:CDS 50.0%
GACTGTTAAGACCTCTGCTC+CGG - Chr6:109794873-109794892 None:intergenic 50.0%
TTAAGACCTCTGCTCCGGTT+CGG - Chr6:109794868-109794887 None:intergenic 50.0%
! AGGGCTTGGTTTATGGCCTT+TGG - Chr6:109794845-109794864 None:intergenic 50.0%
! GGGCTTGGTTTATGGCCTTT+GGG - Chr6:109794844-109794863 None:intergenic 50.0%
! TTTAAAACCGGTCCGCTCGT+CGG - Chr6:109794926-109794945 None:intergenic 50.0%
CAAAAAACCGACGAGCGGAC+CGG + Chr6:109794916-109794935 MsG0680035636.01.T01:CDS 55.0%
CGCGAGGAAGCTAGATGAAG+CGG + Chr6:109794946-109794965 MsG0680035636.01.T01:CDS 55.0%
GCTAGATGAAGCGGCTGAAC+CGG + Chr6:109794955-109794974 MsG0680035636.01.T01:CDS 55.0%
! CGCGATACAGAAAGCGCGTT+TGG + Chr6:109795012-109795031 MsG0680035636.01.T01:CDS 55.0%
! GGTTCGGAGGGCTTGGTTTA+TGG - Chr6:109794852-109794871 None:intergenic 55.0%
!!! GCGGACCGGTTTTAAACGCG+AGG + Chr6:109794930-109794949 MsG0680035636.01.T01:CDS 60.0%
! CTGAACCGGCAGCGTTGGAG+CGG + Chr6:109794969-109794988 MsG0680035636.01.T01:CDS 65.0%
! TGAACCGGCAGCGTTGGAGC+GGG + Chr6:109794970-109794989 MsG0680035636.01.T01:CDS 65.0%
!! AGACCTCTGCTCCGGTTCGG+AGG - Chr6:109794865-109794884 None:intergenic 65.0%
!! GACCTCTGCTCCGGTTCGGA+GGG - Chr6:109794864-109794883 None:intergenic 65.0%
AGCCCTCCGAACCGGAGCAG+AGG + Chr6:109794859-109794878 MsG0680035636.01.T01:CDS 70.0%
AGCGGCTGAACCGGCAGCGT+TGG + Chr6:109794964-109794983 MsG0680035636.01.T01:CDS 70.0%
CCAACCCGCTCCAACGCTGC+CGG - Chr6:109794977-109794996 None:intergenic 70.0%
!! CTGCTCCGGTTCGGAGGGCT+TGG - Chr6:109794859-109794878 None:intergenic 70.0%
!! GCAGCGTTGGAGCGGGTTGG+TGG + Chr6:109794977-109794996 MsG0680035636.01.T01:CDS 70.0%
! CCGGCAGCGTTGGAGCGGGT+TGG + Chr6:109794974-109794993 MsG0680035636.01.T01:CDS 75.0%
Chromosome Type Strat End Strand Name
Chr6 gene 109794752 109795081 109794752 ID=MsG0680035636.01;Name=MsG0680035636.01
Chr6 mRNA 109794752 109795081 109794752 ID=MsG0680035636.01.T01;Parent=MsG0680035636.01;Name=MsG0680035636.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|109
Chr6 exon 109794752 109795081 109794752 ID=MsG0680035636.01.T01:exon:14642;Parent=MsG0680035636.01.T01
Chr6 CDS 109794752 109795081 109794752 ID=MsG0680035636.01.T01:cds;Parent=MsG0680035636.01.T01
Gene Sequence

>MsG0680035636.01.T01

ATGCCGACACGAACAGTAGGAACAATAAAACAAGACTGGGAACCAGTGGTTCTCCACAAAACCAAACCCAAAGCACAAGACCTTCGTAACCCAAAGGCCATAAACCAAGCCCTCCGAACCGGAGCAGAGGTCTTAACAGTCAAGAAACCAACAGCCGGTTCGAACAAAAAACCGACGAGCGGACCGGTTTTAAACGCGAGGAAGCTAGATGAAGCGGCTGAACCGGCAGCGTTGGAGCGGGTTGGTGGAGAAGTGAGACACGCGATACAGAAAGCGCGTTTGGATAAGAAGATGAGTCAAGGTGATTTGGCGAAATCCCGAAATGATTAA
Protein sequence

>MsG0680035636.01.T01

MPTRTVGTIKQDWEPVVLHKTKPKAQDLRNPKAINQALRTGAEVLTVKKPTAGSNKKPTSGPVLNARKLDEAAEPAALERVGGEVRHAIQKARLDKKMSQGDLAKSRND*