AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780036067.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036067.01.T01 MTR_7g007120 68.421 171 9 1 11 136 11 181 2.45e-78 229
MsG0780036067.01.T01 MTR_7g007200 67.836 171 10 1 11 136 11 181 3.41e-78 229
MsG0780036067.01.T01 MTR_7g007220 68.421 171 9 1 11 136 11 181 5.58e-78 228
MsG0780036067.01.T01 MTR_7g007120 68.235 170 9 1 12 136 12 181 1.19e-77 228
MsG0780036067.01.T01 MTR_7g007120 67.836 171 10 1 11 136 11 181 1.19e-77 228
MsG0780036067.01.T01 MTR_7g007230 66.471 170 12 1 12 136 12 181 1.96e-75 222
MsG0780036067.01.T01 MTR_6g018310 60.894 179 24 2 4 136 2 180 7.98e-71 210
MsG0780036067.01.T01 MTR_6g018300 59.777 179 23 3 4 136 2 177 2.14e-67 201
MsG0780036067.01.T01 MTR_7g007210 66.234 154 7 1 11 119 11 164 2.30e-65 197
MsG0780036067.01.T01 MTR_4g127870 48.649 74 38 0 62 135 96 169 1.24e-26 98.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780036067.01.T01 AT5G38410 50.549 182 40 3 1 136 1 178 6.53e-55 170
MsG0780036067.01.T01 AT5G38410 49.198 187 40 3 1 136 1 183 5.45e-54 168
MsG0780036067.01.T01 AT5G38430 49.451 182 42 3 1 136 1 178 2.83e-53 166
MsG0780036067.01.T01 AT5G38430 49.451 182 42 3 1 136 1 178 2.83e-53 166
MsG0780036067.01.T01 AT1G67090 49.451 182 42 3 1 136 1 178 3.38e-53 166
MsG0780036067.01.T01 AT5G38420 49.451 182 42 3 1 136 1 178 5.83e-53 165
MsG0780036067.01.T01 AT5G38410 50.286 175 44 4 1 136 1 171 2.40e-51 161
MsG0780036067.01.T01 AT1G67090 42.857 119 48 7 1 118 1 100 5.61e-14 64.7

Find 39 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTTTGTTGACCTTTGTAAC+TGG 0.323260 7:-2055114 None:intergenic
GATACTATGACGGACGTTAC+TGG 0.345500 7:+2055773 MsG0780036067.01.T01:CDS
CTTTACTAGTGAACTAAGTA+AGG 0.376005 7:+2054970 MsG0780036067.01.T01:five_prime_UTR
GGCGCGGTGGCTTCATTCGT+TGG 0.385432 7:+2055069 MsG0780036067.01.T01:CDS
ATGTGGAAGTTGCCTTTGTT+TGG 0.411503 7:+2055799 MsG0780036067.01.T01:CDS
GAAATTACAAACAGAACAAA+TGG 0.425519 7:-2056012 None:intergenic
TACAGTTAACCGTGCCTCTT+CGG 0.432912 7:+2055038 MsG0780036067.01.T01:CDS
ATGATACGGACAAAGGCATC+AGG 0.443523 7:-2055877 None:intergenic
TGATGCTTCTCATGTGTTGA+AGG 0.444137 7:+2055828 MsG0780036067.01.T01:CDS
AATTTACTATCTGCCATTGA+AGG 0.468057 7:+2055974 MsG0780036067.01.T01:three_prime_UTR
GATGCCTTTGTCCGTATCAT+CGG 0.484184 7:+2055880 MsG0780036067.01.T01:CDS
CGTGCCTCTTCGGTACAATC+TGG 0.487772 7:+2055048 MsG0780036067.01.T01:CDS
CTTTGTTGACCTTTGTAACT+GGG 0.514716 7:-2055113 None:intergenic
TCTCAAATTTAGTAGACTGC+AGG 0.515110 7:-2055952 None:intergenic
CGTGAGAACCACAGTTCACC+AGG 0.516570 7:+2055751 MsG0780036067.01.T01:CDS
TCTTCCACCATTGCTTGCAA+TGG 0.537419 7:-2055145 None:intergenic
GTTGGACTAAAGTCCATGGC+TGG 0.555609 7:+2055087 MsG0780036067.01.T01:CDS
TAACGTCCGTCATAGTATCC+TGG 0.560465 7:-2055769 None:intergenic
AGCTGAAGAGGACATGATAG+AGG 0.561007 7:-2055010 None:intergenic
ACTTCCATTGCAAGCAATGG+TGG 0.573273 7:+2055141 MsG0780036067.01.T01:CDS
CGTTGTCGAATCCGATGATA+CGG 0.577082 7:-2055891 None:intergenic
TTTACTAGTGAACTAAGTAA+GGG 0.581770 7:+2054971 MsG0780036067.01.T01:five_prime_UTR
ATTACTTCCATTGCAAGCAA+TGG 0.582522 7:+2055138 MsG0780036067.01.T01:CDS
CTGGTGAACTGTGGTTCTCA+CGG 0.583102 7:-2055750 None:intergenic
ATTCGTTGGACTAAAGTCCA+TGG 0.591787 7:+2055083 MsG0780036067.01.T01:CDS
CGCGCCAGATTGTACCGAAG+AGG 0.592678 7:-2055052 None:intergenic
GGCTGGCTTCCCAGTTACAA+AGG 0.593536 7:+2055104 MsG0780036067.01.T01:CDS
AACTGTAGTCACAGCTGAAG+AGG 0.597051 7:-2055022 None:intergenic
GCATCAGTTGCTCCAAACAA+AGG 0.598394 7:-2055811 None:intergenic
TTCGGTACAATCTGGCGCGG+TGG 0.607482 7:+2055056 MsG0780036067.01.T01:CDS
TGTAACTGGGAAGCCAGCCA+TGG 0.615947 7:-2055100 None:intergenic
CATAGTATCCTGGTGAACTG+TGG 0.641120 7:-2055759 None:intergenic
CTCTTCGGTACAATCTGGCG+CGG 0.651184 7:+2055053 MsG0780036067.01.T01:CDS
CAGATTGTACCGAAGAGGCA+CGG 0.652303 7:-2055047 None:intergenic
TGGAAGAGTAAACTGCATGC+AGG 0.652563 7:+2055161 MsG0780036067.01.T01:CDS
TGATACGGACAAAGGCATCA+GGG 0.656050 7:-2055876 None:intergenic
AGTTCACCAGGATACTATGA+CGG 0.676016 7:+2055763 MsG0780036067.01.T01:CDS
GAATCCGATGATACGGACAA+AGG 0.687909 7:-2055884 None:intergenic
ACGGACGTTACTGGACAATG+TGG 0.708236 7:+2055782 MsG0780036067.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTTCCTTTAAAAAGAAA+AGG - Chr7:2056037-2056056 None:intergenic 15.0%
!!! TAATTTCCTTTTCTTTTTAA+AGG + Chr7:2056028-2056047 MsG0780036067.01.T01:intron 15.0%
!!! TTCAAATTTTGTTCAATTTT+AGG + Chr7:2055452-2055471 MsG0780036067.01.T01:intron 15.0%
!!! AAATATCTCCATTGTTTTTT+CGG + Chr7:2056051-2056070 MsG0780036067.01.T01:three_prime_UTR 20.0%
! AAGAAGTAGAATACCTTATA+AGG + Chr7:2055550-2055569 MsG0780036067.01.T01:intron 25.0%
! AGAAAAAAATGTTCCTTCAA+TGG - Chr7:2055990-2056009 None:intergenic 25.0%
! AGTAAATGAATATTAGACCT+CGG - Chr7:2055607-2055626 None:intergenic 25.0%
! GAAATTACAAACAGAACAAA+TGG - Chr7:2056015-2056034 None:intergenic 25.0%
! TAAGTAAGGGAGAAAAAAAA+TGG + Chr7:2054984-2055003 MsG0780036067.01.T01:exon 25.0%
! TTAAAGAGTAACATGTCATA+TGG - Chr7:2055340-2055359 None:intergenic 25.0%
! TTTACTAGTGAACTAAGTAA+GGG + Chr7:2054971-2054990 MsG0780036067.01.T01:five_prime_UTR 25.0%
!! AACGTACATGTTACATATTT+TGG + Chr7:2055397-2055416 MsG0780036067.01.T01:intron 25.0%
!!! ATTTTGTTCAATTTTAGGTG+TGG + Chr7:2055457-2055476 MsG0780036067.01.T01:intron 25.0%
!!! GATTTTGAAATGCAAATAGA+TGG + Chr7:2056086-2056105 MsG0780036067.01.T01:three_prime_UTR 25.0%
!!! TGTTTGTTTTGATTTCTACT+TGG + Chr7:2055703-2055722 MsG0780036067.01.T01:intron 25.0%
!!! TTACATATTTTGGTACTAGA+AGG + Chr7:2055407-2055426 MsG0780036067.01.T01:intron 25.0%
AATTTACTATCTGCCATTGA+AGG + Chr7:2055974-2055993 MsG0780036067.01.T01:three_prime_UTR 30.0%
AGTAGAATACCTTATAAGGA+AGG + Chr7:2055554-2055573 MsG0780036067.01.T01:intron 30.0%
CTTTACTAGTGAACTAAGTA+AGG + Chr7:2054970-2054989 MsG0780036067.01.T01:five_prime_UTR 30.0%
GGTTACTTGAATAGCATTAA+AGG + Chr7:2055428-2055447 MsG0780036067.01.T01:intron 30.0%
GTAGAATACCTTATAAGGAA+GGG + Chr7:2055555-2055574 MsG0780036067.01.T01:intron 30.0%
!! ATATAATCGTTGTTTTGTCG+TGG + Chr7:2055646-2055665 MsG0780036067.01.T01:intron 30.0%
AATACCTTATAAGGAAGGGA+TGG + Chr7:2055559-2055578 MsG0780036067.01.T01:intron 35.0%
AATTGTTATCTGGTCAATGG+TGG - Chr7:2055525-2055544 None:intergenic 35.0%
ACCATTGACCAGATAACAAT+TGG + Chr7:2055524-2055543 MsG0780036067.01.T01:intron 35.0%
AGCAAAGACCGAAAAAACAA+TGG - Chr7:2056062-2056081 None:intergenic 35.0%
ATACCTTATAAGGAAGGGAT+GGG + Chr7:2055560-2055579 MsG0780036067.01.T01:intron 35.0%
ATTACTTCCATTGCAAGCAA+TGG + Chr7:2055138-2055157 MsG0780036067.01.T01:CDS 35.0%
CAATCCAAACAAGTCATAGA+AGG - Chr7:2055216-2055235 None:intergenic 35.0%
CATAGAAGGTGATATAAAGC+AGG - Chr7:2055202-2055221 None:intergenic 35.0%
CTTTGTTGACCTTTGTAACT+GGG - Chr7:2055116-2055135 None:intergenic 35.0%
TCAAACTTCTTCTTGCCAAT+AGG - Chr7:2055486-2055505 None:intergenic 35.0%
TCTCAAATTTAGTAGACTGC+AGG - Chr7:2055955-2055974 None:intergenic 35.0%
TCTTTGTTGACCTTTGTAAC+TGG - Chr7:2055117-2055136 None:intergenic 35.0%
TTCTTTCGCCAATTGTTATC+TGG - Chr7:2055535-2055554 None:intergenic 35.0%
!! ATCACCTTCTATGACTTGTT+TGG + Chr7:2055209-2055228 MsG0780036067.01.T01:intron 35.0%
!!! GTTTTTTCGGTCTTTGCTTT+CGG + Chr7:2056064-2056083 MsG0780036067.01.T01:three_prime_UTR 35.0%
AACTTCTTCTTGCCAATAGG+AGG - Chr7:2055483-2055502 None:intergenic 40.0%
AGTTCACCAGGATACTATGA+CGG + Chr7:2055763-2055782 MsG0780036067.01.T01:CDS 40.0%
ATGTGGAAGTTGCCTTTGTT+TGG + Chr7:2055799-2055818 MsG0780036067.01.T01:CDS 40.0%
ATTCGTTGGACTAAAGTCCA+TGG + Chr7:2055083-2055102 MsG0780036067.01.T01:CDS 40.0%
CAAATTTGTGACTGTGACCT+TGG - Chr7:2055672-2055691 None:intergenic 40.0%
CTACTTGGTTACTTGCAGAA+AGG + Chr7:2055718-2055737 MsG0780036067.01.T01:intron 40.0%
GCCAATTGTTATCTGGTCAA+TGG - Chr7:2055528-2055547 None:intergenic 40.0%
TGATGCTTCTCATGTGTTGA+AGG + Chr7:2055828-2055847 MsG0780036067.01.T01:CDS 40.0%
AACTGTAGTCACAGCTGAAG+AGG - Chr7:2055025-2055044 None:intergenic 45.0%
ACTTCCATTGCAAGCAATGG+TGG + Chr7:2055141-2055160 MsG0780036067.01.T01:CDS 45.0%
AGCTGAAGAGGACATGATAG+AGG - Chr7:2055013-2055032 None:intergenic 45.0%
CAACCCATCCCTTCCTTATA+AGG - Chr7:2055566-2055585 None:intergenic 45.0%
CATAGTATCCTGGTGAACTG+TGG - Chr7:2055762-2055781 None:intergenic 45.0%
CGTTGTCGAATCCGATGATA+CGG - Chr7:2055894-2055913 None:intergenic 45.0%
GAATCCGATGATACGGACAA+AGG - Chr7:2055887-2055906 None:intergenic 45.0%
GATGCCTTTGTCCGTATCAT+CGG + Chr7:2055880-2055899 MsG0780036067.01.T01:CDS 45.0%
GCATCAGTTGCTCCAAACAA+AGG - Chr7:2055814-2055833 None:intergenic 45.0%
TAACGTCCGTCATAGTATCC+TGG - Chr7:2055772-2055791 None:intergenic 45.0%
TACAGTTAACCGTGCCTCTT+CGG + Chr7:2055038-2055057 MsG0780036067.01.T01:CDS 45.0%
TCTTCCACCATTGCTTGCAA+TGG - Chr7:2055148-2055167 None:intergenic 45.0%
TGGAAGAGTAAACTGCATGC+AGG + Chr7:2055161-2055180 MsG0780036067.01.T01:CDS 45.0%
!! ATGATACGGACAAAGGCATC+AGG - Chr7:2055880-2055899 None:intergenic 45.0%
!! GATACTATGACGGACGTTAC+TGG + Chr7:2055773-2055792 MsG0780036067.01.T01:CDS 45.0%
!! TGATACGGACAAAGGCATCA+GGG - Chr7:2055879-2055898 None:intergenic 45.0%
!! TTTTAGGTGTGGCCTCCTAT+TGG + Chr7:2055468-2055487 MsG0780036067.01.T01:intron 45.0%
ACGGACGTTACTGGACAATG+TGG + Chr7:2055782-2055801 MsG0780036067.01.T01:CDS 50.0%
AGACCTCGGTCTCAAATTCC+AGG - Chr7:2055593-2055612 None:intergenic 50.0%
CAGATTGTACCGAAGAGGCA+CGG - Chr7:2055050-2055069 None:intergenic 50.0%
CTGGTGAACTGTGGTTCTCA+CGG - Chr7:2055753-2055772 None:intergenic 50.0%
GTTGGACTAAAGTCCATGGC+TGG + Chr7:2055087-2055106 MsG0780036067.01.T01:CDS 50.0%
!! TCGTTGTTTTGTCGTGGCCA+AGG + Chr7:2055652-2055671 MsG0780036067.01.T01:intron 50.0%
CGTGAGAACCACAGTTCACC+AGG + Chr7:2055751-2055770 MsG0780036067.01.T01:CDS 55.0%
CGTGCCTCTTCGGTACAATC+TGG + Chr7:2055048-2055067 MsG0780036067.01.T01:CDS 55.0%
CTCGGTCTCAAATTCCAGGC+AGG - Chr7:2055589-2055608 None:intergenic 55.0%
CTCTTCGGTACAATCTGGCG+CGG + Chr7:2055053-2055072 MsG0780036067.01.T01:CDS 55.0%
TGTAACTGGGAAGCCAGCCA+TGG - Chr7:2055103-2055122 None:intergenic 55.0%
! CTGCCTGGAATTTGAGACCG+AGG + Chr7:2055587-2055606 MsG0780036067.01.T01:intron 55.0%
!! GGCTGGCTTCCCAGTTACAA+AGG + Chr7:2055104-2055123 MsG0780036067.01.T01:CDS 55.0%
CGCGCCAGATTGTACCGAAG+AGG - Chr7:2055055-2055074 None:intergenic 60.0%
TTCGGTACAATCTGGCGCGG+TGG + Chr7:2055056-2055075 MsG0780036067.01.T01:CDS 60.0%
GGCGCGGTGGCTTCATTCGT+TGG + Chr7:2055069-2055088 MsG0780036067.01.T01:CDS 65.0%
!! GAAGGGATGGGTTGCCTGCC+TGG + Chr7:2055572-2055591 MsG0780036067.01.T01:intron 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 2054964 2056146 2054964 ID=MsG0780036067.01;Name=MsG0780036067.01
Chr7 mRNA 2054964 2056146 2054964 ID=MsG0780036067.01.T01;Parent=MsG0780036067.01;Name=MsG0780036067.01.T01;_AED=0.50;_eAED=0.50;_QI=39|0.5|1|1|0.5|0.33|3|157|136
Chr7 exon 2054964 2055182 2054964 ID=MsG0780036067.01.T01:exon:15624;Parent=MsG0780036067.01.T01
Chr7 exon 2055736 2056026 2055736 ID=MsG0780036067.01.T01:exon:15625;Parent=MsG0780036067.01.T01
Chr7 exon 2056050 2056146 2056050 ID=MsG0780036067.01.T01:exon:15626;Parent=MsG0780036067.01.T01
Chr7 five_prime_UTR 2054964 2055002 2054964 ID=MsG0780036067.01.T01:five_prime_utr;Parent=MsG0780036067.01.T01
Chr7 CDS 2055003 2055182 2055003 ID=MsG0780036067.01.T01:cds;Parent=MsG0780036067.01.T01
Chr7 CDS 2055736 2055966 2055736 ID=MsG0780036067.01.T01:cds;Parent=MsG0780036067.01.T01
Chr7 three_prime_UTR 2055967 2056026 2055967 ID=MsG0780036067.01.T01:three_prime_utr;Parent=MsG0780036067.01.T01
Chr7 three_prime_UTR 2056050 2056146 2056050 ID=MsG0780036067.01.T01:three_prime_utr;Parent=MsG0780036067.01.T01
Gene Sequence

>MsG0780036067.01.T01

ATGGCTTCCTCTATCATGTCCTCTTCAGCTGTGACTACAGTTAACCGTGCCTCTTCGGTACAATCTGGCGCGGTGGCTTCATTCGTTGGACTAAAGTCCATGGCTGGCTTCCCAGTTACAAAGGTCAACAAAGACATTACTTCCATTGCAAGCAATGGTGGAAGAGTAAACTGCATGCAGAAAGGATTTGTGTACCGTGAGAACCACAGTTCACCAGGATACTATGACGGACGTTACTGGACAATGTGGAAGTTGCCTTTGTTTGGAGCAACTGATGCTTCTCATGTGTTGAAGGAGCTTGATGAAGCTATTGCTGCTTACCCTGATGCCTTTGTCCGTATCATCGGATTCGACAACGTTCATCAAGTTCAATGCATCAGTTTCATTGCACACACACCTGCAGTCTACTAA

Protein sequence

>MsG0780036067.01.T01

MASSIMSSSAVTTVNRASSVQSGAVASFVGLKSMAGFPVTKVNKDITSIASNGGRVNCMQKGFVYRENHSSPGYYDGRYWTMWKLPLFGATDASHVLKELDEAIAAYPDAFVRIIGFDNVHQVQCISFIAHTPAVY*