AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007327.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007327.01.T01 MTR_2g020930 96.403 139 5 0 24 162 1 139 5.83e-100 284
MsG0280007327.01.T01 MTR_2g020950 92.086 139 10 1 24 162 1 138 3.64e-92 264
MsG0280007327.01.T01 MTR_4g092800 77.206 136 31 0 23 158 54 189 1.33e-78 231
MsG0280007327.01.T01 MTR_2g020900 74.809 131 32 1 32 162 20 149 4.41e-70 208
MsG0280007327.01.T01 MTR_8g461030 43.200 125 66 2 34 155 80 202 2.75e-30 109
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007327.01.T01 AT4G04830 76.978 139 32 0 24 162 1 139 1.04e-80 235
MsG0280007327.01.T01 AT4G21860 78.986 138 28 1 23 159 64 201 7.69e-80 235
MsG0280007327.01.T01 AT4G21860 78.986 138 28 1 23 159 64 201 7.69e-80 235
MsG0280007327.01.T01 AT4G21860 78.986 138 28 1 23 159 64 201 7.69e-80 235
MsG0280007327.01.T01 AT4G04810 73.723 137 36 0 24 160 1 137 2.41e-76 224
MsG0280007327.01.T01 AT4G04800 69.718 142 42 1 18 159 35 175 1.21e-72 216
MsG0280007327.01.T01 AT4G04830 70.504 139 31 1 24 162 1 129 2.08e-70 209
MsG0280007327.01.T01 AT4G21850 67.176 131 43 0 23 153 7 137 3.73e-68 203
MsG0280007327.01.T01 AT4G21840 63.380 142 46 1 24 159 1 142 2.11e-67 201
MsG0280007327.01.T01 AT4G21830 70.161 124 37 0 30 153 11 134 1.74e-66 199
MsG0280007327.01.T01 AT4G21830 70.161 124 37 0 30 153 14 137 5.27e-66 198
MsG0280007327.01.T01 AT4G04840 63.768 138 50 0 16 153 9 146 8.75e-65 195
MsG0280007327.01.T01 AT4G04810 74.118 85 22 0 24 108 1 85 8.59e-45 143
MsG0280007327.01.T01 AT4G21860 72.222 90 25 0 25 114 67 156 3.25e-44 144
MsG0280007327.01.T01 AT4G21850 61.628 86 33 0 23 108 7 92 1.96e-39 130
MsG0280007327.01.T01 AT1G53670 47.154 123 60 3 34 153 74 194 2.37e-33 117
MsG0280007327.01.T01 AT1G53670 41.463 123 60 4 34 153 74 187 7.28e-26 97.8

Find 53 sgRNAs with CRISPR-Local

Find 65 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTAAATTTGTGAACGTTTC+AGG 0.128184 2:+13672142 None:intergenic
ATAATTACTCAGTTCCTTTC+TGG 0.153041 2:+13671957 None:intergenic
CCTTATAACAATAACTGTTT+TGG 0.222670 2:+13671209 None:intergenic
CCAAAACAGTTATTGTTATA+AGG 0.223362 2:-13671209 MsG0280007327.01.T01:three_prime_UTR
GCTTTCTTTGAGGGTTTCCC+TGG 0.246507 2:-13671567 MsG0280007327.01.T01:CDS
TATGGAAGAAGTAGCATTTC+CGG 0.273975 2:+13671306 None:intergenic
TCTTCTACCAAATTTGATTC+AGG 0.294875 2:-13671603 MsG0280007327.01.T01:CDS
TTCTAGCTTGTAGTCTTGTT+TGG 0.318244 2:-13671237 MsG0280007327.01.T01:three_prime_UTR
ATTACTTTATAATGAATTAG+AGG 0.330162 2:-13671277 MsG0280007327.01.T01:three_prime_UTR
GCCACAACCTGAATCAAATT+TGG 0.333002 2:+13671596 None:intergenic
GGCTGGCCTGCTTTCTTTGA+GGG 0.344700 2:-13671576 MsG0280007327.01.T01:CDS
ACCAAATTTGATTCAGGTTG+TGG 0.370623 2:-13671597 MsG0280007327.01.T01:CDS
TGGCTGGCCTGCTTTCTTTG+AGG 0.381890 2:-13671577 MsG0280007327.01.T01:CDS
TTATAAAGTAATGTTTCATA+TGG 0.390191 2:+13671288 None:intergenic
CTTTCTTTGAGGGTTTCCCT+GGG 0.391349 2:-13671566 MsG0280007327.01.T01:CDS
GTTTCTGTCAAGTTTATTCC+CGG 0.396456 2:-13671325 MsG0280007327.01.T01:CDS
TATAACAAGTTCTTTGAAGA+AGG 0.421708 2:-13671666 MsG0280007327.01.T01:CDS
CAAGCAAGTGTGCGTGCAAA+AGG 0.427139 2:+13672083 None:intergenic
GAAGGGATTTACAATTGTAC+TGG 0.445202 2:-13671648 MsG0280007327.01.T01:CDS
ATGGAAGAAGTAGCATTTCC+GGG 0.448524 2:+13671307 None:intergenic
ATCTCAGTCCTCCTACCATC+TGG 0.449986 2:+13671439 None:intergenic
GGATTACATGTGCAGATTGA+AGG 0.451748 2:-13671700 MsG0280007327.01.T01:intron
GTCCTCCTACCATCTGGATC+AGG 0.457223 2:+13671445 None:intergenic
TCGAGAAATCTGAGGAAGAA+TGG 0.462125 2:-13672018 MsG0280007327.01.T01:CDS
ATTCAAAGGTGAAGGGTTCA+AGG 0.467580 2:-13671380 MsG0280007327.01.T01:CDS
ATGTGCAGATTGAAGGGTAC+TGG 0.475174 2:-13671693 MsG0280007327.01.T01:intron
TAGCTTGTAGTCTTGTTTGG+TGG 0.478609 2:-13671234 MsG0280007327.01.T01:three_prime_UTR
AATTTGATTCAGGTTGTGGC+TGG 0.480441 2:-13671593 MsG0280007327.01.T01:CDS
TTGGTAGAAGACTTGTAAAG+TGG 0.482126 2:+13671615 None:intergenic
ATTTACAATTGTACTGGATG+TGG 0.487952 2:-13671642 MsG0280007327.01.T01:CDS
GGTCATGTATTCAAAGGTGA+AGG 0.496687 2:-13671388 MsG0280007327.01.T01:CDS
CGAAGGATGTGAAACTGCTC+AGG 0.522030 2:+13671980 None:intergenic
ATAACAAGTTCTTTGAAGAA+GGG 0.522344 2:-13671665 MsG0280007327.01.T01:CDS
ACACAATGACGTTCATCAGT+TGG 0.524963 2:+13671355 None:intergenic
TGTAAATCAAAATAAGTCAA+TGG 0.526690 2:-13672059 MsG0280007327.01.T01:CDS
GATTACATGTGCAGATTGAA+GGG 0.530242 2:-13671699 MsG0280007327.01.T01:intron
ACAGAGCGATTGATAGCCCC+AGG 0.531190 2:+13671549 None:intergenic
ACTCAGTTCCTTTCTGGCGA+AGG 0.533241 2:+13671963 None:intergenic
TTTCACATCCTTCGCCAGAA+AGG 0.538872 2:-13671971 MsG0280007327.01.T01:CDS
AAACTGCTCAGGTGAAAGAA+TGG 0.546804 2:+13671991 None:intergenic
GGGAAACCCTCAAAGAAAGC+AGG 0.549621 2:+13671570 None:intergenic
GCAGCATGTGGTGGGCACTT+AGG 0.567542 2:-13671409 MsG0280007327.01.T01:CDS
CACTTAGGTCATGTATTCAA+AGG 0.577855 2:-13671394 MsG0280007327.01.T01:CDS
GTCATGTATTCAAAGGTGAA+GGG 0.604484 2:-13671387 MsG0280007327.01.T01:CDS
AGCCTGATCCAGATGGTAGG+AGG 0.605106 2:-13671447 MsG0280007327.01.T01:CDS
TAACTTGTGCAGCATGTGGT+GGG 0.643462 2:-13671417 MsG0280007327.01.T01:CDS
TCAGTCTAAACTGTGCTCAG+TGG 0.650903 2:+13671181 None:intergenic
ATAACTTGTGCAGCATGTGG+TGG 0.656642 2:-13671418 MsG0280007327.01.T01:CDS
TTCAGCCTGATCCAGATGGT+AGG 0.658719 2:-13671450 MsG0280007327.01.T01:intron
ATCATCAATCGAGAAATCTG+AGG 0.659784 2:-13672026 MsG0280007327.01.T01:CDS
TTTCTTTGAGGGTTTCCCTG+GGG 0.668641 2:-13671565 MsG0280007327.01.T01:CDS
GAGATAACTTGTGCAGCATG+TGG 0.695279 2:-13671421 MsG0280007327.01.T01:CDS
CAGAGCGATTGATAGCCCCA+GGG 0.720864 2:+13671550 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATAAATCAATTATAATCAT+CGG + Chr2:13671461-13671480 None:intergenic 10.0%
!! ATTACTTTATAATGAATTAG+AGG - Chr2:13672030-13672049 MsG0280007327.01.T01:CDS 15.0%
!! TTATAAAGTAATGTTTCATA+TGG + Chr2:13672022-13672041 None:intergenic 15.0%
!! ATTAAGTTCCATTATTATCA+TGG + Chr2:13671829-13671848 None:intergenic 20.0%
!! TGTAAATCAAAATAAGTCAA+TGG - Chr2:13671248-13671267 MsG0280007327.01.T01:three_prime_UTR 20.0%
! ATACATGATAATAGAACCTT+AGG - Chr2:13671574-13671593 MsG0280007327.01.T01:CDS 25.0%
! ATTAAATTTGTGAACGTTTC+AGG + Chr2:13671168-13671187 None:intergenic 25.0%
! CCAAAACAGTTATTGTTATA+AGG - Chr2:13672098-13672117 MsG0280007327.01.T01:CDS 25.0%
! CTATGAGTAAAATCAGATTA+TGG - Chr2:13671407-13671426 MsG0280007327.01.T01:CDS 25.0%
! CTTCTTAACCATGATAATAA+TGG - Chr2:13671818-13671837 MsG0280007327.01.T01:intron 25.0%
!! ATAACAAGTTCTTTGAAGAA+GGG - Chr2:13671642-13671661 MsG0280007327.01.T01:CDS 25.0%
!! CCTTATAACAATAACTGTTT+TGG + Chr2:13672101-13672120 None:intergenic 25.0%
!! TATAACAAGTTCTTTGAAGA+AGG - Chr2:13671641-13671660 MsG0280007327.01.T01:CDS 25.0%
ATAATTACTCAGTTCCTTTC+TGG + Chr2:13671353-13671372 None:intergenic 30.0%
ATTTACAATTGTACTGGATG+TGG - Chr2:13671665-13671684 MsG0280007327.01.T01:CDS 30.0%
TAATCCAATTTCATTGCCTA+AGG + Chr2:13671593-13671612 None:intergenic 30.0%
TCTTCTACCAAATTTGATTC+AGG - Chr2:13671704-13671723 MsG0280007327.01.T01:intron 30.0%
AGAACCTTAGGCAATGAAAT+TGG - Chr2:13671586-13671605 MsG0280007327.01.T01:CDS 35.0%
ATCATCAATCGAGAAATCTG+AGG - Chr2:13671281-13671300 MsG0280007327.01.T01:three_prime_UTR 35.0%
CACTTAGGTCATGTATTCAA+AGG - Chr2:13671913-13671932 MsG0280007327.01.T01:intron 35.0%
GAAGGGATTTACAATTGTAC+TGG - Chr2:13671659-13671678 MsG0280007327.01.T01:CDS 35.0%
GATTACATGTGCAGATTGAA+GGG - Chr2:13671608-13671627 MsG0280007327.01.T01:CDS 35.0%
GTCATGTATTCAAAGGTGAA+GGG - Chr2:13671920-13671939 MsG0280007327.01.T01:intron 35.0%
GTTTCTGTCAAGTTTATTCC+CGG - Chr2:13671982-13672001 MsG0280007327.01.T01:CDS 35.0%
TATCATGCCATGAACTATTG+TGG - Chr2:13671526-13671545 MsG0280007327.01.T01:intron 35.0%
TATGGAAGAAGTAGCATTTC+CGG + Chr2:13672004-13672023 None:intergenic 35.0%
TTCATTGCCACAATAGTTCA+TGG + Chr2:13671536-13671555 None:intergenic 35.0%
TTGGTAGAAGACTTGTAAAG+TGG + Chr2:13671695-13671714 None:intergenic 35.0%
!! ACCAAATTTGATTCAGGTTG+TGG - Chr2:13671710-13671729 MsG0280007327.01.T01:intron 35.0%
!! TTCTAGCTTGTAGTCTTGTT+TGG - Chr2:13672070-13672089 MsG0280007327.01.T01:CDS 35.0%
AAACTGCTCAGGTGAAAGAA+TGG + Chr2:13671319-13671338 None:intergenic 40.0%
ACACAATGACGTTCATCAGT+TGG + Chr2:13671955-13671974 None:intergenic 40.0%
ATCTGGATCAGGCTGAAAAT+GGG + Chr2:13671854-13671873 None:intergenic 40.0%
ATGGAAGAAGTAGCATTTCC+GGG + Chr2:13672003-13672022 None:intergenic 40.0%
ATTCAAAGGTGAAGGGTTCA+AGG - Chr2:13671927-13671946 MsG0280007327.01.T01:intron 40.0%
GCCACAACCTGAATCAAATT+TGG + Chr2:13671714-13671733 None:intergenic 40.0%
GGATTACATGTGCAGATTGA+AGG - Chr2:13671607-13671626 MsG0280007327.01.T01:CDS 40.0%
GGTCATGTATTCAAAGGTGA+AGG - Chr2:13671919-13671938 MsG0280007327.01.T01:intron 40.0%
TCGAGAAATCTGAGGAAGAA+TGG - Chr2:13671289-13671308 MsG0280007327.01.T01:exon 40.0%
!! AATTTGATTCAGGTTGTGGC+TGG - Chr2:13671714-13671733 MsG0280007327.01.T01:intron 40.0%
!! TAGCTTGTAGTCTTGTTTGG+TGG - Chr2:13672073-13672092 MsG0280007327.01.T01:CDS 40.0%
CATCTGGATCAGGCTGAAAA+TGG + Chr2:13671855-13671874 None:intergenic 45.0%
TCAGTCTAAACTGTGCTCAG+TGG + Chr2:13672129-13672148 None:intergenic 45.0%
TTTCACATCCTTCGCCAGAA+AGG - Chr2:13671336-13671355 MsG0280007327.01.T01:CDS 45.0%
! ATAACTTGTGCAGCATGTGG+TGG - Chr2:13671889-13671908 MsG0280007327.01.T01:intron 45.0%
! ATGTGCAGATTGAAGGGTAC+TGG - Chr2:13671614-13671633 MsG0280007327.01.T01:CDS 45.0%
! CATTTTCAGCCTGATCCAGA+TGG - Chr2:13671853-13671872 MsG0280007327.01.T01:intron 45.0%
! CTTTCTTTGAGGGTTTCCCT+GGG - Chr2:13671741-13671760 MsG0280007327.01.T01:intron 45.0%
! GAGATAACTTGTGCAGCATG+TGG - Chr2:13671886-13671905 MsG0280007327.01.T01:intron 45.0%
! TAACTTGTGCAGCATGTGGT+GGG - Chr2:13671890-13671909 MsG0280007327.01.T01:intron 45.0%
! TTTCTTTGAGGGTTTCCCTG+GGG - Chr2:13671742-13671761 MsG0280007327.01.T01:intron 45.0%
ATCTCAGTCCTCCTACCATC+TGG + Chr2:13671871-13671890 None:intergenic 50.0%
CAAGCAAGTGTGCGTGCAAA+AGG + Chr2:13671227-13671246 None:intergenic 50.0%
CGAAGGATGTGAAACTGCTC+AGG + Chr2:13671330-13671349 None:intergenic 50.0%
GGGAAACCCTCAAAGAAAGC+AGG + Chr2:13671740-13671759 None:intergenic 50.0%
TTCAGCCTGATCCAGATGGT+AGG - Chr2:13671857-13671876 MsG0280007327.01.T01:intron 50.0%
! ACTCAGTTCCTTTCTGGCGA+AGG + Chr2:13671347-13671366 None:intergenic 50.0%
! GCTTTCTTTGAGGGTTTCCC+TGG - Chr2:13671740-13671759 MsG0280007327.01.T01:intron 50.0%
AGCCTGATCCAGATGGTAGG+AGG - Chr2:13671860-13671879 MsG0280007327.01.T01:intron 55.0%
GTCCTCCTACCATCTGGATC+AGG + Chr2:13671865-13671884 None:intergenic 55.0%
! ACAGAGCGATTGATAGCCCC+AGG + Chr2:13671761-13671780 None:intergenic 55.0%
! CAGAGCGATTGATAGCCCCA+GGG + Chr2:13671760-13671779 None:intergenic 55.0%
!! GGCTGGCCTGCTTTCTTTGA+GGG - Chr2:13671731-13671750 MsG0280007327.01.T01:intron 55.0%
!! TGGCTGGCCTGCTTTCTTTG+AGG - Chr2:13671730-13671749 MsG0280007327.01.T01:intron 55.0%
!! GCAGCATGTGGTGGGCACTT+AGG - Chr2:13671898-13671917 MsG0280007327.01.T01:intron 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 13671164 13672165 13671164 ID=MsG0280007327.01;Name=MsG0280007327.01
Chr2 mRNA 13671164 13672165 13671164 ID=MsG0280007327.01.T01;Parent=MsG0280007327.01;Name=MsG0280007327.01.T01;_AED=0.27;_eAED=0.27;_QI=34|1|1|1|1|1|3|139|162
Chr2 exon 13671164 13671467 13671164 ID=MsG0280007327.01.T01:exon:5779;Parent=MsG0280007327.01.T01
Chr2 exon 13671551 13671707 13671551 ID=MsG0280007327.01.T01:exon:5778;Parent=MsG0280007327.01.T01
Chr2 exon 13671965 13672165 13671965 ID=MsG0280007327.01.T01:exon:5777;Parent=MsG0280007327.01.T01
Chr2 five_prime_UTR 13672132 13672165 13672132 ID=MsG0280007327.01.T01:five_prime_utr;Parent=MsG0280007327.01.T01
Chr2 CDS 13671965 13672131 13671965 ID=MsG0280007327.01.T01:cds;Parent=MsG0280007327.01.T01
Chr2 CDS 13671551 13671707 13671551 ID=MsG0280007327.01.T01:cds;Parent=MsG0280007327.01.T01
Chr2 CDS 13671303 13671467 13671303 ID=MsG0280007327.01.T01:cds;Parent=MsG0280007327.01.T01
Chr2 three_prime_UTR 13671164 13671302 13671164 ID=MsG0280007327.01.T01:three_prime_utr;Parent=MsG0280007327.01.T01
Gene Sequence

>MsG0280007327.01.T01

ATGATTCAATTTGATCACTATAAATTCCTTTTGCACGCACACTTGCTTGATGTAAATCAAAATAAGTCAATGGCATCAACAGCATCATCAATCGAGAAATCTGAGGAAGAATGGAGAGCCATTCTTTCACCTGAGCAGTTTCACATCCTTCGCCAGAAAGGAACTGAATTGAAGGGTACTGGAGAGTATAACAAGTTCTTTGAAGAAGGGATTTACAATTGTACTGGATGTGGAACTCCACTTTACAAGTCTTCTACCAAATTTGATTCAGGTTGTGGCTGGCCTGCTTTCTTTGAGGGTTTCCCTGGGGCTATCAATCGCTCTCCTGATCCAGATGGTAGGAGGACTGAGATAACTTGTGCAGCATGTGGTGGGCACTTAGGTCATGTATTCAAAGGTGAAGGGTTCAAGGTTCCAACTGATGAACGTCATTGTGTCAACAGTGTTTCTGTCAAGTTTATTCCCGGAAATGCTACTTCTTCCATATGA

Protein sequence

>MsG0280007327.01.T01

MIQFDHYKFLLHAHLLDVNQNKSMASTASSIEKSEEEWRAILSPEQFHILRQKGTELKGTGEYNKFFEEGIYNCTGCGTPLYKSSTKFDSGCGWPAFFEGFPGAINRSPDPDGRRTEITCAACGGHLGHVFKGEGFKVPTDERHCVNSVSVKFIPGNATSSI*