AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene047199

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047199.t1 MTR_2g006170 100.000 135 0 0 1 135 1 135 4.36e-95 270
MS.gene047199.t1 MTR_2g035930 99.259 135 1 0 1 135 1 135 1.94e-94 268
MS.gene047199.t1 MTR_3g048580 64.179 67 15 2 70 135 38 96 2.91e-19 77.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047199.t1 AT4G15000 85.926 135 19 0 1 135 1 135 2.61e-83 240
MS.gene047199.t1 AT3G22230 85.926 135 19 0 1 135 1 135 3.75e-83 240
MS.gene047199.t1 AT2G32220 80.741 135 26 0 1 135 1 135 1.73e-78 228
MS.gene047199.t1 AT4G15000 84.553 123 19 0 1 123 1 123 1.40e-72 213

Find 33 sgRNAs with CRISPR-Local

Find 34 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTTCTTCGAACCTCTTCT+TGG 0.194010 2.2:-73411093 None:intergenic
TACGGTCATTGCTTGGTTGC+AGG 0.251311 2.2:+73410867 MS.gene047199:CDS
CACTCTGGATGTTGATTTGA+AGG 0.342388 2.2:+73411010 MS.gene047199:CDS
TCCAGCTAAGGTGATCAAAA+AGG 0.344805 2.2:+73410902 MS.gene047199:CDS
AAGACTATCACCGCTTTGTT+TGG 0.370063 2.2:-73410774 None:intergenic
TTCGAAGAAAGGTTCAAAAC+TGG 0.371776 2.2:+73411104 MS.gene047199:CDS
AGGACGTTACGCTGGCAAAA+AGG 0.377725 2.2:+73410800 MS.gene047199:CDS
GGTTCAAAACTGGGAAGAAC+AGG 0.438118 2.2:+73411114 MS.gene047199:CDS
TAAGAAGGTCACTGCTTTGA+AGG 0.444100 2.2:+73411067 MS.gene047199:CDS
TGCAAAGAAATCGCGTGTTA+AGG 0.450525 2.2:+73410941 MS.gene047199:CDS
GGAACCCGTGAACGCGCTTA+CGG 0.471361 2.2:+73410849 MS.gene047199:CDS
AATGACCGTAAGCGCGTTCA+CGG 0.475100 2.2:-73410854 None:intergenic
ACGGTCATTGCTTGGTTGCA+GGG 0.480537 2.2:+73410868 MS.gene047199:CDS
CCAAGAAGAGGTTCGAAGAA+AGG 0.486021 2.2:+73411093 MS.gene047199:CDS
GGTGGTTCTTCACCAAGCTC+AGG 0.503030 2.2:+73411135 MS.gene047199:CDS
ACGCGCTTACGGTCATTGCT+TGG 0.513021 2.2:+73410860 MS.gene047199:CDS
CACTGATGTTCTTCAGAGCA+AGG 0.541833 2.2:+73411043 MS.gene047199:CDS
GCTAACTCAAAACCTGAGCT+TGG 0.550830 2.2:-73411147 None:intergenic
TCTTCAGAGCAAGGATAAGA+AGG 0.557777 2.2:+73411052 MS.gene047199:CDS
TATGCCAACACGTTACACTC+TGG 0.586595 2.2:+73410995 MS.gene047199:CDS
ATCGTGAAGAACTTTGATGA+TGG 0.589985 2.2:+73410828 MS.gene047199:CDS
TCGAAGAAAGGTTCAAAACT+GGG 0.592072 2.2:+73411105 MS.gene047199:CDS
ATGACCGTAAGCGCGTTCAC+GGG 0.604580 2.2:-73410853 None:intergenic
GTCTTACAAGGACGTTACGC+TGG 0.605916 2.2:+73410792 MS.gene047199:CDS
GATCAAGAAGTATCCAGCTA+AGG 0.616060 2.2:+73410890 MS.gene047199:CDS
CTTTGAAGGAGGCCAAGAAG+AGG 0.631043 2.2:+73411081 MS.gene047199:CDS
ACATCCAGAGTGTAACGTGT+TGG 0.631735 2.2:-73410999 None:intergenic
GAAGGTCACTGCTTTGAAGG+AGG 0.643354 2.2:+73411070 MS.gene047199:CDS
TCAAAACTGGGAAGAACAGG+TGG 0.653226 2.2:+73411117 MS.gene047199:CDS
AAAGCGGTGATAGTCTTACA+AGG 0.664690 2.2:+73410780 MS.gene047199:CDS
CTTGCTCTGAAGAACATCAG+TGG 0.671311 2.2:-73411042 None:intergenic
TCTGGATGTTGATTTGAAGG+AGG 0.686222 2.2:+73411013 MS.gene047199:CDS
ATTCTTGAAGCCAAACAAAG+CGG 0.699139 2.2:+73410764 MS.gene047199:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCGTGAAGAACTTTGATGA+TGG + chr2.2:73410828-73410847 MS.gene047199:CDS 35.0%
ATTCTTGAAGCCAAACAAAG+CGG + chr2.2:73410764-73410783 MS.gene047199:CDS 35.0%
TCGAAGAAAGGTTCAAAACT+GGG + chr2.2:73411105-73411124 MS.gene047199:CDS 35.0%
TTCGAAGAAAGGTTCAAAAC+TGG + chr2.2:73411104-73411123 MS.gene047199:CDS 35.0%
! TGTTAAGGCTTTTGTGAAGT+TGG + chr2.2:73410956-73410975 MS.gene047199:CDS 35.0%
TAAGAAGGTCACTGCTTTGA+AGG + chr2.2:73411067-73411086 MS.gene047199:CDS 40.0%
TCCAGCTAAGGTGATCAAAA+AGG + chr2.2:73410902-73410921 MS.gene047199:CDS 40.0%
TCTTCAGAGCAAGGATAAGA+AGG + chr2.2:73411052-73411071 MS.gene047199:CDS 40.0%
TGCAAAGAAATCGCGTGTTA+AGG + chr2.2:73410941-73410960 MS.gene047199:CDS 40.0%
! AAAGCGGTGATAGTCTTACA+AGG + chr2.2:73410780-73410799 MS.gene047199:CDS 40.0%
! AAGACTATCACCGCTTTGTT+TGG - chr2.2:73410777-73410796 None:intergenic 40.0%
! TCCTTTTTGATCACCTTAGC+TGG - chr2.2:73410906-73410925 None:intergenic 40.0%
!! CACTCTGGATGTTGATTTGA+AGG + chr2.2:73411010-73411029 MS.gene047199:CDS 40.0%
!! GATCAAGAAGTATCCAGCTA+AGG + chr2.2:73410890-73410909 MS.gene047199:CDS 40.0%
!! TCTGGATGTTGATTTGAAGG+AGG + chr2.2:73411013-73411032 MS.gene047199:CDS 40.0%
ACATCCAGAGTGTAACGTGT+TGG - chr2.2:73411002-73411021 None:intergenic 45.0%
CACTGATGTTCTTCAGAGCA+AGG + chr2.2:73411043-73411062 MS.gene047199:CDS 45.0%
CCAAGAAGAGGTTCGAAGAA+AGG + chr2.2:73411093-73411112 MS.gene047199:CDS 45.0%
CCTTTCTTCGAACCTCTTCT+TGG - chr2.2:73411096-73411115 None:intergenic 45.0%
GGTTCAAAACTGGGAAGAAC+AGG + chr2.2:73411114-73411133 MS.gene047199:CDS 45.0%
TATGCCAACACGTTACACTC+TGG + chr2.2:73410995-73411014 MS.gene047199:CDS 45.0%
TCAAAACTGGGAAGAACAGG+TGG + chr2.2:73411117-73411136 MS.gene047199:CDS 45.0%
!! CTTGCTCTGAAGAACATCAG+TGG - chr2.2:73411045-73411064 None:intergenic 45.0%
AATGACCGTAAGCGCGTTCA+CGG - chr2.2:73410857-73410876 None:intergenic 50.0%
ACGGTCATTGCTTGGTTGCA+GGG + chr2.2:73410868-73410887 MS.gene047199:CDS 50.0%
AGGACGTTACGCTGGCAAAA+AGG + chr2.2:73410800-73410819 MS.gene047199:CDS 50.0%
GTCTTACAAGGACGTTACGC+TGG + chr2.2:73410792-73410811 MS.gene047199:CDS 50.0%
TACGGTCATTGCTTGGTTGC+AGG + chr2.2:73410867-73410886 MS.gene047199:CDS 50.0%
! CTTTGAAGGAGGCCAAGAAG+AGG + chr2.2:73411081-73411100 MS.gene047199:CDS 50.0%
!! GAAGGTCACTGCTTTGAAGG+AGG + chr2.2:73411070-73411089 MS.gene047199:CDS 50.0%
ACGCGCTTACGGTCATTGCT+TGG + chr2.2:73410860-73410879 MS.gene047199:CDS 55.0%
ATGACCGTAAGCGCGTTCAC+GGG - chr2.2:73410856-73410875 None:intergenic 55.0%
GGTGGTTCTTCACCAAGCTC+AGG + chr2.2:73411135-73411154 MS.gene047199:CDS 55.0%
GGAACCCGTGAACGCGCTTA+CGG + chr2.2:73410849-73410868 MS.gene047199:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.2 gene 73410756 73411163 73410756 ID=MS.gene047199
chr2.2 mRNA 73410756 73411163 73410756 ID=MS.gene047199.t1;Parent=MS.gene047199
chr2.2 exon 73410756 73411163 73410756 ID=MS.gene047199.t1.exon1;Parent=MS.gene047199.t1
chr2.2 CDS 73410756 73411163 73410756 ID=cds.MS.gene047199.t1;Parent=MS.gene047199.t1
Gene Sequence

>MS.gene047199

ATGGTGAAATTCTTGAAGCCAAACAAAGCGGTGATAGTCTTACAAGGACGTTACGCTGGCAAAAAGGCTGTCATCGTGAAGAACTTTGATGATGGAACCCGTGAACGCGCTTACGGTCATTGCTTGGTTGCAGGGATCAAGAAGTATCCAGCTAAGGTGATCAAAAAGGATTCAGCTAAGAAAACTGCAAAGAAATCGCGTGTTAAGGCTTTTGTGAAGTTGGTTAACTATCAGCATCTTATGCCAACACGTTACACTCTGGATGTTGATTTGAAGGAGGTTGTTACCACTGATGTTCTTCAGAGCAAGGATAAGAAGGTCACTGCTTTGAAGGAGGCCAAGAAGAGGTTCGAAGAAAGGTTCAAAACTGGGAAGAACAGGTGGTTCTTCACCAAGCTCAGGTTTTGA
Protein sequence

>MS.gene047199.t1

MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRERAYGHCLVAGIKKYPAKVIKKDSAKKTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEERFKTGKNRWFFTKLRF