AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene002051

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene002051.t1 MTR_2g006170 100.000 135 0 0 1 135 1 135 4.36e-95 270
MS.gene002051.t1 MTR_2g035930 99.259 135 1 0 1 135 1 135 1.94e-94 268
MS.gene002051.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.gene002051.t1 AT4G15000 85.926 135 19 0 1 135 1 135 2.61e-83 240
MS.gene002051.t1 AT3G22230 85.926 135 19 0 1 135 1 135 3.75e-83 240
MS.gene002051.t1 AT2G32220 80.741 135 26 0 1 135 1 135 1.73e-78 228
MS.gene002051.t1 AT4G15000 84.553 123 19 0 1 123 1 123 1.40e-72 213

Find 34 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 2.3:-75779136 None:intergenic
TACGGTCATTGCTTGGTTGC+AGG 0.251311 2.3:+75778910 MS.gene002051:CDS
CACTCTGGATGTTGATTTGA+AGG 0.342388 2.3:+75779053 MS.gene002051:CDS
TTCGAAGAAAGGTTCAAAAC+TGG 0.371776 2.3:+75779147 MS.gene002051:CDS
AGGACGTTACGCTGGCAAAA+AGG 0.377725 2.3:+75778843 MS.gene002051:CDS
AAGACGATCACCGCTTTGTT+TGG 0.378594 2.3:-75778817 None:intergenic
CACTGATGTTCTTCAGAGTA+AGG 0.400378 2.3:+75779086 MS.gene002051:CDS
TCCTTCTTGATCACCTTAGC+TGG 0.435443 2.3:-75778946 None:intergenic
GGTTCAAAACTGGGAAGAAC+AGG 0.438118 2.3:+75779157 MS.gene002051:CDS
TAAGAAGGTCACTGCTTTGA+AGG 0.444100 2.3:+75779110 MS.gene002051:CDS
TGCAAAGAAATCGCGTGTTA+AGG 0.450525 2.3:+75778984 MS.gene002051:CDS
ACGGTCATTGCTTGGTTGCA+GGG 0.480537 2.3:+75778911 MS.gene002051:CDS
CCAAGAAGAGGTTCGAAGAA+AGG 0.486021 2.3:+75779136 MS.gene002051:CDS
GGAACCCGTGAACGTGCTTA+CGG 0.489757 2.3:+75778892 MS.gene002051:CDS
GGTGGTTCTTCACCAAGCTC+AGG 0.503030 2.3:+75779178 MS.gene002051:CDS
AATGACCGTAAGCACGTTCA+CGG 0.519577 2.3:-75778897 None:intergenic
GCTAACTCAAAACCTGAGCT+TGG 0.550830 2.3:-75779190 None:intergenic
TCTTCAGAGTAAGGATAAGA+AGG 0.568239 2.3:+75779095 MS.gene002051:CDS
GTCTTACAAGGACGTTACGC+TGG 0.570383 2.3:+75778835 MS.gene002051:CDS
ACGTGCTTACGGTCATTGCT+TGG 0.573817 2.3:+75778903 MS.gene002051:CDS
AAAGCGGTGATCGTCTTACA+AGG 0.580022 2.3:+75778823 MS.gene002051:CDS
TATGCCAACACGTTACACTC+TGG 0.586595 2.3:+75779038 MS.gene002051:CDS
ATCGTGAAGAACTTTGATGA+TGG 0.589985 2.3:+75778871 MS.gene002051:CDS
TCGAAGAAAGGTTCAAAACT+GGG 0.592072 2.3:+75779148 MS.gene002051:CDS
TCCAGCTAAGGTGATCAAGA+AGG 0.605612 2.3:+75778945 MS.gene002051:CDS
ATGACCGTAAGCACGTTCAC+GGG 0.610478 2.3:-75778896 None:intergenic
GATCAAGAAGTATCCAGCTA+AGG 0.616060 2.3:+75778933 MS.gene002051:CDS
CTTTGAAGGAGGCCAAGAAG+AGG 0.631043 2.3:+75779124 MS.gene002051:CDS
ACATCCAGAGTGTAACGTGT+TGG 0.631735 2.3:-75779042 None:intergenic
GAAGGTCACTGCTTTGAAGG+AGG 0.643354 2.3:+75779113 MS.gene002051:CDS
TCAAAACTGGGAAGAACAGG+TGG 0.653226 2.3:+75779160 MS.gene002051:CDS
TCTGGATGTTGATTTGAAGG+AGG 0.686222 2.3:+75779056 MS.gene002051:CDS
CTTACTCTGAAGAACATCAG+TGG 0.694910 2.3:-75779085 None:intergenic
ATTCTTGAAGCCAAACAAAG+CGG 0.699139 2.3:+75778807 MS.gene002051:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCGTGAAGAACTTTGATGA+TGG + chr2.3:75778871-75778890 MS.gene002051:CDS 35.0%
ATTCTTGAAGCCAAACAAAG+CGG + chr2.3:75778807-75778826 MS.gene002051:CDS 35.0%
TCGAAGAAAGGTTCAAAACT+GGG + chr2.3:75779148-75779167 MS.gene002051:CDS 35.0%
TCTTCAGAGTAAGGATAAGA+AGG + chr2.3:75779095-75779114 MS.gene002051:CDS 35.0%
TTCGAAGAAAGGTTCAAAAC+TGG + chr2.3:75779147-75779166 MS.gene002051:CDS 35.0%
! TGTTAAGGCTTTTGTGAAGT+TGG + chr2.3:75778999-75779018 MS.gene002051:CDS 35.0%
CACTGATGTTCTTCAGAGTA+AGG + chr2.3:75779086-75779105 MS.gene002051:CDS 40.0%
TAAGAAGGTCACTGCTTTGA+AGG + chr2.3:75779110-75779129 MS.gene002051:CDS 40.0%
TGCAAAGAAATCGCGTGTTA+AGG + chr2.3:75778984-75779003 MS.gene002051:CDS 40.0%
! CTTACTCTGAAGAACATCAG+TGG - chr2.3:75779088-75779107 None:intergenic 40.0%
!! CACTCTGGATGTTGATTTGA+AGG + chr2.3:75779053-75779072 MS.gene002051:CDS 40.0%
!! GATCAAGAAGTATCCAGCTA+AGG + chr2.3:75778933-75778952 MS.gene002051:CDS 40.0%
!! TCTGGATGTTGATTTGAAGG+AGG + chr2.3:75779056-75779075 MS.gene002051:CDS 40.0%
AAAGCGGTGATCGTCTTACA+AGG + chr2.3:75778823-75778842 MS.gene002051:CDS 45.0%
AATGACCGTAAGCACGTTCA+CGG - chr2.3:75778900-75778919 None:intergenic 45.0%
ACATCCAGAGTGTAACGTGT+TGG - chr2.3:75779045-75779064 None:intergenic 45.0%
CCAAGAAGAGGTTCGAAGAA+AGG + chr2.3:75779136-75779155 MS.gene002051:CDS 45.0%
CCTTTCTTCGAACCTCTTCT+TGG - chr2.3:75779139-75779158 None:intergenic 45.0%
GGTTCAAAACTGGGAAGAAC+AGG + chr2.3:75779157-75779176 MS.gene002051:CDS 45.0%
TATGCCAACACGTTACACTC+TGG + chr2.3:75779038-75779057 MS.gene002051:CDS 45.0%
TCAAAACTGGGAAGAACAGG+TGG + chr2.3:75779160-75779179 MS.gene002051:CDS 45.0%
TCCAGCTAAGGTGATCAAGA+AGG + chr2.3:75778945-75778964 MS.gene002051:CDS 45.0%
TCCTTCTTGATCACCTTAGC+TGG - chr2.3:75778949-75778968 None:intergenic 45.0%
! AAGACGATCACCGCTTTGTT+TGG - chr2.3:75778820-75778839 None:intergenic 45.0%
ACGGTCATTGCTTGGTTGCA+GGG + chr2.3:75778911-75778930 MS.gene002051:CDS 50.0%
ACGTGCTTACGGTCATTGCT+TGG + chr2.3:75778903-75778922 MS.gene002051:CDS 50.0%
AGGACGTTACGCTGGCAAAA+AGG + chr2.3:75778843-75778862 MS.gene002051:CDS 50.0%
ATGACCGTAAGCACGTTCAC+GGG - chr2.3:75778899-75778918 None:intergenic 50.0%
GTCTTACAAGGACGTTACGC+TGG + chr2.3:75778835-75778854 MS.gene002051:CDS 50.0%
TACGGTCATTGCTTGGTTGC+AGG + chr2.3:75778910-75778929 MS.gene002051:CDS 50.0%
! CTTTGAAGGAGGCCAAGAAG+AGG + chr2.3:75779124-75779143 MS.gene002051:CDS 50.0%
!! GAAGGTCACTGCTTTGAAGG+AGG + chr2.3:75779113-75779132 MS.gene002051:CDS 50.0%
GGAACCCGTGAACGTGCTTA+CGG + chr2.3:75778892-75778911 MS.gene002051:CDS 55.0%
GGTGGTTCTTCACCAAGCTC+AGG + chr2.3:75779178-75779197 MS.gene002051:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.3 gene 75778799 75779206 75778799 ID=MS.gene002051
chr2.3 mRNA 75778799 75779206 75778799 ID=MS.gene002051.t1;Parent=MS.gene002051
chr2.3 exon 75778799 75779206 75778799 ID=MS.gene002051.t1.exon1;Parent=MS.gene002051.t1
chr2.3 CDS 75778799 75779206 75778799 ID=cds.MS.gene002051.t1;Parent=MS.gene002051.t1
Gene Sequence

>MS.gene002051

ATGGTGAAATTCTTGAAGCCAAACAAAGCGGTGATCGTCTTACAAGGACGTTACGCTGGCAAAAAGGCTGTCATCGTGAAGAACTTTGATGATGGAACCCGTGAACGTGCTTACGGTCATTGCTTGGTTGCAGGGATCAAGAAGTATCCAGCTAAGGTGATCAAGAAGGATTCAGCTAAGAAAACTGCAAAGAAATCGCGTGTTAAGGCTTTTGTGAAGTTGGTTAACTATCAGCATCTTATGCCAACACGTTACACTCTGGATGTTGATTTGAAGGAGGTTGTTACCACTGATGTTCTTCAGAGTAAGGATAAGAAGGTCACTGCTTTGAAGGAGGCCAAGAAGAGGTTCGAAGAAAGGTTCAAAACTGGGAAGAACAGGTGGTTCTTCACCAAGCTCAGGTTTTGA
Protein sequence

>MS.gene002051.t1

MVKFLKPNKAVIVLQGRYAGKKAVIVKNFDDGTRERAYGHCLVAGIKKYPAKVIKKDSAKKTAKKSRVKAFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEERFKTGKNRWFFTKLRF