AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene005349

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005349.t1 MTR_2g035930 97.778 135 3 0 1 135 1 135 2.86e-92 263
MS.gene005349.t1 MTR_2g006170 97.037 135 4 0 1 135 1 135 1.30e-91 261
MS.gene005349.t1 MTR_3g048580 62.319 69 25 1 67 135 29 96 3.58e-19 76.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene005349.t1 AT4G15000 85.185 135 20 0 1 135 1 135 3.19e-81 235
MS.gene005349.t1 AT3G22230 85.185 135 20 0 1 135 1 135 4.90e-81 234
MS.gene005349.t1 AT2G32220 79.259 135 28 0 1 135 1 135 1.66e-75 221
MS.gene005349.t1 AT4G15000 83.740 123 20 0 1 123 1 123 1.62e-70 208

Find 39 sgRNAs with CRISPR-Local

Find 38 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACGATGACGGCTTTCTTCC+CGG 0.266318 1.1:+62696136 None:intergenic
TACGGCCATTGTCTTGTTGC+AGG 0.322088 1.1:-62696080 MS.gene005349:CDS
CACACTTGATGTTGATTTGA+AGG 0.351053 1.1:-62695937 MS.gene005349:CDS
AGGACGATGACGACCTTGTT+TGG 0.356098 1.1:+62696173 None:intergenic
GGTTTAAGACTGGGAAGAAT+AGG 0.401208 1.1:-62695833 MS.gene005349:CDS
TACTGATGTTCTTCAGAGTA+AGG 0.417538 1.1:-62695904 MS.gene005349:CDS
TCCCGGCGTAGCGTCCTTGA+AGG 0.429146 1.1:+62696153 None:intergenic
TAAGAAGGTGACTGCTTTGA+AGG 0.432710 1.1:-62695880 MS.gene005349:CDS
TCCTTCTTGATAACCTTAGC+TGG 0.439811 1.1:+62696044 None:intergenic
TCCTTCAAGGACGCTACGCC+GGG 0.449272 1.1:-62696154 MS.gene005349:CDS
AAGGTCGTCATCGTCCTTCA+AGG 0.458008 1.1:-62696167 MS.gene005349:CDS
GGTGGTTCTTTACCAAGCTC+AGG 0.462687 1.1:-62695812 MS.gene005349:CDS
CTTCACACGCGATTTCTTCG+CGG 0.465894 1.1:+62696007 None:intergenic
GTCGAAATTCTTCACGATGA+CGG 0.503904 1.1:+62696124 None:intergenic
TTCGAGGAGAGGTTTAAGAC+TGG 0.506310 1.1:-62695843 MS.gene005349:CDS
CGCGAAGAAATCGCGTGTGA+AGG 0.515996 1.1:-62696006 MS.gene005349:CDS
GCGAAGAAATCGCGTGTGAA+GGG 0.527543 1.1:-62696005 MS.gene005349:CDS
AACGCGTCGGCATCAGATGC+TGG 0.532906 1.1:+62695961 None:intergenic
CGAAGAAGAGGTTCGAGGAG+AGG 0.532977 1.1:-62695854 MS.gene005349:CDS
TCCAGCTAAGGTTATCAAGA+AGG 0.538513 1.1:-62696045 MS.gene005349:CDS
TCGAGGAGAGGTTTAAGACT+GGG 0.540939 1.1:-62695842 MS.gene005349:CDS
AACAGCTCAAAACCTGAGCT+TGG 0.543643 1.1:+62695800 None:intergenic
GGAACCCGTGACTGTGCATA+CGG 0.554047 1.1:-62696098 MS.gene005349:CDS
ACGGCCATTGTCTTGTTGCA+GGG 0.554142 1.1:-62696079 MS.gene005349:CDS
GTCCTTCAAGGACGCTACGC+CGG 0.559359 1.1:-62696155 MS.gene005349:CDS
TCTTCAGAGTAAGGATAAGA+AGG 0.568239 1.1:-62695895 MS.gene005349:CDS
CAAGTTTCTGAAGCCAAACA+AGG 0.584133 1.1:-62696186 MS.gene005349:CDS
CTTTGAAGGAGGCGAAGAAG+AGG 0.602084 1.1:-62695866 MS.gene005349:CDS
GATCAAGAAGTATCCAGCTA+AGG 0.602579 1.1:-62696057 MS.gene005349:CDS
CGAAGAAATCGCGTGTGAAG+GGG 0.603203 1.1:-62696004 MS.gene005349:CDS
GGAGGCGAAGAAGAGGTTCG+AGG 0.607573 1.1:-62695859 MS.gene005349:CDS
TTAAGACTGGGAAGAATAGG+TGG 0.614047 1.1:-62695830 MS.gene005349:CDS
AATGGCCGTATGCACAGTCA+CGG 0.618464 1.1:+62696093 None:intergenic
ATGGCCGTATGCACAGTCAC+GGG 0.620590 1.1:+62696094 None:intergenic
TGATCCCTGCAACAAGACAA+TGG 0.637766 1.1:+62696075 None:intergenic
GAAGGTGACTGCTTTGAAGG+AGG 0.640915 1.1:-62695877 MS.gene005349:CDS
ACATCAAGTGTGTAACGCGT+CGG 0.653766 1.1:+62695948 None:intergenic
ACTTGATGTTGATTTGAAGG+AGG 0.687643 1.1:-62695934 MS.gene005349:CDS
ATCGTGAAGAATTTCGACGA+CGG 0.729202 1.1:-62696119 MS.gene005349:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
TACTGATGTTCTTCAGAGTA+AGG - chr1.1:62696093-62696112 MS.gene005349:CDS 35.0%
TCTTCAGAGTAAGGATAAGA+AGG - chr1.1:62696102-62696121 MS.gene005349:CDS 35.0%
!! ACTTGATGTTGATTTGAAGG+AGG - chr1.1:62696063-62696082 MS.gene005349:CDS 35.0%
!! CACACTTGATGTTGATTTGA+AGG - chr1.1:62696060-62696079 MS.gene005349:CDS 35.0%
ATCGTGAAGAATTTCGACGA+CGG - chr1.1:62695878-62695897 MS.gene005349:CDS 40.0%
GTCGAAATTCTTCACGATGA+CGG + chr1.1:62695876-62695895 None:intergenic 40.0%
TAAGAAGGTGACTGCTTTGA+AGG - chr1.1:62696117-62696136 MS.gene005349:CDS 40.0%
TCCAGCTAAGGTTATCAAGA+AGG - chr1.1:62695952-62695971 MS.gene005349:CDS 40.0%
TTAAGACTGGGAAGAATAGG+TGG - chr1.1:62696167-62696186 MS.gene005349:CDS 40.0%
! GGTTTAAGACTGGGAAGAAT+AGG - chr1.1:62696164-62696183 MS.gene005349:CDS 40.0%
! TCCTTCTTGATAACCTTAGC+TGG + chr1.1:62695956-62695975 None:intergenic 40.0%
!! CAAGTTTCTGAAGCCAAACA+AGG - chr1.1:62695811-62695830 MS.gene005349:CDS 40.0%
!! GATCAAGAAGTATCCAGCTA+AGG - chr1.1:62695940-62695959 MS.gene005349:CDS 40.0%
ACATCAAGTGTGTAACGCGT+CGG + chr1.1:62696052-62696071 None:intergenic 45.0%
TGATCCCTGCAACAAGACAA+TGG + chr1.1:62695925-62695944 None:intergenic 45.0%
! TCGAGGAGAGGTTTAAGACT+GGG - chr1.1:62696155-62696174 MS.gene005349:CDS 45.0%
! TTCGAGGAGAGGTTTAAGAC+TGG - chr1.1:62696154-62696173 MS.gene005349:CDS 45.0%
AAGGTCGTCATCGTCCTTCA+AGG - chr1.1:62695830-62695849 MS.gene005349:CDS 50.0%
AATGGCCGTATGCACAGTCA+CGG + chr1.1:62695907-62695926 None:intergenic 50.0%
AGGACGATGACGACCTTGTT+TGG + chr1.1:62695827-62695846 None:intergenic 50.0%
CGAAGAAATCGCGTGTGAAG+GGG - chr1.1:62695993-62696012 MS.gene005349:CDS 50.0%
CTTCACACGCGATTTCTTCG+CGG + chr1.1:62695993-62696012 None:intergenic 50.0%
GCGAAGAAATCGCGTGTGAA+GGG - chr1.1:62695992-62696011 MS.gene005349:CDS 50.0%
GGTGGTTCTTTACCAAGCTC+AGG - chr1.1:62696185-62696204 MS.gene005349:CDS 50.0%
! ACGGCCATTGTCTTGTTGCA+GGG - chr1.1:62695918-62695937 MS.gene005349:CDS 50.0%
! CTTTGAAGGAGGCGAAGAAG+AGG - chr1.1:62696131-62696150 MS.gene005349:CDS 50.0%
! TACGGCCATTGTCTTGTTGC+AGG - chr1.1:62695917-62695936 MS.gene005349:CDS 50.0%
!! GAAGGTGACTGCTTTGAAGG+AGG - chr1.1:62696120-62696139 MS.gene005349:CDS 50.0%
ATGGCCGTATGCACAGTCAC+GGG + chr1.1:62695906-62695925 None:intergenic 55.0%
CGAAGAAGAGGTTCGAGGAG+AGG - chr1.1:62696143-62696162 MS.gene005349:CDS 55.0%
CGCGAAGAAATCGCGTGTGA+AGG - chr1.1:62695991-62696010 MS.gene005349:CDS 55.0%
GGAACCCGTGACTGTGCATA+CGG - chr1.1:62695899-62695918 MS.gene005349:CDS 55.0%
! CACGATGACGGCTTTCTTCC+CGG + chr1.1:62695864-62695883 None:intergenic 55.0%
GGAGGCGAAGAAGAGGTTCG+AGG - chr1.1:62696138-62696157 MS.gene005349:CDS 60.0%
GTCCTTCAAGGACGCTACGC+CGG - chr1.1:62695842-62695861 MS.gene005349:CDS 60.0%
TCCTTCAAGGACGCTACGCC+GGG - chr1.1:62695843-62695862 MS.gene005349:CDS 60.0%
! AACGCGTCGGCATCAGATGC+TGG + chr1.1:62696039-62696058 None:intergenic 60.0%
TCCCGGCGTAGCGTCCTTGA+AGG + chr1.1:62695847-62695866 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr1.1 gene 62695806 62696213 62695806 ID=MS.gene005349
chr1.1 mRNA 62695806 62696213 62695806 ID=MS.gene005349.t1;Parent=MS.gene005349
chr1.1 exon 62695806 62696213 62695806 ID=MS.gene005349.t1.exon1;Parent=MS.gene005349.t1
chr1.1 CDS 62695806 62696213 62695806 ID=cds.MS.gene005349.t1;Parent=MS.gene005349.t1
Gene Sequence

>MS.gene005349

ATGGTCAAGTTTCTGAAGCCAAACAAGGTCGTCATCGTCCTTCAAGGACGCTACGCCGGGAAGAAAGCCGTCATCGTGAAGAATTTCGACGACGGAACCCGTGACTGTGCATACGGCCATTGTCTTGTTGCAGGGATCAAGAAGTATCCAGCTAAGGTTATCAAGAAGGATTCAGCGAAGAAAACCGCGAAGAAATCGCGTGTGAAGGGGTTCGTGAAGCTTGTTAACTACCAGCATCTGATGCCGACGCGTTACACACTTGATGTTGATTTGAAGGAGGTTGTTACTACTGATGTTCTTCAGAGTAAGGATAAGAAGGTGACTGCTTTGAAGGAGGCGAAGAAGAGGTTCGAGGAGAGGTTTAAGACTGGGAAGAATAGGTGGTTCTTTACCAAGCTCAGGTTTTGA
Protein sequence

>MS.gene005349.t1

MVKFLKPNKVVIVLQGRYAGKKAVIVKNFDDGTRDCAYGHCLVAGIKKYPAKVIKKDSAKKTAKKSRVKGFVKLVNYQHLMPTRYTLDVDLKEVVTTDVLQSKDKKVTALKEAKKRFEERFKTGKNRWFFTKLRF