AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01060

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01060.t1 MTR_2g014200 89.216 102 9 1 1 100 1 102 1.06e-47 149
MS.gene01060.t1 MTR_4g088555 55.882 102 42 2 1 100 1 101 3.38e-25 92.0
MS.gene01060.t1 MTR_2g078770 51.020 49 24 0 52 100 48 96 5.37e-13 61.6
MS.gene01060.t1 MTR_8g005960 60.870 46 18 0 55 100 180 225 5.57e-13 63.2
MS.gene01060.t1 MTR_1g035010 46.154 78 37 2 23 100 70 142 9.07e-13 62.8
MS.gene01060.t1 MTR_7g110320 45.588 68 27 1 33 100 126 183 3.48e-12 61.2
MS.gene01060.t1 MTR_7g110320 45.588 68 27 1 33 100 126 183 4.14e-12 60.8
MS.gene01060.t1 MTR_8g463140 56.098 41 18 0 60 100 63 103 6.48e-12 58.9
MS.gene01060.t1 MTR_1g053715 54.167 48 22 0 53 100 65 112 9.33e-11 57.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01060.t1 AT1G02065 59.574 47 19 0 54 100 180 226 2.77e-13 63.5
MS.gene01060.t1 AT1G76580 63.415 41 15 0 60 100 112 152 3.96e-13 63.9
MS.gene01060.t1 AT1G20980 57.692 52 20 1 49 100 109 158 6.84e-13 63.2
MS.gene01060.t1 AT2G33810 58.824 51 18 1 53 100 42 92 7.06e-13 60.5
MS.gene01060.t1 AT1G76580 63.415 41 15 0 60 100 112 152 7.58e-13 63.2
MS.gene01060.t1 AT1G53160 50.000 60 30 0 41 100 33 92 8.07e-13 61.2
MS.gene01060.t1 AT1G53160 50.000 60 30 0 41 100 33 92 8.13e-13 61.2
MS.gene01060.t1 AT1G53160 50.000 60 30 0 41 100 33 92 8.13e-13 61.2
MS.gene01060.t1 AT1G76580 63.415 41 15 0 60 100 112 152 8.69e-13 63.2
MS.gene01060.t1 AT1G02065 64.286 42 15 0 59 100 185 226 9.03e-13 62.8
MS.gene01060.t1 AT3G60030 56.364 55 19 2 50 100 112 165 4.41e-12 60.8
MS.gene01060.t1 AT2G47070 50.000 58 25 1 43 100 91 144 1.27e-11 59.7

Find 26 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACAAACCTTATGGCGCTTA+TGG 0.248219 2.4:+70708831 None:intergenic
AATGGTATTCACAAACCTTA+TGG 0.308780 2.4:+70708822 None:intergenic
TTTACTTATGGATGGAAGTT+GGG 0.337434 2.4:-70709068 None:intergenic
GGTTTGTGAATACCATTCTA+AGG 0.368542 2.4:-70708816 MS.gene01060:CDS
GAAGAGGAAGATGTGAGTTA+TGG 0.375825 2.4:-70708986 MS.gene01060:CDS
CTTTACTTATGGATGGAAGT+TGG 0.392836 2.4:-70709069 None:intergenic
GAGATGATGGGAAGAAGAAA+AGG 0.443829 2.4:-70708964 MS.gene01060:CDS
TGAAGTAGAAGTAGAAGAAG+AGG 0.463169 2.4:-70709002 MS.gene01060:CDS
ATGGATGGAAGTTGGGGTGA+GGG 0.465253 2.4:-70709061 MS.gene01060:CDS
GATGTGAGTTATGGAGATGA+TGG 0.466595 2.4:-70708977 MS.gene01060:CDS
AACAGGAAAGGGTCAAAAGC+TGG 0.479614 2.4:-70708920 MS.gene01060:CDS
TATGGATGGAAGTTGGGGTG+AGG 0.500828 2.4:-70709062 MS.gene01060:CDS
TGACTGATCATCTTTACAAC+AGG 0.501584 2.4:-70708937 MS.gene01060:CDS
ATCATCTTTACAACAGGAAA+GGG 0.510630 2.4:-70708931 MS.gene01060:CDS
GATTTACCTTTACTTATGGA+TGG 0.521525 2.4:-70709076 None:intergenic
TTGAAGCTCTGAAATGAGTA+CGG 0.530837 2.4:+70708787 None:intergenic
GCAGTACCATAAGCGCCATA+AGG 0.534642 2.4:-70708837 MS.gene01060:CDS
TTACTTATGGATGGAAGTTG+GGG 0.539498 2.4:-70709067 None:intergenic
GATCATCTTTACAACAGGAA+AGG 0.569404 2.4:-70708932 MS.gene01060:CDS
GTACGGAATGAGCCTTAGAA+TGG 0.572289 2.4:+70708804 None:intergenic
AGATGATGGGAAGAAGAAAA+GGG 0.572790 2.4:-70708963 MS.gene01060:CDS
CAGTTATCAACTTGACAAGA+AGG 0.576877 2.4:+70708884 None:intergenic
ATGTGAGTTATGGAGATGAT+GGG 0.595276 2.4:-70708976 MS.gene01060:CDS
TCATTTCAGAGCTTCAACAA+AGG 0.599380 2.4:-70708781 None:intergenic
TGATGGGAAGAAGAAAAGGG+TGG 0.655448 2.4:-70708960 MS.gene01060:CDS
AGGAAAGGGTCAAAAGCTGG+AGG 0.666819 2.4:-70708917 MS.gene01060:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AATGGTATTCACAAACCTTA+TGG + chr2.4:70709024-70709043 None:intergenic 30.0%
ATCATCTTTACAACAGGAAA+GGG - chr2.4:70708912-70708931 MS.gene01060:CDS 30.0%
ATGTGAGTTATGGAGATGAT+GGG - chr2.4:70708867-70708886 MS.gene01060:CDS 35.0%
CAGTTATCAACTTGACAAGA+AGG + chr2.4:70708962-70708981 None:intergenic 35.0%
GATCATCTTTACAACAGGAA+AGG - chr2.4:70708911-70708930 MS.gene01060:CDS 35.0%
GGTTTGTGAATACCATTCTA+AGG - chr2.4:70709027-70709046 MS.gene01060:CDS 35.0%
TGAAGTAGAAGTAGAAGAAG+AGG - chr2.4:70708841-70708860 MS.gene01060:CDS 35.0%
TGACTGATCATCTTTACAAC+AGG - chr2.4:70708906-70708925 MS.gene01060:CDS 35.0%
!! AGATGATGGGAAGAAGAAAA+GGG - chr2.4:70708880-70708899 MS.gene01060:CDS 35.0%
!! TTGAAGCTCTGAAATGAGTA+CGG + chr2.4:70709059-70709078 None:intergenic 35.0%
GAAGAGGAAGATGTGAGTTA+TGG - chr2.4:70708857-70708876 MS.gene01060:CDS 40.0%
GATGTGAGTTATGGAGATGA+TGG - chr2.4:70708866-70708885 MS.gene01060:CDS 40.0%
!! GAGATGATGGGAAGAAGAAA+AGG - chr2.4:70708879-70708898 MS.gene01060:CDS 40.0%
AACAGGAAAGGGTCAAAAGC+TGG - chr2.4:70708923-70708942 MS.gene01060:CDS 45.0%
CACAAACCTTATGGCGCTTA+TGG + chr2.4:70709015-70709034 None:intergenic 45.0%
GTACGGAATGAGCCTTAGAA+TGG + chr2.4:70709042-70709061 None:intergenic 45.0%
TGATGGGAAGAAGAAAAGGG+TGG - chr2.4:70708883-70708902 MS.gene01060:CDS 45.0%
AGGAAAGGGTCAAAAGCTGG+AGG - chr2.4:70708926-70708945 MS.gene01060:CDS 50.0%
ATGGATGGAAGTTGGGGTGA+GGG - chr2.4:70708782-70708801 MS.gene01060:CDS 50.0%
GCAGTACCATAAGCGCCATA+AGG - chr2.4:70709006-70709025 MS.gene01060:CDS 50.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 70708782 70709083 70708782 ID=MS.gene01060
chr2.4 mRNA 70708782 70709083 70708782 ID=MS.gene01060.t1;Parent=MS.gene01060
chr2.4 exon 70708782 70709083 70708782 ID=MS.gene01060.t1.exon1;Parent=MS.gene01060.t1
chr2.4 CDS 70708782 70709083 70708782 ID=cds.MS.gene01060.t1;Parent=MS.gene01060.t1
Gene Sequence

>MS.gene01060

ATGGATGGAAGTTGGGGTGAGGGAAAGAGAATCTATGAGTACAGAGAAGAAGATGAGTATGAAGTAGAAGTAGAAGAAGAGGAAGATGTGAGTTATGGAGATGATGGGAAGAAGAAAAGGGTGGTGACTGATCATCTTTACAACAGGAAAGGGTCAAAAGCTGGAGGATCAGTGACACCTTCTTGTCAAGTTGATAACTGTAATGCTGATCTAAGTGTTGCTAAGCAGTACCATAAGCGCCATAAGGTTTGTGAATACCATTCTAAGGCTCATTCCGTACTCATTTCAGAGCTTCAACAAAG
Protein sequence

>MS.gene01060.t1

MDGSWGEGKRIYEYREEDEYEVEVEEEEDVSYGDDGKKKRVVTDHLYNRKGSKAGGSVTPSCQVDNCNADLSVAKQYHKRHKVCEYHSKAHSVLISELQQ