AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene013990

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene013990.t1 MTR_7g089490 92.683 123 9 0 1 123 1 123 3.36e-70 206
MS.gene013990.t1 MTR_1g105955 48.052 77 40 0 7 83 7 83 2.66e-19 79.0
MS.gene013990.t1 MTR_1g105010 36.607 112 71 0 1 112 1 112 8.27e-18 73.6
MS.gene013990.t1 MTR_1g104940 52.941 68 32 0 17 84 15 82 9.10e-18 73.6
MS.gene013990.t1 MTR_1g105960 51.471 68 33 0 17 84 2 69 3.71e-16 68.9
MS.gene013990.t1 MTR_5g036670 45.122 82 44 1 13 94 40 120 1.82e-15 71.6
MS.gene013990.t1 MTR_6g008970 38.835 103 58 1 13 115 60 157 4.39e-15 70.5
MS.gene013990.t1 MTR_8g062700 47.222 72 38 0 13 84 39 110 4.05e-14 67.8
MS.gene013990.t1 MTR_8g062700 47.222 72 38 0 13 84 39 110 4.05e-14 67.8
MS.gene013990.t1 MTR_6g008995 45.588 68 37 0 16 83 37 104 9.26e-12 60.8
MS.gene013990.t1 MTR_1g104937 39.706 68 41 0 17 84 13 80 9.87e-11 55.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene013990.t1 AT1G70060 50.000 80 39 1 5 84 4 82 6.19e-17 75.9
MS.gene013990.t1 AT1G70060 50.000 80 39 1 5 84 4 82 6.19e-17 75.9
MS.gene013990.t1 AT1G24190 48.611 72 37 0 13 84 11 82 3.65e-16 73.6
MS.gene013990.t1 AT1G24190 38.835 103 58 1 13 115 11 108 3.72e-16 73.6
MS.gene013990.t1 AT1G24190 48.611 72 37 0 13 84 11 82 3.87e-16 73.6
MS.gene013990.t1 AT3G01320 39.000 100 55 1 13 112 54 147 2.51e-14 68.6
MS.gene013990.t1 AT3G01320 39.000 100 55 1 13 112 54 147 2.56e-14 68.6
MS.gene013990.t1 AT5G15020 45.833 72 39 0 13 84 49 120 3.04e-13 65.5
MS.gene013990.t1 AT5G15020 45.833 72 39 0 13 84 49 120 3.07e-13 65.5
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 5.25e-13 64.7
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 5.51e-13 64.7
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.02e-13 64.3
MS.gene013990.t1 AT1G24200 40.000 80 46 1 5 84 5 82 6.18e-13 62.8
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 241 324 6.18e-13 64.3
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.19e-13 64.3
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.55e-13 64.3
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.55e-13 64.3
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.56e-13 64.3
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.68e-13 64.3
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 8.67e-13 63.9
MS.gene013990.t1 AT4G12020 43.182 88 46 2 16 103 308 391 8.67e-13 63.9
MS.gene013990.t1 AT1G27250 34.694 98 62 1 2 99 7 102 1.84e-12 60.5
MS.gene013990.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.12e-12 62.0
MS.gene013990.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.17e-12 62.0
MS.gene013990.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.42e-12 62.0
MS.gene013990.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.46e-12 62.0
MS.gene013990.t1 AT1G24230 29.000 100 70 1 12 110 82 181 1.40e-11 59.7

Find 19 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTTGCAATGAAGGAGTA+TGG 0.318761 7.2:+18942669 None:intergenic
TTGAGATCCCTTTAGTGTTA+AGG 0.375764 7.2:-18942901 None:intergenic
TTCAACTCCTTAACACTAAA+GGG 0.420577 7.2:+18942894 MS.gene013990:CDS
CAGCTCCTCTAGTCTTGCTT+TGG 0.436290 7.2:-18942841 None:intergenic
GATGCATTAGCATTTGTAAA+GGG 0.457602 7.2:+18942723 MS.gene013990:CDS
ATTCAACTCCTTAACACTAA+AGG 0.462934 7.2:+18942893 MS.gene013990:CDS
GGATCTCAAATCACTAAGCT+TGG 0.511818 7.2:+18942915 MS.gene013990:CDS
GAAGTTGAGTTTGAAGACAA+GGG 0.518593 7.2:+18942750 MS.gene013990:CDS
GGATGCATTAGCATTTGTAA+AGG 0.521053 7.2:+18942722 MS.gene013990:CDS
AAGTTGAGTTTGAAGACAAG+GGG 0.524765 7.2:+18942751 MS.gene013990:CDS
AGAAGTTGAGTTTGAAGACA+AGG 0.554796 7.2:+18942749 MS.gene013990:CDS
GACTGAAGAGGAAGAAGACA+TGG 0.568659 7.2:+18942944 MS.gene013990:CDS
AGGAGCTGTTTAAAGAGCAT+AGG 0.577489 7.2:+18942856 MS.gene013990:CDS
TCAGAATCTACAAAGCATGA+AGG 0.603005 7.2:+18942701 MS.gene013990:CDS
GCTTGGTTATGAGACTGAAG+AGG 0.610803 7.2:+18942932 MS.gene013990:CDS
AGTTGAGTTTGAAGACAAGG+GGG 0.616965 7.2:+18942752 MS.gene013990:CDS
ACTCTAAGAATTGATGCAGA+AGG 0.617661 7.2:+18942816 MS.gene013990:CDS
AGGTGCCAAAGCAAGACTAG+AGG 0.633525 7.2:+18942836 MS.gene013990:CDS
GAGTTTCTAAATGTGATGAA+CGG 0.639928 7.2:+18942786 MS.gene013990:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCAACTTATTTTAGAAGTTT+TGG + chr7.2:18943004-18943023 MS.gene013990:CDS 20.0%
ATTCAACTCCTTAACACTAA+AGG + chr7.2:18942893-18942912 MS.gene013990:CDS 30.0%
GAGTTTCTAAATGTGATGAA+CGG + chr7.2:18942786-18942805 MS.gene013990:CDS 30.0%
GATGCATTAGCATTTGTAAA+GGG + chr7.2:18942723-18942742 MS.gene013990:CDS 30.0%
TTCAACTCCTTAACACTAAA+GGG + chr7.2:18942894-18942913 MS.gene013990:CDS 30.0%
AAGTTGAGTTTGAAGACAAG+GGG + chr7.2:18942751-18942770 MS.gene013990:CDS 35.0%
AGAAGTTGAGTTTGAAGACA+AGG + chr7.2:18942749-18942768 MS.gene013990:CDS 35.0%
GAAGTTGAGTTTGAAGACAA+GGG + chr7.2:18942750-18942769 MS.gene013990:CDS 35.0%
GGATGCATTAGCATTTGTAA+AGG + chr7.2:18942722-18942741 MS.gene013990:CDS 35.0%
TCAGAATCTACAAAGCATGA+AGG + chr7.2:18942701-18942720 MS.gene013990:CDS 35.0%
TTGAGATCCCTTTAGTGTTA+AGG - chr7.2:18942904-18942923 None:intergenic 35.0%
! ACTCTAAGAATTGATGCAGA+AGG + chr7.2:18942816-18942835 MS.gene013990:CDS 35.0%
AGTTGAGTTTGAAGACAAGG+GGG + chr7.2:18942752-18942771 MS.gene013990:CDS 40.0%
GGATCTCAAATCACTAAGCT+TGG + chr7.2:18942915-18942934 MS.gene013990:CDS 40.0%
! AGGAGCTGTTTAAAGAGCAT+AGG + chr7.2:18942856-18942875 MS.gene013990:CDS 40.0%
GACTGAAGAGGAAGAAGACA+TGG + chr7.2:18942944-18942963 MS.gene013990:CDS 45.0%
GCTTGGTTATGAGACTGAAG+AGG + chr7.2:18942932-18942951 MS.gene013990:CDS 45.0%
AGGTGCCAAAGCAAGACTAG+AGG + chr7.2:18942836-18942855 MS.gene013990:CDS 50.0%
!! CAGCTCCTCTAGTCTTGCTT+TGG - chr7.2:18942844-18942863 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 18942678 18943049 18942678 ID=MS.gene013990
chr7.2 mRNA 18942678 18943049 18942678 ID=MS.gene013990.t1;Parent=MS.gene013990
chr7.2 exon 18942678 18943049 18942678 ID=MS.gene013990.t1.exon1;Parent=MS.gene013990.t1
chr7.2 CDS 18942678 18943049 18942678 ID=cds.MS.gene013990.t1;Parent=MS.gene013990.t1
Gene Sequence

>MS.gene013990

ATGAAGGAGTATGGCTATGCTCATCAGAATCTACAAAGCATGAAGGATGCATTAGCATTTGTAAAGGGTGTAGAAGTTGAGTTTGAAGACAAGGGGGATAAGTATGATGAGTTTCTAAATGTGATGAACGGTTTCAAGACTCTAAGAATTGATGCAGAAGGTGCCAAAGCAAGACTAGAGGAGCTGTTTAAAGAGCATAGGCATTTAATTGTGAGATTCAACTCCTTAACACTAAAGGGATCTCAAATCACTAAGCTTGGTTATGAGACTGAAGAGGAAGAAGACATGGAAATACTTGACAAACTTGAGAAACTAGAGTCAGCACTTCAACTTATTTTAGAAGTTTTGGTGATCAAGAAGAAGCAAGCATAG
Protein sequence

>MS.gene013990.t1

MKEYGYAHQNLQSMKDALAFVKGVEVEFEDKGDKYDEFLNVMNGFKTLRIDAEGAKARLEELFKEHRHLIVRFNSLTLKGSQITKLGYETEEEEDMEILDKLEKLESALQLILEVLVIKKKQA