AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene39032

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene39032.t1 MTR_7g089490 91.870 123 10 0 1 123 1 123 1.65e-69 204
MS.gene39032.t1 MTR_1g105955 46.753 77 41 0 7 83 7 83 1.48e-18 77.0
MS.gene39032.t1 MTR_1g104940 52.941 68 32 0 17 84 15 82 8.91e-18 73.6
MS.gene39032.t1 MTR_1g105010 35.714 112 72 0 1 112 1 112 4.56e-17 71.6
MS.gene39032.t1 MTR_1g105960 51.471 68 33 0 17 84 2 69 3.88e-16 68.9
MS.gene39032.t1 MTR_5g036670 45.122 82 44 1 13 94 40 120 1.72e-15 71.6
MS.gene39032.t1 MTR_6g008970 38.835 103 58 1 13 115 60 157 4.57e-15 70.5
MS.gene39032.t1 MTR_8g062700 47.222 72 38 0 13 84 39 110 3.82e-14 67.8
MS.gene39032.t1 MTR_8g062700 47.222 72 38 0 13 84 39 110 3.94e-14 67.8
MS.gene39032.t1 MTR_6g008995 45.588 68 37 0 16 83 37 104 9.44e-12 60.8
MS.gene39032.t1 MTR_1g104937 37.662 77 48 0 8 84 4 80 3.65e-11 56.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene39032.t1 AT1G70060 50.000 80 39 1 5 84 4 82 6.37e-17 75.9
MS.gene39032.t1 AT1G70060 50.000 80 39 1 5 84 4 82 6.37e-17 75.9
MS.gene39032.t1 AT1G24190 48.611 72 37 0 13 84 11 82 3.72e-16 73.6
MS.gene39032.t1 AT1G24190 48.611 72 37 0 13 84 11 82 3.80e-16 73.6
MS.gene39032.t1 AT1G24190 48.611 72 37 0 13 84 11 82 3.80e-16 73.6
MS.gene39032.t1 AT3G01320 39.000 100 55 1 13 112 54 147 2.44e-14 68.6
MS.gene39032.t1 AT3G01320 39.000 100 55 1 13 112 54 147 2.64e-14 68.6
MS.gene39032.t1 AT5G15020 45.833 72 39 0 13 84 49 120 2.73e-13 65.5
MS.gene39032.t1 AT5G15020 45.833 72 39 0 13 84 49 120 2.81e-13 65.5
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 5.30e-13 64.7
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 5.35e-13 64.7
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 5.90e-13 64.7
MS.gene39032.t1 AT1G24200 40.000 80 46 1 5 84 5 82 6.05e-13 62.8
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.08e-13 64.3
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 241 324 6.12e-13 64.3
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.31e-13 64.3
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.55e-13 64.3
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.55e-13 64.3
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 6.55e-13 64.3
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 8.34e-13 63.9
MS.gene39032.t1 AT4G12020 43.182 88 46 2 16 103 308 391 8.34e-13 63.9
MS.gene39032.t1 AT1G27250 38.095 84 50 1 16 99 21 102 2.40e-12 60.1
MS.gene39032.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.05e-12 62.0
MS.gene39032.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.05e-12 62.0
MS.gene39032.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.17e-12 62.0
MS.gene39032.t1 AT1G59890 43.478 69 39 0 16 84 45 113 4.29e-12 62.0
MS.gene39032.t1 AT1G24230 29.000 100 70 1 12 110 82 181 1.37e-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:+19068506 None:intergenic
TTGAGATCCCTTTAGTGTTA+AGG 0.375764 7.2:-19068738 None:intergenic
TTCAACTCCTTAACACTAAA+GGG 0.420577 7.2:+19068731 MS.gene39032:CDS
TCAGAATCTACAAAGCATAA+AGG 0.427768 7.2:+19068538 MS.gene39032:CDS
CAGCTCCTCTAGTCTTGCTT+TGG 0.436290 7.2:-19068678 None:intergenic
GATGCATTAGCATTTGTAAA+GGG 0.438577 7.2:+19068560 MS.gene39032:CDS
ATTCAACTCCTTAACACTAA+AGG 0.462934 7.2:+19068730 MS.gene39032:CDS
GGATGCATTAGCATTTGTAA+AGG 0.505424 7.2:+19068559 MS.gene39032:CDS
GGATCTCAAATCACTAAGCT+TGG 0.511818 7.2:+19068752 MS.gene39032:CDS
GAAGTTGAGTTTGAAGACAA+GGG 0.518593 7.2:+19068587 MS.gene39032:CDS
AAGTTGAGTTTGAAGACAAG+GGG 0.524765 7.2:+19068588 MS.gene39032:CDS
AGAAGTTGAGTTTGAAGACA+AGG 0.554796 7.2:+19068586 MS.gene39032:CDS
GACTGAAGAGGAAGAAGACA+TGG 0.568659 7.2:+19068781 MS.gene39032:CDS
AGGAGCTGTTTAAAGAGCAT+AGG 0.577489 7.2:+19068693 MS.gene39032:CDS
GCTTGGTTATGAGACTGAAG+AGG 0.610803 7.2:+19068769 MS.gene39032:CDS
AGTTGAGTTTGAAGACAAGG+GGG 0.616965 7.2:+19068589 MS.gene39032:CDS
ACTCTAAGAATTGATGCAGA+AGG 0.617661 7.2:+19068653 MS.gene39032:CDS
AGGTGCCAAAGCAAGACTAG+AGG 0.633525 7.2:+19068673 MS.gene39032:CDS
GAGTTTCTAAATGTGATGAA+CGG 0.639928 7.2:+19068623 MS.gene39032:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TCAACTTATTTTAGAAGTTT+TGG + chr7.2:19068841-19068860 MS.gene39032:CDS 20.0%
ATTCAACTCCTTAACACTAA+AGG + chr7.2:19068730-19068749 MS.gene39032:CDS 30.0%
GAGTTTCTAAATGTGATGAA+CGG + chr7.2:19068623-19068642 MS.gene39032:CDS 30.0%
GATGCATTAGCATTTGTAAA+GGG + chr7.2:19068560-19068579 MS.gene39032:CDS 30.0%
TCAGAATCTACAAAGCATAA+AGG + chr7.2:19068538-19068557 MS.gene39032:CDS 30.0%
TTCAACTCCTTAACACTAAA+GGG + chr7.2:19068731-19068750 MS.gene39032:CDS 30.0%
AAGTTGAGTTTGAAGACAAG+GGG + chr7.2:19068588-19068607 MS.gene39032:CDS 35.0%
AGAAGTTGAGTTTGAAGACA+AGG + chr7.2:19068586-19068605 MS.gene39032:CDS 35.0%
GAAGTTGAGTTTGAAGACAA+GGG + chr7.2:19068587-19068606 MS.gene39032:CDS 35.0%
GGATGCATTAGCATTTGTAA+AGG + chr7.2:19068559-19068578 MS.gene39032:CDS 35.0%
TTGAGATCCCTTTAGTGTTA+AGG - chr7.2:19068741-19068760 None:intergenic 35.0%
! ACTCTAAGAATTGATGCAGA+AGG + chr7.2:19068653-19068672 MS.gene39032:CDS 35.0%
AGTTGAGTTTGAAGACAAGG+GGG + chr7.2:19068589-19068608 MS.gene39032:CDS 40.0%
GGATCTCAAATCACTAAGCT+TGG + chr7.2:19068752-19068771 MS.gene39032:CDS 40.0%
! AGGAGCTGTTTAAAGAGCAT+AGG + chr7.2:19068693-19068712 MS.gene39032:CDS 40.0%
GACTGAAGAGGAAGAAGACA+TGG + chr7.2:19068781-19068800 MS.gene39032:CDS 45.0%
GCTTGGTTATGAGACTGAAG+AGG + chr7.2:19068769-19068788 MS.gene39032:CDS 45.0%
AGGTGCCAAAGCAAGACTAG+AGG + chr7.2:19068673-19068692 MS.gene39032:CDS 50.0%
!! CAGCTCCTCTAGTCTTGCTT+TGG - chr7.2:19068681-19068700 None:intergenic 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 19068515 19068886 19068515 ID=MS.gene39032
chr7.2 mRNA 19068515 19068886 19068515 ID=MS.gene39032.t1;Parent=MS.gene39032
chr7.2 exon 19068515 19068886 19068515 ID=MS.gene39032.t1.exon1;Parent=MS.gene39032.t1
chr7.2 CDS 19068515 19068886 19068515 ID=cds.MS.gene39032.t1;Parent=MS.gene39032.t1
Gene Sequence

>MS.gene39032

ATGAAGGAGTATGGCTATGCTCATCAGAATCTACAAAGCATAAAGGATGCATTAGCATTTGTAAAGGGTGTAGAAGTTGAGTTTGAAGACAAGGGGGATAAGTATGATGAGTTTCTAAATGTGATGAACGGTTTCAAGACTCTAAGAATTGATGCAGAAGGTGCCAAAGCAAGACTAGAGGAGCTGTTTAAAGAGCATAGGCATTTAATTGTGAGATTCAACTCCTTAACACTAAAGGGATCTCAAATCACTAAGCTTGGTTATGAGACTGAAGAGGAAGAAGACATGGAAATACTTGACAAACTTGAGAAACTAGAGTCAGCACTTCAACTTATTTTAGAAGTTTTGGTGATCAAGAAGAAGCAAGCATAG
Protein sequence

>MS.gene39032.t1

MKEYGYAHQNLQSIKDALAFVKGVEVEFEDKGDKYDEFLNVMNGFKTLRIDAEGAKARLEELFKEHRHLIVRFNSLTLKGSQITKLGYETEEEEDMEILDKLEKLESALQLILEVLVIKKKQA