AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99641

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99641.t1 MTR_1g104937 97.321 112 3 0 1 112 1 112 6.03e-76 220
MS.gene99641.t1 MTR_1g104940 63.000 100 35 1 1 98 1 100 2.44e-40 130
MS.gene99641.t1 MTR_1g104960 54.955 111 47 1 5 112 6 116 3.91e-33 114
MS.gene99641.t1 MTR_1g104960 58.108 74 31 0 13 86 100 173 1.80e-23 89.4
MS.gene99641.t1 MTR_1g104980 60.294 68 27 0 14 81 1 68 1.18e-23 89.7
MS.gene99641.t1 MTR_1g104980 55.128 78 35 0 14 91 72 149 1.85e-22 86.7
MS.gene99641.t1 MTR_3g006105 51.807 83 39 1 10 91 6 88 4.71e-19 78.2
MS.gene99641.t1 MTR_8g062700 48.718 78 40 0 10 87 40 117 7.26e-19 80.9
MS.gene99641.t1 MTR_8g062700 48.718 78 40 0 10 87 40 117 7.26e-19 80.9
MS.gene99641.t1 MTR_1g104950 59.322 59 22 1 35 91 1 59 3.54e-18 73.2
MS.gene99641.t1 MTR_1g105960 46.154 78 42 0 13 90 2 79 8.80e-18 72.8
MS.gene99641.t1 MTR_3g006185 52.688 93 39 2 10 97 6 98 1.08e-17 74.3
MS.gene99641.t1 MTR_3g006185 44.737 76 41 1 12 86 98 173 4.24e-11 57.0
MS.gene99641.t1 MTR_3g006125 54.667 75 33 1 10 83 87 161 1.28e-17 75.5
MS.gene99641.t1 MTR_5g036670 42.500 80 46 0 10 89 41 120 6.92e-17 75.1
MS.gene99641.t1 MTR_6g008970 46.154 78 42 0 10 87 61 138 9.71e-17 74.7
MS.gene99641.t1 MTR_7g013380 43.750 80 43 1 5 82 6 85 1.51e-15 70.5
MS.gene99641.t1 MTR_7g013380 44.156 77 41 1 13 87 186 262 2.49e-12 61.6
MS.gene99641.t1 MTR_6g008995 41.860 86 49 1 12 97 37 121 2.64e-15 70.5
MS.gene99641.t1 MTR_4g133300 39.394 99 60 0 12 110 89 187 3.33e-15 68.9
MS.gene99641.t1 MTR_4g133300 44.286 70 39 0 15 84 175 244 3.11e-12 61.2
MS.gene99641.t1 MTR_1g105955 48.611 72 37 0 13 84 17 88 3.98e-15 67.8
MS.gene99641.t1 MTR_1g105955 46.377 69 37 0 12 80 95 163 3.40e-11 57.4
MS.gene99641.t1 MTR_1g105010 47.436 78 38 1 12 89 16 90 1.06e-14 65.1
MS.gene99641.t1 MTR_4g133470 40.000 100 58 2 12 110 89 187 5.02e-14 65.9
MS.gene99641.t1 MTR_4g133470 44.286 70 39 0 15 84 175 244 3.28e-12 61.2
MS.gene99641.t1 MTR_3g006150 41.379 87 48 1 11 97 7 90 2.81e-13 62.4
MS.gene99641.t1 MTR_3g006150 48.485 66 33 1 10 74 88 153 8.20e-12 58.5
MS.gene99641.t1 MTR_3g006010 45.333 75 40 1 10 83 6 80 8.24e-13 63.5
MS.gene99641.t1 MTR_8g062350 35.789 95 56 2 12 106 14 103 5.86e-12 59.7
MS.gene99641.t1 MTR_3g006065 43.750 80 42 2 10 86 88 167 3.16e-11 57.8
MS.gene99641.t1 MTR_7g089490 36.364 77 49 0 4 80 8 84 5.74e-11 55.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99641.t1 AT3G01320 44.681 94 50 1 5 96 48 141 5.96e-18 78.2
MS.gene99641.t1 AT3G01320 44.681 94 50 1 5 96 48 141 6.25e-18 78.2
MS.gene99641.t1 AT5G15020 45.714 70 38 0 12 81 52 121 5.96e-15 69.7
MS.gene99641.t1 AT5G15020 45.714 70 38 0 12 81 52 121 6.20e-15 69.7
MS.gene99641.t1 AT1G70060 43.590 78 44 0 10 87 12 89 7.16e-15 69.3
MS.gene99641.t1 AT1G70060 43.590 78 44 0 10 87 12 89 7.16e-15 69.3
MS.gene99641.t1 AT1G24190 43.421 76 43 0 10 85 12 87 2.19e-14 68.2
MS.gene99641.t1 AT1G24190 43.421 76 43 0 10 85 12 87 2.21e-14 68.2
MS.gene99641.t1 AT1G24190 43.421 76 43 0 10 85 12 87 2.28e-14 68.2
MS.gene99641.t1 AT1G24200 46.377 69 37 0 12 80 14 82 9.52e-14 64.3
MS.gene99641.t1 AT5G15040 45.455 77 40 1 10 86 1 75 9.61e-14 62.0
MS.gene99641.t1 AT5G15040 45.455 77 40 1 10 86 1 75 9.61e-14 62.0
MS.gene99641.t1 AT5G15040 45.455 77 40 1 10 86 1 75 9.61e-14 62.0
MS.gene99641.t1 AT5G15025 44.286 70 39 0 12 81 47 116 1.58e-13 62.4
MS.gene99641.t1 AT1G27220 41.096 73 43 0 8 80 10 82 2.09e-13 63.2
MS.gene99641.t1 AT1G23810 37.500 88 54 1 5 92 102 188 1.43e-12 62.0
MS.gene99641.t1 AT1G24230 38.571 70 43 0 15 84 89 158 1.67e-12 62.0
MS.gene99641.t1 AT1G24230 50.000 66 32 1 10 74 12 77 1.60e-11 59.3
MS.gene99641.t1 AT1G59890 36.842 76 48 0 12 87 45 120 8.73e-12 60.8
MS.gene99641.t1 AT1G59890 36.842 76 48 0 12 87 45 120 8.90e-12 60.8
MS.gene99641.t1 AT1G59890 36.842 76 48 0 12 87 45 120 8.91e-12 60.8
MS.gene99641.t1 AT1G59890 36.842 76 48 0 12 87 45 120 8.91e-12 60.8
MS.gene99641.t1 AT1G24250 38.636 88 53 1 5 92 113 199 1.05e-11 59.7
MS.gene99641.t1 AT5G35610 41.250 80 44 1 20 99 18 94 3.57e-11 57.0
MS.gene99641.t1 AT1G70030 39.080 87 52 1 12 98 22 107 6.60e-11 55.5

Find 19 sgRNAs with CRISPR-Local

Find 19 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGACACTGCTTCACCAATCT+TGG 0.362408 1.4:-80770338 None:intergenic
GAAAATTCTAGATGATTTCT+CGG 0.377556 1.4:+80770420 MS.gene99641:CDS
TGAAGCAGTGTCGTTTGTTA+TGG 0.413384 1.4:+80770348 MS.gene99641:CDS
TAAAACATGTGTTTCAAGAT+AGG 0.427626 1.4:+80770374 MS.gene99641:CDS
AGCTGCTCGATCAATTCTTT+CGG 0.448838 1.4:-80770443 None:intergenic
TATTGTTGCTGATCATCAAA+TGG 0.491825 1.4:-80770631 None:intergenic
ACAAGAAATCTCACTTCCAT+TGG 0.504181 1.4:+80770543 MS.gene99641:CDS
CACAGAGTAGATGCCAAGAT+TGG 0.508208 1.4:+80770325 MS.gene99641:CDS
GAGTTGTTAAATGATCATAA+AGG 0.511317 1.4:+80770484 MS.gene99641:CDS
TTCAACATCTTCTTGCCACC+AGG 0.516818 1.4:+80770520 MS.gene99641:CDS
AACATGTGTTTCAAGATAGG+AGG 0.520327 1.4:+80770377 MS.gene99641:CDS
GATCGAGCAGCTGTGAAAGA+AGG 0.542586 1.4:+80770454 MS.gene99641:CDS
GGAAGTGAGATTTCTTGTCC+TGG 0.563657 1.4:-80770538 None:intergenic
ACATGTGTTTCAAGATAGGA+GGG 0.571664 1.4:+80770378 MS.gene99641:CDS
TGTTGTTCATCATCATCCAA+TGG 0.574340 1.4:-80770559 None:intergenic
GATGATGAACAACAAGGTGA+TGG 0.587348 1.4:+80770568 MS.gene99641:CDS
AGCTGTGAAAGAAGGAATGA+CGG 0.588334 1.4:+80770462 MS.gene99641:CDS
AGTGAGATTTCTTGTCCTGG+TGG 0.701056 1.4:-80770535 None:intergenic
TTGGATGATGATGAACAACA+AGG 0.775028 1.4:+80770562 MS.gene99641:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAAATTCTAGATGATTTCT+CGG + chr1.4:80770420-80770439 MS.gene99641:CDS 25.0%
! GAGTTGTTAAATGATCATAA+AGG + chr1.4:80770484-80770503 MS.gene99641:CDS 25.0%
! TAAAACATGTGTTTCAAGAT+AGG + chr1.4:80770374-80770393 MS.gene99641:CDS 25.0%
TATTGTTGCTGATCATCAAA+TGG - chr1.4:80770634-80770653 None:intergenic 30.0%
AACATGTGTTTCAAGATAGG+AGG + chr1.4:80770377-80770396 MS.gene99641:CDS 35.0%
ACAAGAAATCTCACTTCCAT+TGG + chr1.4:80770543-80770562 MS.gene99641:CDS 35.0%
ACATGTGTTTCAAGATAGGA+GGG + chr1.4:80770378-80770397 MS.gene99641:CDS 35.0%
TGTTGTTCATCATCATCCAA+TGG - chr1.4:80770562-80770581 None:intergenic 35.0%
! TTGGATGATGATGAACAACA+AGG + chr1.4:80770562-80770581 MS.gene99641:CDS 35.0%
AGCTGCTCGATCAATTCTTT+CGG - chr1.4:80770446-80770465 None:intergenic 40.0%
AGCTGTGAAAGAAGGAATGA+CGG + chr1.4:80770462-80770481 MS.gene99641:CDS 40.0%
GATGATGAACAACAAGGTGA+TGG + chr1.4:80770568-80770587 MS.gene99641:CDS 40.0%
!! TGAAGCAGTGTCGTTTGTTA+TGG + chr1.4:80770348-80770367 MS.gene99641:CDS 40.0%
AGTGAGATTTCTTGTCCTGG+TGG - chr1.4:80770538-80770557 None:intergenic 45.0%
CACAGAGTAGATGCCAAGAT+TGG + chr1.4:80770325-80770344 MS.gene99641:CDS 45.0%
GGAAGTGAGATTTCTTGTCC+TGG - chr1.4:80770541-80770560 None:intergenic 45.0%
TTCAACATCTTCTTGCCACC+AGG + chr1.4:80770520-80770539 MS.gene99641:CDS 45.0%
CGACACTGCTTCACCAATCT+TGG - chr1.4:80770341-80770360 None:intergenic 50.0%
GATCGAGCAGCTGTGAAAGA+AGG + chr1.4:80770454-80770473 MS.gene99641:CDS 50.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 80770316 80770654 80770316 ID=MS.gene99641
chr1.4 mRNA 80770316 80770654 80770316 ID=MS.gene99641.t1;Parent=MS.gene99641
chr1.4 exon 80770316 80770654 80770316 ID=MS.gene99641.t1.exon1;Parent=MS.gene99641.t1
chr1.4 CDS 80770316 80770654 80770316 ID=cds.MS.gene99641.t1;Parent=MS.gene99641.t1
Gene Sequence

>MS.gene99641

ATGAGGAGACACAGAGTAGATGCCAAGATTGGTGAAGCAGTGTCGTTTGTTATGGAAGTAAAACATGTGTTTCAAGATAGGAGGGAGAAGTATGATGAGTTTTTGAAAATTCTAGATGATTTCTCGGCCGAAAGAATTGATCGAGCAGCTGTGAAAGAAGGAATGACGGAGTTGTTAAATGATCATAAAGGTTTAATTTCAAGATTCAACATCTTCTTGCCACCAGGACAAGAAATCTCACTTCCATTGGATGATGATGAACAACAAGGTGATGGATTAGCATTCGAAGATGAACAGAAACATGAAATCTCACTTCCATTTGATGATCAGCAACAATAA
Protein sequence

>MS.gene99641.t1

MRRHRVDAKIGEAVSFVMEVKHVFQDRREKYDEFLKILDDFSAERIDRAAVKEGMTELLNDHKGLISRFNIFLPPGQEISLPLDDDEQQGDGLAFEDEQKHEISLPFDDQQQ