AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene93865

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93865.t1 MTR_1g104940 92.623 122 9 0 1 122 1 122 9.84e-79 228
MS.gene93865.t1 MTR_1g104937 68.317 101 30 1 1 101 1 99 7.66e-46 144
MS.gene93865.t1 MTR_1g104960 67.500 80 26 0 14 93 13 92 1.22e-31 110
MS.gene93865.t1 MTR_1g104960 57.692 78 33 0 12 89 97 174 3.68e-26 96.7
MS.gene93865.t1 MTR_1g104980 54.206 107 45 2 17 122 73 176 1.71e-28 102
MS.gene93865.t1 MTR_1g104980 61.765 68 26 0 16 83 1 68 2.85e-24 91.7
MS.gene93865.t1 MTR_5g036670 54.545 88 40 0 4 91 33 120 1.48e-24 97.4
MS.gene93865.t1 MTR_1g104950 71.186 59 15 1 37 93 1 59 4.59e-23 85.9
MS.gene93865.t1 MTR_8g062700 50.526 95 46 1 9 102 37 131 1.23e-22 92.0
MS.gene93865.t1 MTR_8g062700 50.526 95 46 1 9 102 37 131 1.25e-22 92.0
MS.gene93865.t1 MTR_3g006105 46.218 119 58 2 9 121 3 121 1.15e-20 82.4
MS.gene93865.t1 MTR_1g105960 50.649 77 38 0 15 91 2 78 2.74e-20 79.7
MS.gene93865.t1 MTR_6g008970 47.674 86 45 0 4 89 53 138 3.22e-20 85.1
MS.gene93865.t1 MTR_6g008995 46.154 91 48 1 9 99 32 121 2.62e-19 82.4
MS.gene93865.t1 MTR_3g006125 51.546 97 41 2 9 99 84 180 3.10e-19 80.5
MS.gene93865.t1 MTR_3g006125 48.684 76 38 1 14 88 180 255 1.85e-13 64.7
MS.gene93865.t1 MTR_3g006150 49.425 87 41 1 13 99 7 90 7.84e-19 77.4
MS.gene93865.t1 MTR_3g006150 54.930 71 31 1 14 83 90 160 2.12e-15 68.2
MS.gene93865.t1 MTR_3g006185 46.296 108 45 2 9 115 3 98 2.72e-17 73.6
MS.gene93865.t1 MTR_3g006185 41.975 81 46 1 10 89 94 174 6.19e-11 57.0
MS.gene93865.t1 MTR_1g105010 52.174 69 33 0 14 82 16 84 3.02e-17 72.0
MS.gene93865.t1 MTR_4g133470 55.714 70 31 0 17 86 175 244 4.32e-17 74.7
MS.gene93865.t1 MTR_4g133470 42.857 91 52 0 9 99 84 174 3.40e-15 69.3
MS.gene93865.t1 MTR_4g133300 55.714 70 31 0 17 86 175 244 5.90e-17 74.3
MS.gene93865.t1 MTR_4g133300 43.956 91 51 0 9 99 84 174 6.83e-17 73.9
MS.gene93865.t1 MTR_1g105955 51.389 72 35 0 15 86 17 88 2.60e-16 71.2
MS.gene93865.t1 MTR_1g105955 50.725 69 34 0 14 82 95 163 1.44e-14 66.6
MS.gene93865.t1 MTR_3g006065 47.126 87 43 1 13 99 7 90 8.22e-16 70.1
MS.gene93865.t1 MTR_3g006065 51.250 80 36 2 14 90 90 169 5.18e-15 67.8
MS.gene93865.t1 MTR_8g062350 41.053 95 54 1 1 95 1 93 1.09e-15 70.1
MS.gene93865.t1 MTR_3g006010 46.835 79 41 1 7 85 3 80 2.63e-15 70.9
MS.gene93865.t1 MTR_7g089490 47.826 69 36 0 14 82 16 84 1.09e-14 65.5
MS.gene93865.t1 MTR_7g013380 40.964 83 45 2 4 84 5 85 4.84e-13 63.9
MS.gene93865.t1 MTR_7g013380 41.429 70 41 0 20 89 193 262 4.03e-12 61.6
MS.gene93865.t1 MTR_7g013410 46.269 67 36 0 18 84 2 68 1.81e-12 60.5
MS.gene93865.t1 MTR_6g008995 50.000 64 31 1 36 99 2 64 4.34e-12 61.6
MS.gene93865.t1 MTR_2g097830 40.909 88 46 2 5 89 58 142 1.37e-11 58.5
MS.gene93865.t1 MTR_1g093310 42.857 70 34 1 16 85 11 74 1.42e-11 56.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene93865.t1 AT3G01320 48.980 98 50 0 5 102 48 145 2.04e-22 91.7
MS.gene93865.t1 AT3G01320 48.980 98 50 0 5 102 48 145 2.06e-22 91.7
MS.gene93865.t1 AT1G70060 55.556 81 36 0 9 89 9 89 4.97e-21 87.4
MS.gene93865.t1 AT1G70060 55.556 81 36 0 9 89 9 89 4.97e-21 87.4
MS.gene93865.t1 AT1G24190 53.086 81 38 0 9 89 9 89 2.91e-20 85.5
MS.gene93865.t1 AT1G24190 53.086 81 38 0 9 89 9 89 3.27e-20 85.1
MS.gene93865.t1 AT1G24190 53.086 81 38 0 9 89 9 89 3.30e-20 85.1
MS.gene93865.t1 AT5G15020 52.000 75 36 0 9 83 47 121 2.95e-18 79.7
MS.gene93865.t1 AT5G15020 52.000 75 36 0 9 83 47 121 3.01e-18 79.7
MS.gene93865.t1 AT5G15025 48.571 70 36 0 14 83 47 116 6.73e-17 71.2
MS.gene93865.t1 AT1G10450 45.349 86 46 1 14 99 84 168 2.94e-16 73.9
MS.gene93865.t1 AT1G10450 45.349 86 46 1 14 99 33 117 3.11e-16 73.9
MS.gene93865.t1 AT1G10450 45.349 86 46 1 14 99 33 117 3.11e-16 73.9
MS.gene93865.t1 AT1G59890 46.753 77 41 0 13 89 44 120 3.74e-16 73.6
MS.gene93865.t1 AT1G59890 46.753 77 41 0 13 89 44 120 3.93e-16 73.6
MS.gene93865.t1 AT1G59890 46.753 77 41 0 13 89 44 120 4.05e-16 73.6
MS.gene93865.t1 AT1G59890 46.753 77 41 0 13 89 44 120 4.29e-16 73.6
MS.gene93865.t1 AT1G70030 45.455 77 42 0 7 83 15 91 3.05e-15 67.0
MS.gene93865.t1 AT1G70030 45.455 77 42 0 7 83 15 91 1.01e-14 66.2
MS.gene93865.t1 AT1G70030 44.444 81 45 0 7 87 4 84 1.07e-14 66.6
MS.gene93865.t1 AT5G15040 47.368 76 38 1 13 88 2 75 2.38e-14 63.9
MS.gene93865.t1 AT5G15040 47.368 76 38 1 13 88 2 75 2.38e-14 63.9
MS.gene93865.t1 AT5G15040 47.368 76 38 1 13 88 2 75 2.38e-14 63.9
MS.gene93865.t1 AT5G35610 41.053 95 53 1 8 102 4 95 3.39e-14 65.1
MS.gene93865.t1 AT1G24200 46.377 69 37 0 14 82 14 82 1.57e-13 64.3
MS.gene93865.t1 AT1G27220 43.478 69 39 0 14 82 14 82 1.36e-12 61.6
MS.gene93865.t1 AT1G23810 37.931 87 53 1 14 100 109 194 2.03e-11 59.3
MS.gene93865.t1 AT1G24250 39.080 87 52 1 14 100 120 205 3.91e-11 58.5
MS.gene93865.t1 AT1G24210 37.662 77 48 0 1 77 1 77 6.43e-11 56.6

Find 18 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCTGTATCAATTCTT+TGG 0.194353 1.2:-77876440 None:intergenic
TGCTTCAGCTTCACCAATCT+TGG 0.305827 1.2:-77876328 None:intergenic
AGCTTCTGTATCAATTCTTT+GGG 0.320273 1.2:-77876439 None:intergenic
AGAACTTCTGAAAGATTTCA+AGG 0.358653 1.2:+77876416 MS.gene93865:CDS
ACCAATCTTGGCATTTACTC+TGG 0.415002 1.2:-77876316 None:intergenic
AGCTGTGAAAGAAGGAGTTA+TGG 0.477622 1.2:+77876458 MS.gene93865:CDS
TCCAGAGTAAATGCCAAGAT+TGG 0.492118 1.2:+77876315 MS.gene93865:CDS
ACATGAAATCTCACTTCCAT+TGG 0.500530 1.2:+77876539 MS.gene93865:CDS
CAGAATGATGATGAACTTCA+AGG 0.516640 1.2:+77876606 MS.gene93865:CDS
GATACAGAAGCTGTGAAAGA+AGG 0.535981 1.2:+77876450 MS.gene93865:CDS
TTCAACATCTTCATGCCACC+AGG 0.561140 1.2:+77876516 MS.gene93865:CDS
GATGATCAACAACAAGGTGA+TGG 0.565922 1.2:+77876564 MS.gene93865:CDS
TGTTGTTGATCATCATCCAA+TGG 0.574340 1.2:-77876555 None:intergenic
GATGATGAACTTCAAGGTGA+TGG 0.578269 1.2:+77876612 MS.gene93865:CDS
TGAACTTCAAGGTGATGGAT+TGG 0.587737 1.2:+77876617 MS.gene93865:CDS
GGAAGTGAGATTTCATGTCC+TGG 0.614261 1.2:-77876534 None:intergenic
TTGGATGATGATCAACAACA+AGG 0.710928 1.2:+77876558 MS.gene93865:CDS
AGTGAGATTTCATGTCCTGG+TGG 0.738423 1.2:-77876531 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGCTTCTGTATCAATTCTTT+GGG - chr1.2:77876442-77876461 None:intergenic 30.0%
! AGAACTTCTGAAAGATTTCA+AGG + chr1.2:77876416-77876435 MS.gene93865:CDS 30.0%
ACATGAAATCTCACTTCCAT+TGG + chr1.2:77876539-77876558 MS.gene93865:CDS 35.0%
CAGCTTCTGTATCAATTCTT+TGG - chr1.2:77876443-77876462 None:intergenic 35.0%
TGTTGTTGATCATCATCCAA+TGG - chr1.2:77876558-77876577 None:intergenic 35.0%
TTGGATGATGATCAACAACA+AGG + chr1.2:77876558-77876577 MS.gene93865:CDS 35.0%
! CAGAATGATGATGAACTTCA+AGG + chr1.2:77876606-77876625 MS.gene93865:CDS 35.0%
ACCAATCTTGGCATTTACTC+TGG - chr1.2:77876319-77876338 None:intergenic 40.0%
AGCTGTGAAAGAAGGAGTTA+TGG + chr1.2:77876458-77876477 MS.gene93865:CDS 40.0%
GATACAGAAGCTGTGAAAGA+AGG + chr1.2:77876450-77876469 MS.gene93865:CDS 40.0%
GATGATCAACAACAAGGTGA+TGG + chr1.2:77876564-77876583 MS.gene93865:CDS 40.0%
GATGATGAACTTCAAGGTGA+TGG + chr1.2:77876612-77876631 MS.gene93865:CDS 40.0%
TCCAGAGTAAATGCCAAGAT+TGG + chr1.2:77876315-77876334 MS.gene93865:CDS 40.0%
!! TGAACTTCAAGGTGATGGAT+TGG + chr1.2:77876617-77876636 MS.gene93865:CDS 40.0%
AGTGAGATTTCATGTCCTGG+TGG - chr1.2:77876534-77876553 None:intergenic 45.0%
GGAAGTGAGATTTCATGTCC+TGG - chr1.2:77876537-77876556 None:intergenic 45.0%
TGCTTCAGCTTCACCAATCT+TGG - chr1.2:77876331-77876350 None:intergenic 45.0%
TTCAACATCTTCATGCCACC+AGG + chr1.2:77876516-77876535 MS.gene93865:CDS 45.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 77876306 77876674 77876306 ID=MS.gene93865
chr1.2 mRNA 77876306 77876674 77876306 ID=MS.gene93865.t1;Parent=MS.gene93865
chr1.2 exon 77876306 77876674 77876306 ID=MS.gene93865.t1.exon1;Parent=MS.gene93865.t1
chr1.2 CDS 77876306 77876674 77876306 ID=cds.MS.gene93865.t1;Parent=MS.gene93865.t1
Gene Sequence

>MS.gene93865

ATGAGAAGATCCAGAGTAAATGCCAAGATTGGTGAAGCTGAAGCACTTGCGTTTATAATGAAAGTGAAATATGCGTTTCAAGATAAGAGAGAAAAGTATGAAGAATTTTTAGAACTTCTGAAAGATTTCAAGGCCCAAAGAATTGATACAGAAGCTGTGAAAGAAGGAGTTATGGAGTTGTTTAAAGAACATCAATATTTGATTTCAAGATTCAACATCTTCATGCCACCAGGACATGAAATCTCACTTCCATTGGATGATGATCAACAACAAGGTGATGGATTAGAGTTCAAAGATGAACAGAATGATGATGAACTTCAAGGTGATGGATTGGCACTCAAAGATGAGCAGAAAAATGATGAAGAATAA
Protein sequence

>MS.gene93865.t1

MRRSRVNAKIGEAEALAFIMKVKYAFQDKREKYEEFLELLKDFKAQRIDTEAVKEGVMELFKEHQYLISRFNIFMPPGHEISLPLDDDQQQGDGLEFKDEQNDDELQGDGLALKDEQKNDEE