AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene99642

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene99642.t1 MTR_1g104940 90.984 122 11 0 1 122 1 122 8.11e-77 223
MS.gene99642.t1 MTR_1g104937 68.317 101 30 1 1 101 1 99 1.49e-45 143
MS.gene99642.t1 MTR_1g104960 67.500 80 26 0 14 93 13 92 3.85e-31 109
MS.gene99642.t1 MTR_1g104960 57.692 78 33 0 12 89 97 174 9.95e-26 95.5
MS.gene99642.t1 MTR_1g104980 54.206 107 45 2 17 122 73 176 3.11e-28 101
MS.gene99642.t1 MTR_1g104980 61.765 68 26 0 16 83 1 68 8.11e-24 90.5
MS.gene99642.t1 MTR_5g036670 53.409 88 41 0 4 91 33 120 1.27e-23 94.7
MS.gene99642.t1 MTR_1g104950 73.684 57 13 1 39 93 3 59 9.33e-23 85.1
MS.gene99642.t1 MTR_8g062700 49.474 95 47 1 9 102 37 131 1.13e-21 89.4
MS.gene99642.t1 MTR_8g062700 49.474 95 47 1 9 102 37 131 1.19e-21 89.4
MS.gene99642.t1 MTR_3g006105 46.218 119 58 2 9 121 3 121 3.22e-20 81.3
MS.gene99642.t1 MTR_1g105960 50.649 77 38 0 15 91 2 78 6.26e-20 78.6
MS.gene99642.t1 MTR_6g008970 46.512 86 46 0 4 89 53 138 2.67e-19 82.4
MS.gene99642.t1 MTR_6g008995 46.154 91 48 1 9 99 32 121 7.49e-19 80.9
MS.gene99642.t1 MTR_3g006125 47.059 119 57 2 9 121 84 202 1.00e-18 79.0
MS.gene99642.t1 MTR_3g006125 50.000 70 34 1 14 82 180 249 2.54e-12 61.6
MS.gene99642.t1 MTR_3g006150 49.425 87 41 1 13 99 7 90 3.80e-18 75.5
MS.gene99642.t1 MTR_3g006150 54.930 71 31 1 14 83 90 160 5.25e-15 67.4
MS.gene99642.t1 MTR_1g105010 52.174 69 33 0 14 82 16 84 7.58e-17 70.9
MS.gene99642.t1 MTR_4g133470 55.714 70 31 0 17 86 175 244 1.80e-16 72.8
MS.gene99642.t1 MTR_4g133470 42.857 91 52 0 9 99 84 174 1.94e-14 67.4
MS.gene99642.t1 MTR_3g006185 44.915 118 60 2 9 121 3 120 1.96e-16 71.2
MS.gene99642.t1 MTR_4g133300 55.714 70 31 0 17 86 175 244 2.58e-16 72.4
MS.gene99642.t1 MTR_4g133300 43.956 91 51 0 9 99 84 174 4.20e-16 72.0
MS.gene99642.t1 MTR_1g105955 51.389 72 35 0 15 86 17 88 5.89e-16 70.5
MS.gene99642.t1 MTR_1g105955 50.725 69 34 0 14 82 95 163 4.52e-14 65.5
MS.gene99642.t1 MTR_8g062350 41.053 95 54 1 1 95 1 93 2.70e-15 68.9
MS.gene99642.t1 MTR_3g006065 47.126 87 43 1 13 99 7 90 4.02e-15 68.2
MS.gene99642.t1 MTR_3g006065 51.250 80 36 2 14 90 90 169 1.40e-14 66.6
MS.gene99642.t1 MTR_3g006010 46.835 79 41 1 7 85 3 80 1.20e-14 68.9
MS.gene99642.t1 MTR_7g089490 47.826 69 36 0 14 82 16 84 2.21e-14 64.7
MS.gene99642.t1 MTR_7g013380 40.964 83 45 2 4 84 5 85 1.17e-12 63.2
MS.gene99642.t1 MTR_7g013380 41.429 70 41 0 20 89 193 262 9.03e-12 60.5
MS.gene99642.t1 MTR_7g013410 46.269 67 36 0 18 84 2 68 3.93e-12 59.3
MS.gene99642.t1 MTR_6g008995 50.000 64 31 1 36 99 2 64 1.13e-11 60.5
MS.gene99642.t1 MTR_1g093310 42.857 70 34 1 16 85 11 74 5.30e-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.gene99642.t1 AT3G01320 47.959 98 51 0 5 102 48 145 1.80e-21 89.0
MS.gene99642.t1 AT3G01320 47.959 98 51 0 5 102 48 145 1.83e-21 88.6
MS.gene99642.t1 AT1G70060 54.321 81 37 0 9 89 9 89 4.50e-20 84.7
MS.gene99642.t1 AT1G70060 54.321 81 37 0 9 89 9 89 4.50e-20 84.7
MS.gene99642.t1 AT1G24190 51.852 81 39 0 9 89 9 89 2.37e-19 82.8
MS.gene99642.t1 AT1G24190 51.852 81 39 0 9 89 9 89 2.53e-19 82.8
MS.gene99642.t1 AT1G24190 51.852 81 39 0 9 89 9 89 2.71e-19 82.4
MS.gene99642.t1 AT5G15020 50.667 75 37 0 9 83 47 121 2.72e-17 77.0
MS.gene99642.t1 AT5G15020 50.667 75 37 0 9 83 47 121 2.78e-17 76.6
MS.gene99642.t1 AT1G59890 46.753 77 41 0 13 89 44 120 3.97e-16 73.6
MS.gene99642.t1 AT1G59890 46.753 77 41 0 13 89 44 120 3.97e-16 73.6
MS.gene99642.t1 AT1G59890 46.753 77 41 0 13 89 44 120 4.25e-16 73.6
MS.gene99642.t1 AT1G59890 46.753 77 41 0 13 89 44 120 4.33e-16 73.6
MS.gene99642.t1 AT5G15025 47.143 70 37 0 14 83 47 116 1.12e-15 68.2
MS.gene99642.t1 AT1G70030 45.455 77 42 0 7 83 15 91 2.14e-15 67.4
MS.gene99642.t1 AT1G10450 41.237 97 56 1 3 99 22 117 2.76e-15 71.2
MS.gene99642.t1 AT1G10450 41.237 97 56 1 3 99 22 117 2.76e-15 71.2
MS.gene99642.t1 AT1G10450 41.237 97 56 1 3 99 73 168 2.90e-15 70.9
MS.gene99642.t1 AT1G70030 35.938 128 69 2 7 122 4 130 5.56e-15 67.4
MS.gene99642.t1 AT1G70030 45.455 77 42 0 7 83 15 91 7.97e-15 66.2
MS.gene99642.t1 AT5G15040 47.368 76 38 1 13 88 2 75 5.30e-14 62.8
MS.gene99642.t1 AT5G15040 47.368 76 38 1 13 88 2 75 5.30e-14 62.8
MS.gene99642.t1 AT5G15040 47.368 76 38 1 13 88 2 75 5.30e-14 62.8
MS.gene99642.t1 AT5G35610 41.053 95 53 1 8 102 4 95 1.49e-13 63.5
MS.gene99642.t1 AT1G24200 46.377 69 37 0 14 82 14 82 5.80e-13 62.8
MS.gene99642.t1 AT1G27220 43.478 69 39 0 14 82 14 82 9.74e-13 62.0
MS.gene99642.t1 AT1G23810 37.931 87 53 1 14 100 109 194 6.99e-11 57.8

Find 17 sgRNAs with CRISPR-Local

Find 17 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAGCTTCTGTATCAATTCTT+TGG 0.194353 1.4:-80773952 None:intergenic
TGCTTCAGCTTCACCAATCT+TGG 0.305827 1.4:-80773840 None:intergenic
AGCTTCTGTATCAATTCTTT+GGG 0.320273 1.4:-80773951 None:intergenic
AGTACTTCTGAAAGATTTCA+AGG 0.371448 1.4:+80773928 MS.gene99642:CDS
ACCAATCTTGGCATTTACTC+TGG 0.415002 1.4:-80773828 None:intergenic
AGCTGTGAAAGAAGGAGTTA+TGG 0.477622 1.4:+80773970 MS.gene99642:CDS
TCCAGAGTAAATGCCAAGAT+TGG 0.492118 1.4:+80773827 MS.gene99642:CDS
ACATGAAATCTCACTTCCAT+TGG 0.500530 1.4:+80774051 MS.gene99642:CDS
GATACAGAAGCTGTGAAAGA+AGG 0.535981 1.4:+80773962 MS.gene99642:CDS
TGAACTTCAAAGTGATGGAT+TGG 0.560946 1.4:+80774129 MS.gene99642:CDS
TTCAACATCTTCATGCCACC+AGG 0.561140 1.4:+80774028 MS.gene99642:CDS
GATGATCAACAACAAGGTGA+TGG 0.565922 1.4:+80774076 MS.gene99642:CDS
GATGATGAACTTCAAAGTGA+TGG 0.574152 1.4:+80774124 MS.gene99642:CDS
TGTTGTTGATCATCATCCAA+TGG 0.574340 1.4:-80774067 None:intergenic
GGAAGTGAGATTTCATGTCC+TGG 0.614261 1.4:-80774046 None:intergenic
TTGGATGATGATCAACAACA+AGG 0.710928 1.4:+80774070 MS.gene99642:CDS
AGTGAGATTTCATGTCCTGG+TGG 0.738423 1.4:-80774043 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AGCTTCTGTATCAATTCTTT+GGG - chr1.4:80773954-80773973 None:intergenic 30.0%
! AGTACTTCTGAAAGATTTCA+AGG + chr1.4:80773928-80773947 MS.gene99642:CDS 30.0%
ACATGAAATCTCACTTCCAT+TGG + chr1.4:80774051-80774070 MS.gene99642:CDS 35.0%
CAGCTTCTGTATCAATTCTT+TGG - chr1.4:80773955-80773974 None:intergenic 35.0%
GATGATGAACTTCAAAGTGA+TGG + chr1.4:80774124-80774143 MS.gene99642:CDS 35.0%
TGTTGTTGATCATCATCCAA+TGG - chr1.4:80774070-80774089 None:intergenic 35.0%
TTGGATGATGATCAACAACA+AGG + chr1.4:80774070-80774089 MS.gene99642:CDS 35.0%
!! TGAACTTCAAAGTGATGGAT+TGG + chr1.4:80774129-80774148 MS.gene99642:CDS 35.0%
ACCAATCTTGGCATTTACTC+TGG - chr1.4:80773831-80773850 None:intergenic 40.0%
AGCTGTGAAAGAAGGAGTTA+TGG + chr1.4:80773970-80773989 MS.gene99642:CDS 40.0%
GATACAGAAGCTGTGAAAGA+AGG + chr1.4:80773962-80773981 MS.gene99642:CDS 40.0%
GATGATCAACAACAAGGTGA+TGG + chr1.4:80774076-80774095 MS.gene99642:CDS 40.0%
TCCAGAGTAAATGCCAAGAT+TGG + chr1.4:80773827-80773846 MS.gene99642:CDS 40.0%
AGTGAGATTTCATGTCCTGG+TGG - chr1.4:80774046-80774065 None:intergenic 45.0%
GGAAGTGAGATTTCATGTCC+TGG - chr1.4:80774049-80774068 None:intergenic 45.0%
TGCTTCAGCTTCACCAATCT+TGG - chr1.4:80773843-80773862 None:intergenic 45.0%
TTCAACATCTTCATGCCACC+AGG + chr1.4:80774028-80774047 MS.gene99642:CDS 45.0%


Chromosome Type Strat End Strand Name
chr1.4 gene 80773818 80774186 80773818 ID=MS.gene99642
chr1.4 mRNA 80773818 80774186 80773818 ID=MS.gene99642.t1;Parent=MS.gene99642
chr1.4 exon 80773818 80774186 80773818 ID=MS.gene99642.t1.exon1;Parent=MS.gene99642.t1
chr1.4 CDS 80773818 80774186 80773818 ID=cds.MS.gene99642.t1;Parent=MS.gene99642.t1
Gene Sequence

>MS.gene99642

ATGAGAAGATCCAGAGTAAATGCCAAGATTGGTGAAGCTGAAGCACTTGCGTTTATAATGAAAGTGAAATATGCGTTTCAAGATAAGAGAGAAAAGTATGAAGAATTTTTAGTACTTCTGAAAGATTTCAAGGCCCAAAGAATTGATACAGAAGCTGTGAAAGAAGGAGTTATGGAGTTGTTTAAAGAACATCAATATTTGATTTCAAGATTCAACATCTTCATGCCACCAGGACATGAAATCTCACTTCCATTGGATGATGATCAACAACAAGGTGATGGATTAGAGTTCAAAGATGAACAGAATGATGATGAACTTCAAAGTGATGGATTGGCACTCAAAGATGAGCAGAAAAATGATGAAGAATAA
Protein sequence

>MS.gene99642.t1

MRRSRVNAKIGEAEALAFIMKVKYAFQDKREKYEEFLVLLKDFKAQRIDTEAVKEGVMELFKEHQYLISRFNIFMPPGHEISLPLDDDQQQGDGLEFKDEQNDDELQSDGLALKDEQKNDEE