AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene022986

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022986.t1 MTR_7g088160 45.213 188 99 3 30 216 77 261 2.53e-49 165
MS.gene022986.t1 MTR_4g063670 45.238 210 104 5 1 207 1 202 1.09e-48 162
MS.gene022986.t1 MTR_7g107340 45.283 212 77 7 2 206 50 229 7.23e-46 155
MS.gene022986.t1 MTR_0867s0010 42.308 182 103 2 12 191 4 185 4.54e-42 145
MS.gene022986.t1 MTR_4g083510 39.303 201 118 4 10 206 2 202 1.10e-36 130
MS.gene022986.t1 MTR_3g069460 40.000 180 98 4 1 178 1 172 3.03e-33 118
MS.gene022986.t1 MTR_6g081150 38.378 185 54 5 1 185 1 125 5.17e-33 117
MS.gene022986.t1 MTR_1g051185 45.113 133 70 3 78 207 45 177 4.53e-32 117
MS.gene022986.t1 MTR_7g114170 40.526 190 69 6 7 196 52 197 1.53e-30 114
MS.gene022986.t1 MTR_3g450670 25.967 181 121 3 5 178 73 247 6.24e-17 78.6
MS.gene022986.t1 MTR_1g471070 25.967 181 121 3 5 178 73 247 6.24e-17 78.6
MS.gene022986.t1 MTR_4g013220 26.203 187 128 4 2 178 23 209 1.15e-16 77.4
MS.gene022986.t1 MTR_6g453050 23.316 193 138 3 10 196 45 233 5.30e-16 75.5
MS.gene022986.t1 MTR_3g067785 25.668 187 129 4 2 178 23 209 7.88e-16 75.1
MS.gene022986.t1 MTR_2g072860 25.714 175 121 4 6 178 16 183 1.04e-15 74.7
MS.gene022986.t1 MTR_7g461350 26.286 175 120 4 6 178 84 251 1.12e-15 75.1
MS.gene022986.t1 MTR_6g016670 26.286 175 120 4 6 178 84 251 1.12e-15 75.1
MS.gene022986.t1 MTR_3g464310 26.286 175 120 4 6 178 84 251 1.12e-15 75.1
MS.gene022986.t1 MTR_4g026120 25.786 159 112 2 26 178 51 209 1.67e-15 74.3
MS.gene022986.t1 MTR_4g036435 25.786 159 112 2 26 178 51 209 1.67e-15 74.3
MS.gene022986.t1 MTR_3g464170 25.714 175 121 4 6 178 84 251 1.69e-15 74.3
MS.gene022986.t1 MTR_1g100375 25.714 175 121 4 6 178 84 251 1.69e-15 74.3
MS.gene022986.t1 MTR_5g066280 25.786 159 112 2 26 178 51 209 1.89e-15 73.9
MS.gene022986.t1 MTR_2g022120 25.668 187 129 4 2 178 87 273 2.24e-15 74.3
MS.gene022986.t1 MTR_6g051405 25.714 175 121 4 6 178 84 251 2.45e-15 73.9
MS.gene022986.t1 MTR_1g106885 25.786 159 112 2 26 178 112 270 3.45e-15 73.6
MS.gene022986.t1 MTR_6g092533 25.668 187 129 4 2 178 87 273 3.47e-15 73.6
MS.gene022986.t1 MTR_5g077245 25.668 187 129 4 2 178 76 262 3.77e-15 73.6
MS.gene022986.t1 MTR_7g083520 24.359 156 114 2 21 176 30 181 8.01e-14 69.3
MS.gene022986.t1 MTR_1g086750 25.385 130 97 0 48 177 14 143 1.82e-12 64.3
MS.gene022986.t1 MTR_7g062380 25.000 128 96 0 51 178 17 144 4.81e-12 63.9
MS.gene022986.t1 MTR_2g023560 47.059 51 27 0 54 104 57 107 2.47e-11 59.3
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene022986.t1 AT5G41220 39.535 172 94 4 53 214 208 379 4.35e-28 110
MS.gene022986.t1 AT3G47680 39.610 154 90 2 54 205 44 196 4.42e-28 108
MS.gene022986.t1 AT5G41220 39.535 172 94 4 53 214 216 387 4.61e-28 110
MS.gene022986.t1 AT5G41220 39.535 172 94 4 53 214 266 437 6.14e-28 110
MS.gene022986.t1 AT5G41240 39.623 159 86 4 53 201 266 424 1.78e-23 98.2
MS.gene022986.t1 AT1G66235 33.077 130 80 3 60 184 7 134 3.18e-15 73.2

Find 41 sgRNAs with CRISPR-Local

Find 51 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTGCTTCTCCCTTCCATTT+TGG 0.196407 7.2:-49050777 None:intergenic
CCACAATTCTCCACTCAAAT+TGG 0.308601 7.2:+49050309 MS.gene022986:CDS
AGTTGACCCAATTCCCTCTT+TGG 0.316346 7.2:-49050567 None:intergenic
TCAACTTCCAAAGAGGGAAT+TGG 0.360904 7.2:+49050560 MS.gene022986:CDS
TACTAACACGTGTATTCAAT+TGG 0.387285 7.2:-49050605 None:intergenic
GGCGGACCACTTATGATGAT+TGG 0.415022 7.2:-49050890 None:intergenic
ACACCACTGCTAGAACCTAT+TGG 0.417209 7.2:-49050267 None:intergenic
CAACTTCCAAAGAGGGAATT+GGG 0.454047 7.2:+49050561 MS.gene022986:CDS
AAACAATCAACCGGTGTCCC+TGG 0.455934 7.2:-49050858 None:intergenic
TAAGGTTTATACACAAGATA+CGG 0.460237 7.2:+49050707 MS.gene022986:CDS
GAACAAAGGTTTCTACTAGT+GGG 0.470884 7.2:+49050817 MS.gene022986:CDS
TATAATGACTGAGGCACATA+AGG 0.479537 7.2:+49050689 MS.gene022986:CDS
TCATAATCTAAACAATCAAC+CGG 0.495979 7.2:-49050867 None:intergenic
GGGTATTCAACATCATATCC+AGG 0.496179 7.2:+49050840 MS.gene022986:CDS
AATTCCTTCTTGTTCATGCA+TGG 0.517541 7.2:+49050736 MS.gene022986:CDS
ATGTGGCATAGACCTCCAAT+AGG 0.519831 7.2:+49050252 MS.gene022986:CDS
ATTTCGAAGGATCCAGTTGT+GGG 0.519983 7.2:+49050474 MS.gene022986:CDS
GAACATATTACGCTCGATGA+AGG 0.524048 7.2:+49050366 MS.gene022986:CDS
AGAACAAAGGTTTCTACTAG+TGG 0.537311 7.2:+49050816 MS.gene022986:CDS
CTTTGGAAGTTGATTGCGGT+AGG 0.547447 7.2:-49050550 None:intergenic
CATTTCGAAGGATCCAGTTG+TGG 0.554589 7.2:+49050473 MS.gene022986:CDS
TGAAGGACCAAGTTCTAAGA+AGG 0.555312 7.2:+49050383 MS.gene022986:CDS
CCAATTTGAGTGGAGAATTG+TGG 0.563702 7.2:-49050309 None:intergenic
TCAATTGAAGTGGAAAGTTG+TGG 0.574146 7.2:-49050339 None:intergenic
TTCGCCATGCATGAACAAGA+AGG 0.577185 7.2:-49050740 None:intergenic
AACATGGCTCAACATTTCGA+AGG 0.578353 7.2:+49050461 MS.gene022986:CDS
CCCTCTTTGGAAGTTGATTG+CGG 0.585401 7.2:-49050554 None:intergenic
TGGTTCTCGACCAATTTGAG+TGG 0.586371 7.2:-49050319 None:intergenic
AAGGTTTATACACAAGATAC+GGG 0.586728 7.2:+49050708 MS.gene022986:CDS
ATGTTCAAGATCAATTGAAG+TGG 0.589686 7.2:-49050349 None:intergenic
ACCGCAATCAACTTCCAAAG+AGG 0.593449 7.2:+49050553 MS.gene022986:CDS
AACAAAGGTTTCTACTAGTG+GGG 0.594336 7.2:+49050818 MS.gene022986:CDS
ACAAAGGTTTCTACTAGTGG+GGG 0.609257 7.2:+49050819 MS.gene022986:CDS
CCACTGCTAGAACCTATTGG+AGG 0.613651 7.2:-49050264 None:intergenic
CCGCAATCAACTTCCAAAGA+GGG 0.617379 7.2:+49050554 MS.gene022986:CDS
AATAGGTTCTAGCAGTGGTG+TGG 0.623231 7.2:+49050269 MS.gene022986:CDS
AACATCATATCCAGGGACAC+CGG 0.639376 7.2:+49050848 MS.gene022986:CDS
TGAAGATGATATAATGACTG+AGG 0.668851 7.2:+49050680 MS.gene022986:CDS
GGTATTCAACATCATATCCA+GGG 0.674938 7.2:+49050841 MS.gene022986:CDS
CCTCCAATAGGTTCTAGCAG+TGG 0.690589 7.2:+49050264 MS.gene022986:CDS
CAAAGGTTTCTACTAGTGGG+GGG 0.715328 7.2:+49050820 MS.gene022986:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TATTGAAAAATGAACCAAAA+TGG + chr7.2:49050763-49050782 MS.gene022986:CDS 20.0%
! AAAAATGAACCAAAATGGAA+GGG + chr7.2:49050768-49050787 MS.gene022986:CDS 25.0%
! AAACTCTTCAAAAAGAACAA+AGG + chr7.2:49050803-49050822 MS.gene022986:CDS 25.0%
! TAAGGTTTATACACAAGATA+CGG + chr7.2:49050707-49050726 MS.gene022986:CDS 25.0%
! TCATAATCTAAACAATCAAC+CGG - chr7.2:49050870-49050889 None:intergenic 25.0%
AAGGTTTATACACAAGATAC+GGG + chr7.2:49050708-49050727 MS.gene022986:CDS 30.0%
ATGTTCAAGATCAATTGAAG+TGG - chr7.2:49050352-49050371 None:intergenic 30.0%
GAAAAATGAACCAAAATGGA+AGG + chr7.2:49050767-49050786 MS.gene022986:CDS 30.0%
TACTAACACGTGTATTCAAT+TGG - chr7.2:49050608-49050627 None:intergenic 30.0%
TGAAGATGATATAATGACTG+AGG + chr7.2:49050680-49050699 MS.gene022986:CDS 30.0%
! AATTCGTGCAAGTTTTTCTA+TGG + chr7.2:49050416-49050435 MS.gene022986:CDS 30.0%
! ACACACTTTTACTTCAAACA+TGG + chr7.2:49050445-49050464 MS.gene022986:CDS 30.0%
AACAAAGGTTTCTACTAGTG+GGG + chr7.2:49050818-49050837 MS.gene022986:CDS 35.0%
AATTCCTTCTTGTTCATGCA+TGG + chr7.2:49050736-49050755 MS.gene022986:CDS 35.0%
AGAACAAAGGTTTCTACTAG+TGG + chr7.2:49050816-49050835 MS.gene022986:CDS 35.0%
GAACAAAGGTTTCTACTAGT+GGG + chr7.2:49050817-49050836 MS.gene022986:CDS 35.0%
GGTATTCAACATCATATCCA+GGG + chr7.2:49050841-49050860 MS.gene022986:CDS 35.0%
TATAATGACTGAGGCACATA+AGG + chr7.2:49050689-49050708 MS.gene022986:CDS 35.0%
TCAATTGAAGTGGAAAGTTG+TGG - chr7.2:49050342-49050361 None:intergenic 35.0%
! ACCAAAAACCTTCAGCTTTT+TGG - chr7.2:49050506-49050525 None:intergenic 35.0%
! ACCAAAAAGCTGAAGGTTTT+TGG + chr7.2:49050502-49050521 MS.gene022986:CDS 35.0%
! TTTTTCGCCTTCTTAGAACT+TGG - chr7.2:49050393-49050412 None:intergenic 35.0%
AACATGGCTCAACATTTCGA+AGG + chr7.2:49050461-49050480 MS.gene022986:CDS 40.0%
ACAAAGGTTTCTACTAGTGG+GGG + chr7.2:49050819-49050838 MS.gene022986:CDS 40.0%
ATTTCGAAGGATCCAGTTGT+GGG + chr7.2:49050474-49050493 MS.gene022986:CDS 40.0%
CAACTTCCAAAGAGGGAATT+GGG + chr7.2:49050561-49050580 MS.gene022986:CDS 40.0%
CCAATTTGAGTGGAGAATTG+TGG - chr7.2:49050312-49050331 None:intergenic 40.0%
CCACAATTCTCCACTCAAAT+TGG + chr7.2:49050309-49050328 MS.gene022986:CDS 40.0%
GAACATATTACGCTCGATGA+AGG + chr7.2:49050366-49050385 MS.gene022986:CDS 40.0%
GGGTATTCAACATCATATCC+AGG + chr7.2:49050840-49050859 MS.gene022986:CDS 40.0%
TCAACTTCCAAAGAGGGAAT+TGG + chr7.2:49050560-49050579 MS.gene022986:CDS 40.0%
! ATTGCTTCTCCCTTCCATTT+TGG - chr7.2:49050780-49050799 None:intergenic 40.0%
!! TGAAGGACCAAGTTCTAAGA+AGG + chr7.2:49050383-49050402 MS.gene022986:CDS 40.0%
AACATCATATCCAGGGACAC+CGG + chr7.2:49050848-49050867 MS.gene022986:CDS 45.0%
ACACCACTGCTAGAACCTAT+TGG - chr7.2:49050270-49050289 None:intergenic 45.0%
ACCGCAATCAACTTCCAAAG+AGG + chr7.2:49050553-49050572 MS.gene022986:CDS 45.0%
AGTTGACCCAATTCCCTCTT+TGG - chr7.2:49050570-49050589 None:intergenic 45.0%
ATGTGGCATAGACCTCCAAT+AGG + chr7.2:49050252-49050271 MS.gene022986:CDS 45.0%
CAAAGGTTTCTACTAGTGGG+GGG + chr7.2:49050820-49050839 MS.gene022986:CDS 45.0%
CATTTCGAAGGATCCAGTTG+TGG + chr7.2:49050473-49050492 MS.gene022986:CDS 45.0%
CCGCAATCAACTTCCAAAGA+GGG + chr7.2:49050554-49050573 MS.gene022986:CDS 45.0%
GGAGTTGACCAAAAAGCTGA+AGG + chr7.2:49050495-49050514 MS.gene022986:CDS 45.0%
TGGTTCTCGACCAATTTGAG+TGG - chr7.2:49050322-49050341 None:intergenic 45.0%
TTCGCCATGCATGAACAAGA+AGG - chr7.2:49050743-49050762 None:intergenic 45.0%
! AATAGGTTCTAGCAGTGGTG+TGG + chr7.2:49050269-49050288 MS.gene022986:CDS 45.0%
! CCCTCTTTGGAAGTTGATTG+CGG - chr7.2:49050557-49050576 None:intergenic 45.0%
! CTTTGGAAGTTGATTGCGGT+AGG - chr7.2:49050553-49050572 None:intergenic 45.0%
! TTTTGGTCAACTCCCACAAC+TGG - chr7.2:49050489-49050508 None:intergenic 45.0%
AAACAATCAACCGGTGTCCC+TGG - chr7.2:49050861-49050880 None:intergenic 50.0%
CCACTGCTAGAACCTATTGG+AGG - chr7.2:49050267-49050286 None:intergenic 50.0%
! CCTCCAATAGGTTCTAGCAG+TGG + chr7.2:49050264-49050283 MS.gene022986:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 49050252 49050902 49050252 ID=MS.gene022986
chr7.2 mRNA 49050252 49050902 49050252 ID=MS.gene022986.t1;Parent=MS.gene022986
chr7.2 exon 49050252 49050902 49050252 ID=MS.gene022986.t1.exon1;Parent=MS.gene022986.t1
chr7.2 CDS 49050252 49050902 49050252 ID=cds.MS.gene022986.t1;Parent=MS.gene022986.t1
Gene Sequence

>MS.gene022986

ATGTGGCATAGACCTCCAATAGGTTCTAGCAGTGGTGTGGAGTCTAGTAATTATGTGCCACAATTCTCCACTCAAATTGGTCGAGAACCACAACTTTCCACTTCAATTGATCTTGAACATATTACGCTCGATGAAGGACCAAGTTCTAAGAAGGCGAAAAAACAAATTCGTGCAAGTTTTTCTATGGAAGAAGACACACTTTTACTTCAAACATGGCTCAACATTTCGAAGGATCCAGTTGTGGGAGTTGACCAAAAAGCTGAAGGTTTTTGGTTAAGAATCAAAGACAACTACAACACCTACCGCAATCAACTTCCAAAGAGGGAATTGGGTCAACTAACATCTCGATATCACCAATTGAATACACGTGTTAGTAAGTTTGTGAGCTGCTACAAAGCAGCAGTTAATCAAAACAAAAGTCGTCGCTCTGAAGATGATATAATGACTGAGGCACATAAGGTTTATACACAAGATACGGGAAAAAAATTCCTTCTTGTTCATGCATGGCGAATATTGAAAAATGAACCAAAATGGAAGGGAGAAGCAATCGAAAACTCTTCAAAAAGAACAAAGGTTTCTACTAGTGGGGGGTATTCAACATCATATCCAGGGACACCGGTTGATTGTTTAGATTATGACCAATCATCATAA
Protein sequence

>MS.gene022986.t1

MWHRPPIGSSSGVESSNYVPQFSTQIGREPQLSTSIDLEHITLDEGPSSKKAKKQIRASFSMEEDTLLLQTWLNISKDPVVGVDQKAEGFWLRIKDNYNTYRNQLPKRELGQLTSRYHQLNTRVSKFVSCYKAAVNQNKSRRSEDDIMTEAHKVYTQDTGKKFLLVHAWRILKNEPKWKGEAIENSSKRTKVSTSGGYSTSYPGTPVDCLDYDQSS