AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05079


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05079.t1 MTR_3g063310 98.016 252 5 0 1 252 1 252 0.0 511
MS.gene05079.t1 MTR_5g076170 60.076 263 93 2 2 252 1 263 2.39e-96 283
MS.gene05079.t1 MTR_1g077560 49.609 256 118 7 2 252 1 250 5.13e-69 213
MS.gene05079.t1 MTR_5g087760 35.648 216 132 4 40 252 43 254 5.48e-36 128
MS.gene05079.t1 MTR_3g078800 38.798 183 105 3 72 250 73 252 1.11e-33 122
MS.gene05079.t1 MTR_2g012550 33.824 204 120 6 55 252 70 264 1.11e-28 109
MS.gene05079.t1 MTR_2g011350 34.437 151 92 3 80 227 35 181 7.96e-24 95.5
MS.gene05079.t1 MTR_3g104460 31.343 201 125 6 61 252 57 253 3.87e-22 92.4
MS.gene05079.t1 MTR_3g078820 30.583 206 129 5 46 246 4 200 1.37e-21 89.7
MS.gene05079.t1 MTR_2g100060 30.233 172 113 4 81 247 77 246 2.53e-21 90.1
MS.gene05079.t1 MTR_3g074150 26.471 238 160 5 15 247 15 242 3.58e-20 87.0
MS.gene05079.t1 MTR_6g071410 32.278 158 93 5 62 211 2 153 1.87e-19 84.3
MS.gene05079.t1 MTR_6g070890 32.278 158 93 5 62 211 2 153 1.87e-19 84.3
MS.gene05079.t1 MTR_6g471090 34.868 152 83 7 66 211 10 151 4.65e-18 80.5
MS.gene05079.t1 MTR_1g057270 33.784 148 90 4 87 230 75 218 5.96e-18 80.9
MS.gene05079.t1 MTR_1g057400 28.877 187 124 5 51 230 3 187 8.04e-18 79.7
MS.gene05079.t1 MTR_6g070900 31.613 155 98 6 62 211 2 153 1.01e-17 79.3
MS.gene05079.t1 MTR_6g071400 31.613 155 98 6 62 211 2 153 1.01e-17 79.3
MS.gene05079.t1 MTR_2g086790 26.804 194 129 2 70 250 20 213 1.87e-17 79.0
MS.gene05079.t1 MTR_4g119428 29.469 207 120 6 59 248 41 238 1.91e-16 76.6
MS.gene05079.t1 MTR_3g078810 34.127 126 72 3 120 239 14 134 2.36e-16 74.3
MS.gene05079.t1 MTR_7g106050 28.497 193 131 4 53 244 9 195 2.65e-16 75.5
MS.gene05079.t1 MTR_8g090320 25.806 186 110 5 61 239 83 247 1.84e-15 73.9
MS.gene05079.t1 MTR_7g106000 26.244 221 142 8 35 246 14 222 5.76e-15 72.0
MS.gene05079.t1 MTR_2g090225 38.776 147 77 5 93 233 62 201 6.26e-15 72.0
MS.gene05079.t1 MTR_4g051880 32.544 169 103 4 92 250 44 211 7.76e-15 71.6
MS.gene05079.t1 MTR_7g105870 31.343 201 126 5 35 230 12 205 1.43e-12 65.5
MS.gene05079.t1 MTR_8g016370 23.735 257 151 8 2 252 1 218 2.15e-12 65.1
MS.gene05079.t1 MTR_6g471080 32.895 152 86 6 66 211 7 148 2.55e-12 64.7
MS.gene05079.t1 MTR_1g057420 25.610 164 120 2 88 250 39 201 5.71e-12 63.5
MS.gene05079.t1 MTR_3g092790 31.618 136 90 3 92 226 49 182 3.25e-11 61.6
MS.gene05079.t1 MTR_7g106120 28.571 126 83 3 53 172 2 126 5.44e-11 60.8
MS.gene05079.t1 MTR_7g105970 25.424 177 125 4 59 230 32 206 7.88e-11 60.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05079.t1 AT1G65690 56.863 255 103 3 2 252 1 252 1.15e-94 278
MS.gene05079.t1 AT5G36970 50.996 251 120 1 2 252 1 248 3.59e-84 251
MS.gene05079.t1 AT1G54540 42.231 251 133 2 2 252 1 239 3.14e-58 185
MS.gene05079.t1 AT2G27080 35.165 182 112 3 59 239 72 248 2.08e-34 124
MS.gene05079.t1 AT2G27080 35.165 182 112 3 59 239 72 248 2.08e-34 124
MS.gene05079.t1 AT2G35980 35.176 199 113 7 35 227 12 200 5.48e-24 96.7
MS.gene05079.t1 AT3G11650 29.032 217 134 6 35 237 13 223 8.40e-24 96.3
MS.gene05079.t1 AT5G06320 31.579 209 123 7 35 230 9 210 5.50e-23 94.0
MS.gene05079.t1 AT5G21130 26.396 197 143 1 56 252 86 280 2.74e-22 93.2
MS.gene05079.t1 AT3G52470 27.320 194 134 5 59 250 12 200 8.12e-17 77.0
MS.gene05079.t1 AT2G35460 27.329 161 114 3 72 230 57 216 9.42e-17 77.4
MS.gene05079.t1 AT4G09590 29.944 177 120 4 76 250 29 203 1.64e-15 73.6
MS.gene05079.t1 AT5G22870 24.138 203 145 2 35 237 3 196 1.88e-15 73.2
MS.gene05079.t1 AT1G17620 29.707 239 143 11 2 226 1 228 2.04e-15 73.9
MS.gene05079.t1 AT3G44220 28.659 164 117 0 71 234 22 185 2.50e-15 72.8
MS.gene05079.t1 AT2G22180 25.926 216 137 5 40 251 94 290 2.71e-15 74.3
MS.gene05079.t1 AT2G35970 29.944 177 120 4 76 250 29 203 7.21e-15 71.6
MS.gene05079.t1 AT3G11660 25.275 182 131 4 70 248 20 199 1.49e-13 68.2
MS.gene05079.t1 AT2G35960 26.036 169 123 2 83 250 35 202 4.12e-13 67.0
MS.gene05079.t1 AT5G53730 27.374 179 117 4 74 246 38 209 4.81e-13 66.6
MS.gene05079.t1 AT5G22200 29.496 139 98 0 88 226 43 181 1.19e-11 62.8
MS.gene05079.t1 AT2G46300 30.208 192 125 5 44 227 37 227 5.65e-11 61.6

Find 59 sgRNAs with CRISPR-Local

Find 63 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TAGTCTGTCTACGGAGTATT+TGG 0.191922 3.4:-65438221 None:intergenic
TAATATACCACTTGATATTA+AGG 0.266549 3.4:+65438522 MS.gene05079:CDS
AGAAACCCAAACAAGAAAAT+TGG 0.271660 3.4:+65438313 MS.gene05079:CDS
TCCTGTGTTTGACCTGTTAA+AGG 0.281749 3.4:-65438451 None:intergenic
GTCTCTGCCGAAATTCTATC+AGG 0.301530 3.4:+65438399 MS.gene05079:CDS
TCGTGTTAGGTGCAGCCTTC+AGG 0.318841 3.4:+65438600 MS.gene05079:CDS
GTGCTTAATCTGCCTTTAAC+AGG 0.337570 3.4:+65438439 MS.gene05079:CDS
CGATGACCCTGATAGAATTT+CGG 0.348072 3.4:-65438406 None:intergenic
AATTCACCCTGCTAGTGATT+TGG 0.348837 3.4:+65437955 MS.gene05079:CDS
TTAGAGTCAAGTTTCGTGTT+AGG 0.366756 3.4:+65438587 MS.gene05079:CDS
TTGCAATTGGCATCACTGTT+GGG 0.370285 3.4:+65438167 MS.gene05079:CDS
CTGATTCTTATAATTGCAAT+TGG 0.380687 3.4:+65438154 MS.gene05079:CDS
TGCAGTTACTGTTACATTGA+AGG 0.386255 3.4:-65438290 None:intergenic
ACGGAGTATTTGGGAAGCTT+TGG 0.388916 3.4:-65438211 None:intergenic
AATTATAAGAATCAGCAATA+TGG 0.406684 3.4:-65438146 None:intergenic
AGTGCTTGGTATAAAGAAAC+AGG 0.434313 3.4:+65438364 MS.gene05079:CDS
CTCACTGGAAAGTGGCGTTT+CGG 0.439054 3.4:-65438061 None:intergenic
CAGCAGCAGCTTCAAGAAGC+AGG 0.455604 3.4:+65438499 MS.gene05079:CDS
AGTCTGTCTACGGAGTATTT+GGG 0.463571 3.4:-65438220 None:intergenic
CTGCAACGTATTAAATAAAC+CGG 0.477808 3.4:-65438479 None:intergenic
GGAAAGTGGCGTTTCGGAAG+AGG 0.477952 3.4:-65438055 None:intergenic
CAGATAGTAGATGTAAGTTC+CGG 0.481351 3.4:+65438659 MS.gene05079:CDS
ATTGCAATTGGCATCACTGT+TGG 0.490412 3.4:+65438166 MS.gene05079:CDS
AGAAAAGAAGTTGTTGCTGC+AGG 0.497973 3.4:+65438104 MS.gene05079:CDS
CGAGGAAACAAAGGAACTGT+AGG 0.498817 3.4:-65437992 None:intergenic
TCGGACTTTGAAGTGTTTCG+AGG 0.508784 3.4:-65438010 None:intergenic
ATTGGAATATACTATGTAAG+TGG 0.510147 3.4:+65438331 MS.gene05079:CDS
TGTTATTCTTAGTCTGTCTA+CGG 0.511522 3.4:-65438230 None:intergenic
AGCCTTCAGGTGGATAGCCT+TGG 0.512145 3.4:+65438613 MS.gene05079:CDS
GTAGATGTAAGTTCCGGCTC+AGG 0.512819 3.4:+65438665 MS.gene05079:CDS
GGTCAAACACAGGATGCAAC+CGG 0.517636 3.4:+65438460 MS.gene05079:CDS
TGTGACTCCAAATCACTAGC+AGG 0.521094 3.4:-65437962 None:intergenic
TTCGGAAGAGGTGGATATGA+AGG 0.535582 3.4:-65438043 None:intergenic
AAGAAACAGGACTGTGTGAA+GGG 0.543431 3.4:+65438377 MS.gene05079:CDS
TGCAATTGGCATCACTGTTG+GGG 0.544430 3.4:+65438168 MS.gene05079:CDS
CGAAATTCTATCAGGGTCAT+CGG 0.547495 3.4:+65438407 MS.gene05079:CDS
GTGGAAGTCATGTAAGTGCT+TGG 0.552217 3.4:+65438350 MS.gene05079:CDS
TGATTAACCTTAATATCAAG+TGG 0.555615 3.4:-65438529 None:intergenic
GGTGGATGAGTATGCCTCAC+TGG 0.556234 3.4:-65438076 None:intergenic
TGTTAGGTGCAGCCTTCAGG+TGG 0.567547 3.4:+65438603 MS.gene05079:CDS
TTAAGGTTAATCAGAATGTG+AGG 0.569840 3.4:+65438539 MS.gene05079:CDS
AATGAAATCATAGCCTGAGC+CGG 0.579582 3.4:-65438678 None:intergenic
AAAGAAACAGGACTGTGTGA+AGG 0.583033 3.4:+65438376 MS.gene05079:CDS
CAGAATGTGAGGGTTAAGCT+TGG 0.589428 3.4:+65438550 MS.gene05079:CDS
GAGTATGCCTCACTGGAAAG+TGG 0.595100 3.4:-65438069 None:intergenic
GAAGTGTTTCGAGGAAACAA+AGG 0.599067 3.4:-65438001 None:intergenic
GAAGCTTTGGCCTAAAAGCA+AGG 0.600662 3.4:-65438198 None:intergenic
AAGAATCAGCAATATGGTGA+AGG 0.604744 3.4:-65438140 None:intergenic
GTGACTCCAAATCACTAGCA+GGG 0.606048 3.4:-65437961 None:intergenic
ATATGAAGGACTGTGTCGAT+CGG 0.612748 3.4:-65438029 None:intergenic
AAGTGGCGTTTCGGAAGAGG+TGG 0.614767 3.4:-65438052 None:intergenic
CACCAAGGCTATCCACCTGA+AGG 0.614864 3.4:-65438615 None:intergenic
TAAGGTTAATCAGAATGTGA+GGG 0.620913 3.4:+65438540 MS.gene05079:CDS
AACAAAGAGACTGTTGTCGT+CGG 0.621599 3.4:-65438266 None:intergenic
GCCTTTAACAGGTCAAACAC+AGG 0.622711 3.4:+65438450 MS.gene05079:CDS
TGTTAAAGGCAGATTAAGCA+CGG 0.636197 3.4:-65438437 None:intergenic
TCTCTGCCGAAATTCTATCA+GGG 0.641999 3.4:+65438400 MS.gene05079:CDS
CGAAACGCCACTTTCCAGTG+AGG 0.677018 3.4:+65438062 MS.gene05079:CDS
TAATATCATTATCAGCACCA+AGG 0.715203 3.4:-65438630 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTATAAGAATCAGCAATA+TGG - chr3.4:65438149-65438168 None:intergenic 20.0%
!! TAATATACCACTTGATATTA+AGG + chr3.4:65438522-65438541 MS.gene05079:CDS 20.0%
!!! ATATTCCAATTTTCTTGTTT+GGG - chr3.4:65438321-65438340 None:intergenic 20.0%
!!! TATATTCCAATTTTCTTGTT+TGG - chr3.4:65438322-65438341 None:intergenic 20.0%
! ATTGGAATATACTATGTAAG+TGG + chr3.4:65438331-65438350 MS.gene05079:CDS 25.0%
! CTGATTCTTATAATTGCAAT+TGG + chr3.4:65438154-65438173 MS.gene05079:CDS 25.0%
! TGATTAACCTTAATATCAAG+TGG - chr3.4:65438532-65438551 None:intergenic 25.0%
AGAAACCCAAACAAGAAAAT+TGG + chr3.4:65438313-65438332 MS.gene05079:CDS 30.0%
CTGCAACGTATTAAATAAAC+CGG - chr3.4:65438482-65438501 None:intergenic 30.0%
TAAGGTTAATCAGAATGTGA+GGG + chr3.4:65438540-65438559 MS.gene05079:CDS 30.0%
TAATATCATTATCAGCACCA+AGG - chr3.4:65438633-65438652 None:intergenic 30.0%
TGTTATTCTTAGTCTGTCTA+CGG - chr3.4:65438233-65438252 None:intergenic 30.0%
TTAAGGTTAATCAGAATGTG+AGG + chr3.4:65438539-65438558 MS.gene05079:CDS 30.0%
! CAACAACTTCTTTTCTTCTT+TGG - chr3.4:65438100-65438119 None:intergenic 30.0%
AAGAATCAGCAATATGGTGA+AGG - chr3.4:65438143-65438162 None:intergenic 35.0%
AGTGCTTGGTATAAAGAAAC+AGG + chr3.4:65438364-65438383 MS.gene05079:CDS 35.0%
CAGATAGTAGATGTAAGTTC+CGG + chr3.4:65438659-65438678 MS.gene05079:CDS 35.0%
TGCAGTTACTGTTACATTGA+AGG - chr3.4:65438293-65438312 None:intergenic 35.0%
TGTTAAAGGCAGATTAAGCA+CGG - chr3.4:65438440-65438459 None:intergenic 35.0%
TTAGAGTCAAGTTTCGTGTT+AGG + chr3.4:65438587-65438606 MS.gene05079:CDS 35.0%
! CAACTTCTTTTCTTCTTTGG+TGG - chr3.4:65438097-65438116 None:intergenic 35.0%
AAAGAAACAGGACTGTGTGA+AGG + chr3.4:65438376-65438395 MS.gene05079:CDS 40.0%
AACAAAGAGACTGTTGTCGT+CGG - chr3.4:65438269-65438288 None:intergenic 40.0%
AAGAAACAGGACTGTGTGAA+GGG + chr3.4:65438377-65438396 MS.gene05079:CDS 40.0%
AATTCACCCTGCTAGTGATT+TGG + chr3.4:65437955-65437974 MS.gene05079:CDS 40.0%
AGAAAAGAAGTTGTTGCTGC+AGG + chr3.4:65438104-65438123 MS.gene05079:CDS 40.0%
ATTGCAATTGGCATCACTGT+TGG + chr3.4:65438166-65438185 MS.gene05079:CDS 40.0%
CGAAATTCTATCAGGGTCAT+CGG + chr3.4:65438407-65438426 MS.gene05079:CDS 40.0%
CGATGACCCTGATAGAATTT+CGG - chr3.4:65438409-65438428 None:intergenic 40.0%
GTGCTTAATCTGCCTTTAAC+AGG + chr3.4:65438439-65438458 MS.gene05079:CDS 40.0%
TCCTGTGTTTGACCTGTTAA+AGG - chr3.4:65438454-65438473 None:intergenic 40.0%
TCTCTGCCGAAATTCTATCA+GGG + chr3.4:65438400-65438419 MS.gene05079:CDS 40.0%
TTGCAATTGGCATCACTGTT+GGG + chr3.4:65438167-65438186 MS.gene05079:CDS 40.0%
! AGTCTGTCTACGGAGTATTT+GGG - chr3.4:65438223-65438242 None:intergenic 40.0%
! ATATGAAGGACTGTGTCGAT+CGG - chr3.4:65438032-65438051 None:intergenic 40.0%
! GAAGTGTTTCGAGGAAACAA+AGG - chr3.4:65438004-65438023 None:intergenic 40.0%
! TAGTCTGTCTACGGAGTATT+TGG - chr3.4:65438224-65438243 None:intergenic 40.0%
CAGAATGTGAGGGTTAAGCT+TGG + chr3.4:65438550-65438569 MS.gene05079:CDS 45.0%
CGAGGAAACAAAGGAACTGT+AGG - chr3.4:65437995-65438014 None:intergenic 45.0%
GCCTTTAACAGGTCAAACAC+AGG + chr3.4:65438450-65438469 MS.gene05079:CDS 45.0%
GTCTCTGCCGAAATTCTATC+AGG + chr3.4:65438399-65438418 MS.gene05079:CDS 45.0%
GTGACTCCAAATCACTAGCA+GGG - chr3.4:65437964-65437983 None:intergenic 45.0%
GTGGAAGTCATGTAAGTGCT+TGG + chr3.4:65438350-65438369 MS.gene05079:CDS 45.0%
TGCAATTGGCATCACTGTTG+GGG + chr3.4:65438168-65438187 MS.gene05079:CDS 45.0%
TGTGACTCCAAATCACTAGC+AGG - chr3.4:65437965-65437984 None:intergenic 45.0%
TTCGGAAGAGGTGGATATGA+AGG - chr3.4:65438046-65438065 None:intergenic 45.0%
! ACGGAGTATTTGGGAAGCTT+TGG - chr3.4:65438214-65438233 None:intergenic 45.0%
! GAAGCTTTGGCCTAAAAGCA+AGG - chr3.4:65438201-65438220 None:intergenic 45.0%
!! TCGGACTTTGAAGTGTTTCG+AGG - chr3.4:65438013-65438032 None:intergenic 45.0%
CTCACTGGAAAGTGGCGTTT+CGG - chr3.4:65438064-65438083 None:intergenic 50.0%
GAGTATGCCTCACTGGAAAG+TGG - chr3.4:65438072-65438091 None:intergenic 50.0%
GGTCAAACACAGGATGCAAC+CGG + chr3.4:65438460-65438479 MS.gene05079:CDS 50.0%
GTAGATGTAAGTTCCGGCTC+AGG + chr3.4:65438665-65438684 MS.gene05079:CDS 50.0%
!! GGGCACTCTACCTTGCTTTT+AGG + chr3.4:65438188-65438207 MS.gene05079:CDS 50.0%
AAGTGGCGTTTCGGAAGAGG+TGG - chr3.4:65438055-65438074 None:intergenic 55.0%
AGCCTTCAGGTGGATAGCCT+TGG + chr3.4:65438613-65438632 MS.gene05079:CDS 55.0%
CACCAAGGCTATCCACCTGA+AGG - chr3.4:65438618-65438637 None:intergenic 55.0%
CAGCAGCAGCTTCAAGAAGC+AGG + chr3.4:65438499-65438518 MS.gene05079:CDS 55.0%
GGAAAGTGGCGTTTCGGAAG+AGG - chr3.4:65438058-65438077 None:intergenic 55.0%
GGTGGATGAGTATGCCTCAC+TGG - chr3.4:65438079-65438098 None:intergenic 55.0%
TCGTGTTAGGTGCAGCCTTC+AGG + chr3.4:65438600-65438619 MS.gene05079:CDS 55.0%
TGTTAGGTGCAGCCTTCAGG+TGG + chr3.4:65438603-65438622 MS.gene05079:CDS 55.0%
! CGAAACGCCACTTTCCAGTG+AGG + chr3.4:65438062-65438081 MS.gene05079:CDS 55.0%


Chromosome Type Strat End Strand Name
chr3.4 gene 65437935 65438693 65437935 ID=MS.gene05079
chr3.4 mRNA 65437935 65438693 65437935 ID=MS.gene05079.t1;Parent=MS.gene05079
chr3.4 exon 65437935 65438693 65437935 ID=MS.gene05079.t1.exon1;Parent=MS.gene05079.t1
chr3.4 CDS 65437935 65438693 65437935 ID=cds.MS.gene05079.t1;Parent=MS.gene05079.t1
Gene Sequence

>MS.gene05079

ATGATGACAGATCATCAGAGAATTCACCCTGCTAGTGATTTGGAGTCACAAAACAAACCTACAGTTCCTTTGTTTCCTCGAAACACTTCAAAGTCCGATCGACACAGTCCTTCATATCCACCTCTTCCGAAACGCCACTTTCCAGTGAGGCATACTCATCCACCAAAGAAGAAAAGAAGTTGTTGCTGCAGGTTCTTGTGCTGCACCTTCACCATATTGCTGATTCTTATAATTGCAATTGGCATCACTGTTGGGGCACTCTACCTTGCTTTTAGGCCAAAGCTTCCCAAATACTCCGTAGACAGACTAAGAATAACACAGTTCAATCTTTCCGACGACAACAGTCTCTTTGTTACCTTCAATGTAACAGTAACTGCAAGAAACCCAAACAAGAAAATTGGAATATACTATGTAAGTGGAAGTCATGTAAGTGCTTGGTATAAAGAAACAGGACTGTGTGAAGGGTCTCTGCCGAAATTCTATCAGGGTCATCGGAATACAACCGTGCTTAATCTGCCTTTAACAGGTCAAACACAGGATGCAACCGGTTTATTTAATACGTTGCAGCAGCAGCTTCAAGAAGCAGGTAATATACCACTTGATATTAAGGTTAATCAGAATGTGAGGGTTAAGCTTGGTAAGTTGAAGATCTTTAGAGTCAAGTTTCGTGTTAGGTGCAGCCTTCAGGTGGATAGCCTTGGTGCTGATAATGATATTAGTATTTCAGATAGTAGATGTAAGTTCCGGCTCAGGCTATGA

Protein sequence

>MS.gene05079.t1

MMTDHQRIHPASDLESQNKPTVPLFPRNTSKSDRHSPSYPPLPKRHFPVRHTHPPKKKRSCCCRFLCCTFTILLILIIAIGITVGALYLAFRPKLPKYSVDRLRITQFNLSDDNSLFVTFNVTVTARNPNKKIGIYYVSGSHVSAWYKETGLCEGSLPKFYQGHRNTTVLNLPLTGQTQDATGLFNTLQQQLQEAGNIPLDIKVNQNVRVKLGKLKIFRVKFRVRCSLQVDSLGADNDISISDSRCKFRLRL