AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene067910

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067910.t1 MTR_8g069080 94.068 236 14 0 11 246 33 268 9.15e-162 449
MS.gene067910.t1 MTR_2g076780 91.983 237 18 1 11 246 1 237 4.02e-155 431
MS.gene067910.t1 MTR_5g032600 46.117 206 102 2 42 245 73 271 2.89e-54 176
MS.gene067910.t1 MTR_1g077020 39.614 207 90 4 46 245 8 186 3.44e-43 145
MS.gene067910.t1 MTR_4g134580 37.815 238 107 6 46 245 112 346 5.62e-43 149
MS.gene067910.t1 MTR_3g100650 44.335 203 102 3 46 245 79 273 6.00e-43 147
MS.gene067910.t1 MTR_5g020510 38.537 205 106 4 47 242 99 292 4.68e-41 142
MS.gene067910.t1 MTR_5g065440 39.545 220 104 6 46 245 57 267 1.55e-38 135
MS.gene067910.t1 MTR_7g010300 39.024 205 109 6 47 245 88 282 1.85e-37 134
MS.gene067910.t1 MTR_6g012280 41.089 202 108 5 47 245 91 284 1.87e-36 131
MS.gene067910.t1 MTR_8g069380 58.763 97 31 3 153 245 23 114 5.63e-29 106
MS.gene067910.t1 MTR_8g442330 40.000 170 53 4 56 220 14 139 1.07e-28 106
MS.gene067910.t1 MTR_8g051480 58.763 97 31 5 154 245 36 128 3.42e-26 99.4
MS.gene067910.t1 MTR_3g039810 62.745 51 19 0 46 96 19 69 1.00e-17 75.9
MS.gene067910.t1 MTR_8g467340 57.143 56 24 0 184 239 272 327 4.43e-16 77.0
MS.gene067910.t1 MTR_8g467340 63.462 52 17 1 47 96 64 115 1.73e-15 75.5
MS.gene067910.t1 MTR_6g012220 58.000 50 17 1 46 95 20 65 2.03e-14 67.0
MS.gene067910.t1 MTR_6g073013 45.902 61 32 1 182 241 100 160 1.32e-13 67.4
MS.gene067910.t1 MTR_6g073013 40.909 66 38 1 47 111 19 84 1.98e-13 67.0
MS.gene067910.t1 MTR_8g032100 61.364 44 17 0 190 233 125 168 4.99e-12 62.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene067910.t1 AT4G24660 41.000 200 90 3 46 245 48 219 6.18e-47 155
MS.gene067910.t1 AT2G02540 39.614 207 110 4 46 245 86 284 2.18e-46 157
MS.gene067910.t1 AT2G02540 39.614 207 110 4 46 245 86 284 2.18e-46 157
MS.gene067910.t1 AT4G24660 40.609 197 89 3 46 242 48 216 1.48e-45 152
MS.gene067910.t1 AT5G65410 41.709 199 96 4 46 244 74 252 1.02e-43 149
MS.gene067910.t1 AT1G14440 38.462 208 92 5 46 239 89 274 1.68e-39 139
MS.gene067910.t1 AT1G14440 38.462 208 92 5 46 239 89 274 1.68e-39 139
MS.gene067910.t1 AT1G69600 39.706 204 100 6 47 244 31 217 1.77e-38 134
MS.gene067910.t1 AT2G18350 38.350 206 99 7 44 245 79 260 6.95e-37 130
MS.gene067910.t1 AT5G15210 37.073 205 92 5 47 239 56 235 3.61e-35 126
MS.gene067910.t1 AT3G50890 33.810 210 100 6 45 242 58 240 1.38e-30 114
MS.gene067910.t1 AT3G28920 35.945 217 101 7 47 242 52 251 4.82e-30 114
MS.gene067910.t1 AT5G60480 35.204 196 97 5 47 240 37 204 2.01e-27 105
MS.gene067910.t1 AT5G42780 32.035 231 127 5 17 242 33 238 1.57e-25 100
MS.gene067910.t1 AT1G74660 64.706 51 18 0 46 96 38 88 9.48e-22 86.7
MS.gene067910.t1 AT1G74660 64.706 51 18 0 46 96 38 88 1.53e-21 86.3
MS.gene067910.t1 AT1G75240 61.290 62 23 1 46 106 75 136 1.10e-20 89.4
MS.gene067910.t1 AT1G75240 61.667 60 23 0 180 239 237 296 2.26e-18 82.8
MS.gene067910.t1 AT3G28917 50.000 68 29 2 46 112 32 95 3.39e-17 75.1
MS.gene067910.t1 AT1G18835 58.824 51 18 1 46 96 25 72 1.70e-15 70.1
MS.gene067910.t1 AT5G39760 50.000 62 31 0 184 245 201 262 2.22e-15 74.7

Find 55 sgRNAs with CRISPR-Local

Find 73 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATTGCTTTGAGAATTCATT+AGG 0.287056 8.3:-33916527 None:intergenic
GGGAGTCGGCTGAGGGAAAC+GGG 0.315201 8.3:-33916760 None:intergenic
CACTTTCCAAGGGGTGATCT+TGG 0.335585 8.3:+33916885 MS.gene067910:CDS
TTTCTCTCCGATGAAAATTT+CGG 0.335714 8.3:-33916692 None:intergenic
AGCATGTGACTGGGACTTCT+AGG 0.339165 8.3:+33916817 MS.gene067910:CDS
ATTGTTTCAACGTAACTTGA+TGG 0.353585 8.3:-33916474 None:intergenic
AGGGAGTCGGCTGAGGGAAA+CGG 0.388732 8.3:-33916761 None:intergenic
ATTGCTTTGAGAATTCATTA+GGG 0.418731 8.3:-33916526 None:intergenic
ACCGGTTACCAGCATGTGAC+TGG 0.421058 8.3:+33916807 MS.gene067910:CDS
CCCAGTCACATGCTGGTAAC+CGG 0.435647 8.3:-33916808 None:intergenic
ATAGGAGGCTACGCTCTTGA+TGG 0.448254 8.3:+33916597 MS.gene067910:CDS
TAAGTATCACCATGATAGAT+TGG 0.451827 8.3:-33916924 None:intergenic
GTCGAGAAGGGAGTCGGCTG+AGG 0.453909 8.3:-33916768 None:intergenic
GGAGTCGGCTGAGGGAAACG+GGG 0.458116 8.3:-33916759 None:intergenic
TATCAAAAGGAAAGGATGCT+TGG 0.463362 8.3:+33917002 MS.gene067910:CDS
AACAAAAGAAAATGAGGAAG+AGG 0.465957 8.3:+33916431 MS.gene067910:CDS
TTCTTCATCATGATGATTCG+AGG 0.479199 8.3:-33916502 None:intergenic
CAAGTTCACTCATTATCAAA+AGG 0.480127 8.3:+33916989 MS.gene067910:CDS
ATGATGAGGCCCACTTTCCA+AGG 0.481132 8.3:+33916874 MS.gene067910:CDS
TATCATGGTGATACTTATAG+TGG 0.482130 8.3:+33916930 MS.gene067910:CDS
TTCTTCAGTTGTTCATGATG+AGG 0.486893 8.3:+33916860 MS.gene067910:CDS
AAGAGCGTAGCCTCCTATGC+TGG 0.488679 8.3:-33916592 None:intergenic
TTTCTAGTGCTTATTTCCAA+GGG 0.501479 8.3:-33917147 None:intergenic
AGAAAATGAGGAAGAGGTAG+TGG 0.505260 8.3:+33916437 MS.gene067910:CDS
GCATGTGACTGGGACTTCTA+GGG 0.505358 8.3:+33916818 MS.gene067910:CDS
GGCTACGCTCTTGATGGTTG+TGG 0.507873 8.3:+33916603 MS.gene067910:CDS
CAAGATCACCCCTTGGAAAG+TGG 0.509725 8.3:-33916884 None:intergenic
AAGAATCACGCTTCCAGCAT+AGG 0.521291 8.3:+33916579 MS.gene067910:CDS
TATAACAACAAACACACCCT+TGG 0.522734 8.3:+33917131 MS.gene067910:CDS
TCATCATGAACAACTGAAGA+AGG 0.530900 8.3:-33916858 None:intergenic
AATGGAAACAAAAGAAAATG+AGG 0.533398 8.3:+33916425 None:intergenic
AAGATCACCCCTTGGAAAGT+GGG 0.533623 8.3:-33916883 None:intergenic
GAGTCGGCTGAGGGAAACGG+GGG 0.542032 8.3:-33916758 None:intergenic
CCAAGGGGTGATCTTGGAGA+AGG 0.555872 8.3:+33916891 MS.gene067910:CDS
GATACTTATAGTGGTGGAGA+AGG 0.556865 8.3:+33916939 MS.gene067910:CDS
TGATGAGGCCCACTTTCCAA+GGG 0.559791 8.3:+33916875 MS.gene067910:CDS
TAGAAGTCCCAGTCACATGC+TGG 0.560832 8.3:-33916815 None:intergenic
TCACTCATTATCAAAAGGAA+AGG 0.573122 8.3:+33916994 MS.gene067910:CDS
TCTCAAAGCAATAACTTCGA+AGG 0.575954 8.3:+33916537 MS.gene067910:CDS
CCGGTTACCAGCATGTGACT+GGG 0.576238 8.3:+33916808 MS.gene067910:CDS
AATCACGCTTCCAGCATAGG+AGG 0.581118 8.3:+33916582 MS.gene067910:CDS
TCGAGAAGGGAGTCGGCTGA+GGG 0.581880 8.3:-33916767 None:intergenic
ATGGTTCCTTCAATTCCAGC+GGG 0.587215 8.3:-33916636 None:intergenic
CATGGTGATACTTATAGTGG+TGG 0.595025 8.3:+33916933 MS.gene067910:CDS
GTTGTTGAGCCAATCTATCA+TGG 0.597526 8.3:+33916915 MS.gene067910:CDS
TCAGCCGACTCCCTTCTCGA+CGG 0.603425 8.3:+33916770 MS.gene067910:CDS
CCTTCTCCAAGATCACCCCT+TGG 0.609902 8.3:-33916891 None:intergenic
AAAACCGTCGAGAAGGGAGT+CGG 0.612389 8.3:-33916774 None:intergenic
CATGTGACTGGGACTTCTAG+GGG 0.623678 8.3:+33916819 MS.gene067910:CDS
ATACTTATAGTGGTGGAGAA+GGG 0.640736 8.3:+33916940 MS.gene067910:CDS
GTCACATGCTGGTAACCGGT+CGG 0.647933 8.3:-33916804 None:intergenic
GATGGTTCCTTCAATTCCAG+CGG 0.666037 8.3:-33916637 None:intergenic
AAGGGTCGTCAAAATCAAAG+AGG 0.684157 8.3:+33916958 MS.gene067910:CDS
ATGTGACTGGGACTTCTAGG+GGG 0.700324 8.3:+33916820 MS.gene067910:CDS
GATGAGGCCCACTTTCCAAG+GGG 0.725349 8.3:+33916876 MS.gene067910:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TGTAAAGTGTAAAACTTTTA+GGG + chr8.3:33917100-33917119 MS.gene067910:CDS 20.0%
!! GAACAATTTTGTAATGAGAT+TGG + chr8.3:33917077-33917096 MS.gene067910:CDS 25.0%
!! GTGTAAAGTGTAAAACTTTT+AGG + chr8.3:33917099-33917118 MS.gene067910:CDS 25.0%
!!! ATTGCTTTGAGAATTCATTA+GGG - chr8.3:33916529-33916548 None:intergenic 25.0%
!!! TATTGCTTTGAGAATTCATT+AGG - chr8.3:33916530-33916549 None:intergenic 25.0%
AACAAAAGAAAATGAGGAAG+AGG + chr8.3:33916431-33916450 MS.gene067910:CDS 30.0%
AGCACATTTGAAAAATTCGA+TGG - chr8.3:33916658-33916677 None:intergenic 30.0%
ATTGTTTCAACGTAACTTGA+TGG - chr8.3:33916477-33916496 None:intergenic 30.0%
CAAGTTCACTCATTATCAAA+AGG + chr8.3:33916989-33917008 MS.gene067910:CDS 30.0%
TAAGTATCACCATGATAGAT+TGG - chr8.3:33916927-33916946 None:intergenic 30.0%
TATCATGGTGATACTTATAG+TGG + chr8.3:33916930-33916949 MS.gene067910:CDS 30.0%
TCACTCATTATCAAAAGGAA+AGG + chr8.3:33916994-33917013 MS.gene067910:CDS 30.0%
TTTCTCTCCGATGAAAATTT+CGG - chr8.3:33916695-33916714 None:intergenic 30.0%
! AATTTTCATCGGAGAGAAAA+TGG + chr8.3:33916696-33916715 MS.gene067910:CDS 30.0%
! ACTACATTTTCATCTTGCTT+AGG - chr8.3:33917056-33917075 None:intergenic 30.0%
!!! CTTTTGATAATGAGTGAACT+TGG - chr8.3:33916991-33917010 None:intergenic 30.0%
TATAACAACAAACACACCCT+TGG + chr8.3:33917131-33917150 MS.gene067910:CDS 35.0%
TATCAAAAGGAAAGGATGCT+TGG + chr8.3:33917002-33917021 MS.gene067910:CDS 35.0%
TCATCATGAACAACTGAAGA+AGG - chr8.3:33916861-33916880 None:intergenic 35.0%
TCTCAAAGCAATAACTTCGA+AGG + chr8.3:33916537-33916556 MS.gene067910:CDS 35.0%
TTCTTCAGTTGTTCATGATG+AGG + chr8.3:33916860-33916879 MS.gene067910:CDS 35.0%
TTCTTCATCATGATGATTCG+AGG - chr8.3:33916505-33916524 None:intergenic 35.0%
! ACTGTCACCGAAATTTTCAT+CGG + chr8.3:33916685-33916704 MS.gene067910:CDS 35.0%
! ATACTTATAGTGGTGGAGAA+GGG + chr8.3:33916940-33916959 MS.gene067910:CDS 35.0%
!!! AGTGTAAAACTTTTAGGGTG+TGG + chr8.3:33917105-33917124 MS.gene067910:CDS 35.0%
!!! CTTGGTTTTGCTATGAAATC+GGG + chr8.3:33917020-33917039 MS.gene067910:CDS 35.0%
!!! GCTTGGTTTTGCTATGAAAT+CGG + chr8.3:33917019-33917038 MS.gene067910:CDS 35.0%
AAGGGTCGTCAAAATCAAAG+AGG + chr8.3:33916958-33916977 MS.gene067910:CDS 40.0%
AGAAAATGAGGAAGAGGTAG+TGG + chr8.3:33916437-33916456 MS.gene067910:CDS 40.0%
AGTTTGAAAAACCGTCGAGA+AGG - chr8.3:33916784-33916803 None:intergenic 40.0%
CATGGTGATACTTATAGTGG+TGG + chr8.3:33916933-33916952 MS.gene067910:CDS 40.0%
GTTGTTGAGCCAATCTATCA+TGG + chr8.3:33916915-33916934 MS.gene067910:CDS 40.0%
GTTTGAAAAACCGTCGAGAA+GGG - chr8.3:33916783-33916802 None:intergenic 40.0%
! GATACTTATAGTGGTGGAGA+AGG + chr8.3:33916939-33916958 MS.gene067910:CDS 40.0%
! TTTTTACCCGCTGGAATTGA+AGG + chr8.3:33916630-33916649 MS.gene067910:CDS 40.0%
!! GTTTTGCTATGAAATCGGGT+TGG + chr8.3:33917024-33917043 MS.gene067910:CDS 40.0%
AACGGGGGTTGTTAAAAGGA+AGG - chr8.3:33916746-33916765 None:intergenic 45.0%
AAGAATCACGCTTCCAGCAT+AGG + chr8.3:33916579-33916598 MS.gene067910:CDS 45.0%
AAGATCACCCCTTGGAAAGT+GGG - chr8.3:33916886-33916905 None:intergenic 45.0%
ACGGGGGTTGTTAAAAGGAA+GGG - chr8.3:33916745-33916764 None:intergenic 45.0%
ATGGTTCCTTCAATTCCAGC+GGG - chr8.3:33916639-33916658 None:intergenic 45.0%
GATGGTTCCTTCAATTCCAG+CGG - chr8.3:33916640-33916659 None:intergenic 45.0%
!! ACGGTTTTTCAAACTCCGAC+CGG + chr8.3:33916789-33916808 MS.gene067910:CDS 45.0%
AAAACCGTCGAGAAGGGAGT+CGG - chr8.3:33916777-33916796 None:intergenic 50.0%
AATCACGCTTCCAGCATAGG+AGG + chr8.3:33916582-33916601 MS.gene067910:CDS 50.0%
AGCATGTGACTGGGACTTCT+AGG + chr8.3:33916817-33916836 MS.gene067910:CDS 50.0%
ATAGGAGGCTACGCTCTTGA+TGG + chr8.3:33916597-33916616 MS.gene067910:CDS 50.0%
ATGATGAGGCCCACTTTCCA+AGG + chr8.3:33916874-33916893 MS.gene067910:CDS 50.0%
ATGTGACTGGGACTTCTAGG+GGG + chr8.3:33916820-33916839 MS.gene067910:CDS 50.0%
CAAGATCACCCCTTGGAAAG+TGG - chr8.3:33916887-33916906 None:intergenic 50.0%
CACTTTCCAAGGGGTGATCT+TGG + chr8.3:33916885-33916904 MS.gene067910:CDS 50.0%
CATGTGACTGGGACTTCTAG+GGG + chr8.3:33916819-33916838 MS.gene067910:CDS 50.0%
GCATGTGACTGGGACTTCTA+GGG + chr8.3:33916818-33916837 MS.gene067910:CDS 50.0%
GGGAAACGGGGGTTGTTAAA+AGG - chr8.3:33916750-33916769 None:intergenic 50.0%
TAGAAGTCCCAGTCACATGC+TGG - chr8.3:33916818-33916837 None:intergenic 50.0%
TGATGAGGCCCACTTTCCAA+GGG + chr8.3:33916875-33916894 MS.gene067910:CDS 50.0%
ACCGGTTACCAGCATGTGAC+TGG + chr8.3:33916807-33916826 MS.gene067910:CDS 55.0%
CCAAGGGGTGATCTTGGAGA+AGG + chr8.3:33916891-33916910 MS.gene067910:CDS 55.0%
CCCAGTCACATGCTGGTAAC+CGG - chr8.3:33916811-33916830 None:intergenic 55.0%
CCGGTTACCAGCATGTGACT+GGG + chr8.3:33916808-33916827 MS.gene067910:CDS 55.0%
CCTTCTCCAAGATCACCCCT+TGG - chr8.3:33916894-33916913 None:intergenic 55.0%
GATGAGGCCCACTTTCCAAG+GGG + chr8.3:33916876-33916895 MS.gene067910:CDS 55.0%
GTCACATGCTGGTAACCGGT+CGG - chr8.3:33916807-33916826 None:intergenic 55.0%
! AAGAGCGTAGCCTCCTATGC+TGG - chr8.3:33916595-33916614 None:intergenic 55.0%
! GGCTACGCTCTTGATGGTTG+TGG + chr8.3:33916603-33916622 MS.gene067910:CDS 55.0%
! TGTGGCGAGTTTTTACCCGC+TGG + chr8.3:33916621-33916640 MS.gene067910:CDS 55.0%
AGGGAGTCGGCTGAGGGAAA+CGG - chr8.3:33916764-33916783 None:intergenic 60.0%
TCGAGAAGGGAGTCGGCTGA+GGG - chr8.3:33916770-33916789 None:intergenic 60.0%
! TCAGCCGACTCCCTTCTCGA+CGG + chr8.3:33916770-33916789 MS.gene067910:CDS 60.0%
GAGTCGGCTGAGGGAAACGG+GGG - chr8.3:33916761-33916780 None:intergenic 65.0%
GGAGTCGGCTGAGGGAAACG+GGG - chr8.3:33916762-33916781 None:intergenic 65.0%
GGGAGTCGGCTGAGGGAAAC+GGG - chr8.3:33916763-33916782 None:intergenic 65.0%
GTCGAGAAGGGAGTCGGCTG+AGG - chr8.3:33916771-33916790 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 33916426 33917166 33916426 ID=MS.gene067910
chr8.3 mRNA 33916426 33917166 33916426 ID=MS.gene067910.t1;Parent=MS.gene067910
chr8.3 exon 33916426 33917166 33916426 ID=MS.gene067910.t1.exon1;Parent=MS.gene067910.t1
chr8.3 CDS 33916426 33917166 33916426 ID=cds.MS.gene067910.t1;Parent=MS.gene067910.t1
Gene Sequence

>MS.gene067910

ATGGAAACAAAAGAAAATGAGGAAGAGGTAGTGGCTAATATTACTGAACCATCAAGTTACGTTGAAACAATTCAAACCTCGAATCATCATGATGAAGAAACCCTAATGAATTCTCAAAGCAATAACTTCGAAGGAAAGTTCAAAGAGTGTAGAAAGAATCACGCTTCCAGCATAGGAGGCTACGCTCTTGATGGTTGTGGCGAGTTTTTACCCGCTGGAATTGAAGGAACCATCGAATTTTTCAAATGTGCTGCGTGTAACTGTCACCGAAATTTTCATCGGAGAGAAAATGGTGTTGTTAATGAAGAGAATATTTCCCTTCCTTTTAACAACCCCCGTTTCCCTCAGCCGACTCCCTTCTCGACGGTTTTTCAAACTCCGACCGGTTACCAGCATGTGACTGGGACTTCTAGGGGGACAGCTACTTCTATTCCTTCTTCAGTTGTTCATGATGAGGCCCACTTTCCAAGGGGTGATCTTGGAGAAGGTGTTGTTGAGCCAATCTATCATGGTGATACTTATAGTGGTGGAGAAGGGTCGTCAAAATCAAAGAGGTTCAGATCCAAGTTCACTCATTATCAAAAGGAAAGGATGCTTGGTTTTGCTATGAAATCGGGTTGGAAGATTCCTAAGCAAGATGAAAATGTAGTTGAACAATTTTGTAATGAGATTGGTGTAAAGTGTAAAACTTTTAGGGTGTGGATGTATAACAACAAACACACCCTTGGAAATAAGCACTAG
Protein sequence

>MS.gene067910.t1

METKENEEEVVANITEPSSYVETIQTSNHHDEETLMNSQSNNFEGKFKECRKNHASSIGGYALDGCGEFLPAGIEGTIEFFKCAACNCHRNFHRRENGVVNEENISLPFNNPRFPQPTPFSTVFQTPTGYQHVTGTSRGTATSIPSSVVHDEAHFPRGDLGEGVVEPIYHGDTYSGGEGSSKSKRFRSKFTHYQKERMLGFAMKSGWKIPKQDENVVEQFCNEIGVKCKTFRVWMYNNKHTLGNKH