AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene047789

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047789.t1 MTR_5g020510 94.000 300 14 3 1 299 1 297 0.0 530
MS.gene047789.t1 MTR_4g134580 41.949 236 100 6 101 299 113 348 2.62e-52 176
MS.gene047789.t1 MTR_1g077020 41.089 202 94 4 101 299 9 188 1.15e-49 164
MS.gene047789.t1 MTR_5g032600 41.232 211 93 4 101 297 78 271 1.23e-46 159
MS.gene047789.t1 MTR_3g100650 40.367 218 105 4 91 297 70 273 1.81e-45 155
MS.gene047789.t1 MTR_7g010300 39.623 212 102 7 99 298 86 283 4.45e-44 154
MS.gene047789.t1 MTR_5g065440 39.623 212 111 5 101 297 58 267 1.94e-41 145
MS.gene047789.t1 MTR_2g076780 34.940 249 130 6 65 297 4 236 2.01e-40 141
MS.gene047789.t1 MTR_8g069080 38.164 207 98 5 101 291 69 261 4.91e-39 139
MS.gene047789.t1 MTR_6g012280 38.208 212 106 5 101 301 91 288 4.97e-39 140
MS.gene047789.t1 MTR_8g467340 61.404 57 22 0 235 291 271 327 4.73e-19 87.4
MS.gene047789.t1 MTR_8g467340 52.113 71 25 2 94 162 57 120 5.13e-18 84.3
MS.gene047789.t1 MTR_8g442330 28.834 163 79 3 110 272 14 139 7.65e-19 81.6
MS.gene047789.t1 MTR_3g039810 53.846 65 30 0 90 154 9 73 1.23e-18 79.7
MS.gene047789.t1 MTR_6g073013 55.000 60 26 1 235 293 101 160 1.99e-18 81.6
MS.gene047789.t1 MTR_6g073013 62.000 50 18 1 101 149 19 68 4.89e-15 72.4
MS.gene047789.t1 MTR_8g051480 48.387 62 31 1 236 297 68 128 2.23e-15 72.0
MS.gene047789.t1 MTR_8g069380 46.032 63 34 0 235 297 52 114 6.34e-15 70.5
MS.gene047789.t1 MTR_6g012220 57.143 49 17 1 101 149 21 65 1.11e-12 63.2
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene047789.t1 AT2G18350 47.845 232 86 8 77 299 57 262 1.63e-58 189
MS.gene047789.t1 AT2G02540 39.189 222 90 6 99 297 85 284 1.36e-48 165
MS.gene047789.t1 AT2G02540 39.189 222 90 6 99 297 85 284 1.36e-48 165
MS.gene047789.t1 AT3G50890 37.008 254 135 6 45 296 12 242 1.27e-47 160
MS.gene047789.t1 AT4G24660 41.262 206 93 6 97 301 45 223 3.19e-47 159
MS.gene047789.t1 AT4G24660 42.079 202 89 6 97 297 45 219 7.07e-47 158
MS.gene047789.t1 AT1G69600 36.797 231 131 5 82 310 12 229 1.92e-45 155
MS.gene047789.t1 AT1G14440 40.385 208 100 5 99 297 88 280 7.32e-45 155
MS.gene047789.t1 AT1G14440 40.385 208 100 5 99 297 88 280 7.32e-45 155
MS.gene047789.t1 AT5G65410 37.619 210 105 4 91 296 65 252 7.55e-42 146
MS.gene047789.t1 AT3G28920 37.864 206 118 3 98 295 49 252 1.72e-41 146
MS.gene047789.t1 AT5G15210 34.818 247 124 6 69 291 2 235 2.26e-38 137
MS.gene047789.t1 AT5G60480 35.981 214 95 6 87 291 23 203 4.66e-36 130
MS.gene047789.t1 AT5G42780 30.612 196 113 5 101 294 64 238 8.02e-27 106
MS.gene047789.t1 AT1G75240 76.471 51 12 0 101 151 76 126 6.69e-23 97.1
MS.gene047789.t1 AT5G39760 55.385 65 29 0 235 299 200 264 3.63e-20 89.7
MS.gene047789.t1 AT1G14687 27.692 195 102 6 101 292 7 165 5.18e-19 83.2
MS.gene047789.t1 AT1G74660 53.448 58 27 0 97 154 35 92 1.25e-18 80.1
MS.gene047789.t1 AT1G74660 53.448 58 27 0 97 154 35 92 1.59e-17 77.0
MS.gene047789.t1 AT3G28917 54.098 61 27 1 95 154 27 87 1.45e-16 74.3
MS.gene047789.t1 AT1G18835 51.852 54 23 1 101 154 26 76 1.93e-13 65.5

Find 58 sgRNAs with CRISPR-Local

Find 72 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAGATGTCACAAACAACTTT+AGG 0.291725 5.1:+11880950 MS.gene047789:CDS
TTGTTGCTATGATGATAATT+AGG 0.318608 5.1:-11881436 None:intergenic
CCGTCCATGATGATGACTTT+TGG 0.355768 5.1:+11881535 MS.gene047789:CDS
AGAGTTTCACAACCTAGTTC+TGG 0.368324 5.1:+11881502 MS.gene047789:CDS
AAGATGGTGTTGGAAGATTA+AGG 0.378783 5.1:-11881468 None:intergenic
GTTGTTGCAGCCGTTAGATC+TGG 0.406325 5.1:-11881142 None:intergenic
CTTACCCTCTTCTTCAAAAC+CGG 0.408989 5.1:-11881634 None:intergenic
GCTTAAAAGTGGATAATTGC+AGG 0.412519 5.1:+11881916 MS.gene047789:CDS
TAGTAGTAGTAGTATGGTTA+GGG 0.429477 5.1:-11881063 None:intergenic
CGGTTGCTGCGGCGTCTGTA+TGG 0.433418 5.1:-11881614 None:intergenic
ATGGAGTTTGCTGAAAAGAT+TGG 0.437625 5.1:+11881691 MS.gene047789:CDS
CATACAGACGCCGCAGCAAC+CGG 0.441402 5.1:+11881615 MS.gene047789:CDS
GAGGAATACTATGTTGTTGT+TGG 0.445811 5.1:-11881393 None:intergenic
AGTGAAGATCTCAACATGTT+TGG 0.446843 5.1:+11881580 MS.gene047789:CDS
ATGGGAAGCCACGTGGTAGA+TGG 0.447420 5.1:+11881274 MS.gene047789:CDS
GTTGATGATGTTATTTGTTG+TGG 0.461191 5.1:-11881202 None:intergenic
GATGTTATTTGTTGTGGCTG+AGG 0.462310 5.1:-11881196 None:intergenic
CGTGGTTTCTCAGACATTCT+CGG 0.464493 5.1:-11881243 None:intergenic
TCAAGTTGGTATCAAGAGAC+AGG 0.468371 5.1:+11881762 MS.gene047789:CDS
GGGGTACCTTCTTCACCGCT+TGG 0.472411 5.1:-11881313 None:intergenic
ACTTGAGGTGGTGGTGGAGT+TGG 0.474110 5.1:-11881001 None:intergenic
GAGAAACCACGCGGCAAGCA+TGG 0.475746 5.1:+11881255 MS.gene047789:CDS
CAGCACATTTGAAATATTGT+GGG 0.475954 5.1:-11881333 None:intergenic
GCAGCACATTTGAAATATTG+TGG 0.476946 5.1:-11881334 None:intergenic
TCTTCACTTGATGATTCAGC+TGG 0.479858 5.1:-11881565 None:intergenic
GTGTGAACTTGAGGTGGTGG+TGG 0.490980 5.1:-11881007 None:intergenic
TTCACAACCTAGTTCTGGAC+AGG 0.499932 5.1:+11881507 MS.gene047789:CDS
ATGACAGGTCTTTGAGAAGA+AGG 0.512659 5.1:-11881115 None:intergenic
TTCATGCCAAGCGGTGAAGA+AGG 0.514566 5.1:+11881307 MS.gene047789:CDS
TGGAGTTTGCTGAAAAGATT+GGG 0.549528 5.1:+11881692 MS.gene047789:CDS
AGAAACCACGCGGCAAGCAT+GGG 0.549901 5.1:+11881256 MS.gene047789:CDS
GGTGGAACCTGTCCAGAACT+AGG 0.552234 5.1:-11881514 None:intergenic
GAAGGTGCATGATGTGGTGG+TGG 0.553984 5.1:-11881097 None:intergenic
ATACACTTGGTGCTTAAAAG+TGG 0.558616 5.1:+11881905 MS.gene047789:CDS
GTTAGATCTGGATCTATGAC+AGG 0.562020 5.1:-11881130 None:intergenic
AGGCGAAACTCGCATACACT+TGG 0.566495 5.1:+11881892 MS.gene047789:CDS
TGAGATGAAGAAGATGGTGT+TGG 0.575563 5.1:-11881478 None:intergenic
TGATCCAAAAGTCATCATCA+TGG 0.575663 5.1:-11881539 None:intergenic
TTCTTCAAAACCGGTTGCTG+CGG 0.576173 5.1:-11881625 None:intergenic
AATGTGTGAACTTGAGGTGG+TGG 0.602598 5.1:-11881010 None:intergenic
TGTCATAGATCCAGATCTAA+CGG 0.606727 5.1:+11881132 MS.gene047789:CDS
AAGACTAATGTGTGAACTTG+AGG 0.616691 5.1:-11881016 None:intergenic
CCAAAAGTCATCATCATGGA+CGG 0.622115 5.1:-11881535 None:intergenic
AGCCACGTGGTAGATGGATG+TGG 0.625991 5.1:+11881280 MS.gene047789:CDS
ACTCTTTGAGATGAAGAAGA+TGG 0.637378 5.1:-11881484 None:intergenic
GGCTTCCCATGCTTGCCGCG+TGG 0.643184 5.1:-11881261 None:intergenic
GAAGAAGGTGCATGATGTGG+TGG 0.651537 5.1:-11881100 None:intergenic
AGCACATTTGAAATATTGTG+GGG 0.654466 5.1:-11881332 None:intergenic
ACATGCTGAACATGTTGTTG+AGG 0.672696 5.1:-11881412 None:intergenic
AGTTTGCTGAAAAGATTGGG+TGG 0.678186 5.1:+11881695 MS.gene047789:CDS
AAAGTCATCATCATGGACGG+TGG 0.680716 5.1:-11881532 None:intergenic
TGAGAAGAAGGTGCATGATG+TGG 0.685772 5.1:-11881103 None:intergenic
GGCAAGCATGGGAAGCCACG+TGG 0.697743 5.1:+11881267 MS.gene047789:CDS
ACTAATGTGTGAACTTGAGG+TGG 0.703165 5.1:-11881013 None:intergenic
CACCACATCCATCTACCACG+TGG 0.722647 5.1:-11881282 None:intergenic
TATCATCATAGCAACAACAA+CGG 0.730770 5.1:+11881442 MS.gene047789:CDS
TGTGGTGAATTCATGCCAAG+CGG 0.769326 5.1:+11881298 MS.gene047789:CDS
AGAATGTCTGAGAAACCACG+CGG 0.882510 5.1:+11881246 MS.gene047789:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTTTTTCAAAAAAGCTTAG+AGG + chr5.1:11881872-11881891 MS.gene047789:intron 20.0%
! TTGTTGCTATGATGATAATT+AGG - chr5.1:11881439-11881458 None:intergenic 25.0%
!! TATGTTTTCGATGGAAATTA+CGG - chr5.1:11881372-11881391 None:intergenic 25.0%
AAGATGTCACAAACAACTTT+AGG + chr5.1:11880950-11880969 MS.gene047789:CDS 30.0%
GATTAGTAGTAGTAGTAGTA+TGG - chr5.1:11881072-11881091 None:intergenic 30.0%
TAGTAGTAGTAGTATGGTTA+GGG - chr5.1:11881066-11881085 None:intergenic 30.0%
TATCATCATAGCAACAACAA+CGG + chr5.1:11881442-11881461 MS.gene047789:CDS 30.0%
! AGCACATTTGAAATATTGTG+GGG - chr5.1:11881335-11881354 None:intergenic 30.0%
! CAGCACATTTGAAATATTGT+GGG - chr5.1:11881336-11881355 None:intergenic 30.0%
!! GTTGATGATGTTATTTGTTG+TGG - chr5.1:11881205-11881224 None:intergenic 30.0%
AAGACTAATGTGTGAACTTG+AGG - chr5.1:11881019-11881038 None:intergenic 35.0%
AGTGAAGATCTCAACATGTT+TGG + chr5.1:11881580-11881599 MS.gene047789:CDS 35.0%
GAGGAATACTATGTTGTTGT+TGG - chr5.1:11881396-11881415 None:intergenic 35.0%
GCAACAAAAAGATAGGATGA+TGG + chr5.1:11881672-11881691 MS.gene047789:CDS 35.0%
GCTTAAAAGTGGATAATTGC+AGG + chr5.1:11881916-11881935 MS.gene047789:CDS 35.0%
GTAGTAGTAGTAGTATGGTT+AGG - chr5.1:11881067-11881086 None:intergenic 35.0%
TCTCACAGCAACAAAAAGAT+AGG + chr5.1:11881665-11881684 MS.gene047789:CDS 35.0%
TGATCCAAAAGTCATCATCA+TGG - chr5.1:11881542-11881561 None:intergenic 35.0%
TGTCATAGATCCAGATCTAA+CGG + chr5.1:11881132-11881151 MS.gene047789:CDS 35.0%
! AAGATGGTGTTGGAAGATTA+AGG - chr5.1:11881471-11881490 None:intergenic 35.0%
! GCAGCACATTTGAAATATTG+TGG - chr5.1:11881337-11881356 None:intergenic 35.0%
! GTTGTTGGATATGTTTTCGA+TGG - chr5.1:11881381-11881400 None:intergenic 35.0%
!! ACTCTTTGAGATGAAGAAGA+TGG - chr5.1:11881487-11881506 None:intergenic 35.0%
!! ATACACTTGGTGCTTAAAAG+TGG + chr5.1:11881905-11881924 MS.gene047789:CDS 35.0%
!! ATGGAGTTTGCTGAAAAGAT+TGG + chr5.1:11881691-11881710 MS.gene047789:CDS 35.0%
!! TGGAGTTTGCTGAAAAGATT+GGG + chr5.1:11881692-11881711 MS.gene047789:CDS 35.0%
!!! CAACAGTTTTGTTCTCAAGT+TGG + chr5.1:11881748-11881767 MS.gene047789:CDS 35.0%
ACATGCTGAACATGTTGTTG+AGG - chr5.1:11881415-11881434 None:intergenic 40.0%
ACTAATGTGTGAACTTGAGG+TGG - chr5.1:11881016-11881035 None:intergenic 40.0%
AGAGTTTCACAACCTAGTTC+TGG + chr5.1:11881502-11881521 MS.gene047789:CDS 40.0%
CCAAAAGTCATCATCATGGA+CGG - chr5.1:11881538-11881557 None:intergenic 40.0%
CTTACCCTCTTCTTCAAAAC+CGG - chr5.1:11881637-11881656 None:intergenic 40.0%
GTTAGATCTGGATCTATGAC+AGG - chr5.1:11881133-11881152 None:intergenic 40.0%
TGAGATGAAGAAGATGGTGT+TGG - chr5.1:11881481-11881500 None:intergenic 40.0%
! ATGACAGGTCTTTGAGAAGA+AGG - chr5.1:11881118-11881137 None:intergenic 40.0%
! TCTTCACTTGATGATTCAGC+TGG - chr5.1:11881568-11881587 None:intergenic 40.0%
! TGGTTAGGGTGTGAATTTTG+AGG - chr5.1:11881052-11881071 None:intergenic 40.0%
!! AGTTTGCTGAAAAGATTGGG+TGG + chr5.1:11881695-11881714 MS.gene047789:CDS 40.0%
!! GATGTTATTTGTTGTGGCTG+AGG - chr5.1:11881199-11881218 None:intergenic 40.0%
!! TCAAGTTGGTATCAAGAGAC+AGG + chr5.1:11881762-11881781 MS.gene047789:CDS 40.0%
!! TTAGGGTGTGAATTTTGAGG+TGG - chr5.1:11881049-11881068 None:intergenic 40.0%
!!! TAGGGTGTGAATTTTGAGGT+GGG - chr5.1:11881048-11881067 None:intergenic 40.0%
AAAGTCATCATCATGGACGG+TGG - chr5.1:11881535-11881554 None:intergenic 45.0%
AATGTGTGAACTTGAGGTGG+TGG - chr5.1:11881013-11881032 None:intergenic 45.0%
AGAATGTCTGAGAAACCACG+CGG + chr5.1:11881246-11881265 MS.gene047789:CDS 45.0%
CGTGGTTTCTCAGACATTCT+CGG - chr5.1:11881246-11881265 None:intergenic 45.0%
TGTGGTGAATTCATGCCAAG+CGG + chr5.1:11881298-11881317 MS.gene047789:CDS 45.0%
TTCTTCAAAACCGGTTGCTG+CGG - chr5.1:11881628-11881647 None:intergenic 45.0%
! TGAGAAGAAGGTGCATGATG+TGG - chr5.1:11881106-11881125 None:intergenic 45.0%
!! CCGTCCATGATGATGACTTT+TGG + chr5.1:11881535-11881554 MS.gene047789:CDS 45.0%
!! TTCACAACCTAGTTCTGGAC+AGG + chr5.1:11881507-11881526 MS.gene047789:CDS 45.0%
!!! AGCAACCGGTTTTGAAGAAG+AGG + chr5.1:11881629-11881648 MS.gene047789:CDS 45.0%
!!! CGGTTTTGAAGAAGAGGGTA+AGG + chr5.1:11881635-11881654 MS.gene047789:CDS 45.0%
!!! GCAACCGGTTTTGAAGAAGA+GGG + chr5.1:11881630-11881649 MS.gene047789:CDS 45.0%
AGGCGAAACTCGCATACACT+TGG + chr5.1:11881892-11881911 MS.gene047789:CDS 50.0%
GTTGTTGCAGCCGTTAGATC+TGG - chr5.1:11881145-11881164 None:intergenic 50.0%
TTCATGCCAAGCGGTGAAGA+AGG + chr5.1:11881307-11881326 MS.gene047789:CDS 50.0%
! GAAGAAGGTGCATGATGTGG+TGG - chr5.1:11881103-11881122 None:intergenic 50.0%
AGAAACCACGCGGCAAGCAT+GGG + chr5.1:11881256-11881275 MS.gene047789:CDS 55.0%
AGCCACGTGGTAGATGGATG+TGG + chr5.1:11881280-11881299 MS.gene047789:CDS 55.0%
ATGGGAAGCCACGTGGTAGA+TGG + chr5.1:11881274-11881293 MS.gene047789:CDS 55.0%
CACCACATCCATCTACCACG+TGG - chr5.1:11881285-11881304 None:intergenic 55.0%
GGTGGAACCTGTCCAGAACT+AGG - chr5.1:11881517-11881536 None:intergenic 55.0%
! GAAGGTGCATGATGTGGTGG+TGG - chr5.1:11881100-11881119 None:intergenic 55.0%
! GTGTGAACTTGAGGTGGTGG+TGG - chr5.1:11881010-11881029 None:intergenic 55.0%
!! ACTTGAGGTGGTGGTGGAGT+TGG - chr5.1:11881004-11881023 None:intergenic 55.0%
CATACAGACGCCGCAGCAAC+CGG + chr5.1:11881615-11881634 MS.gene047789:CDS 60.0%
GAGAAACCACGCGGCAAGCA+TGG + chr5.1:11881255-11881274 MS.gene047789:CDS 60.0%
! GGGGTACCTTCTTCACCGCT+TGG - chr5.1:11881316-11881335 None:intergenic 60.0%
CGGTTGCTGCGGCGTCTGTA+TGG - chr5.1:11881617-11881636 None:intergenic 65.0%
GGCAAGCATGGGAAGCCACG+TGG + chr5.1:11881267-11881286 MS.gene047789:CDS 65.0%
GGCTTCCCATGCTTGCCGCG+TGG - chr5.1:11881264-11881283 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr5.1 gene 11880941 11881956 11880941 ID=MS.gene047789
chr5.1 mRNA 11880941 11881956 11880941 ID=MS.gene047789.t1;Parent=MS.gene047789
chr5.1 exon 11880941 11881836 11880941 ID=MS.gene047789.t1.exon1;Parent=MS.gene047789.t1
chr5.1 CDS 11880941 11881836 11880941 ID=cds.MS.gene047789.t1;Parent=MS.gene047789.t1
chr5.1 exon 11881887 11881956 11881887 ID=MS.gene047789.t1.exon2;Parent=MS.gene047789.t1
chr5.1 CDS 11881887 11881956 11881887 ID=cds.MS.gene047789.t1;Parent=MS.gene047789.t1
Gene Sequence

>MS.gene047789

ATGGAAACAAAGATGTCACAAACAACTTTAGGTTACAATAGAGATTCTTCTTCTTCTTCACCAACTCCACCACCACCTCAAGTTCACACATTAGTCTTCAATAACCCACCTCAAAATTCACACCCTAACCATACTACTACTACTACTAATCTTTATCCACCACCACATCATGCACCTTCTTCTCAAAGACCTGTCATAGATCCAGATCTAACGGCTGCAACAACAACAACAAACACTTCTACAATAACAACACAACCTCAGCCACAACAAATAACATCATCAACAACAACAAAAATATGTTACCGAGAATGTCTGAGAAACCACGCGGCAAGCATGGGAAGCCACGTGGTAGATGGATGTGGTGAATTCATGCCAAGCGGTGAAGAAGGTACCCCACAATATTTCAAATGTGCTGCTTGTGATTGTCACCGTAATTTCCATCGAAAACATATCCAACAACAACATAGTATTCCTCAACAACATGTTCAGCATGTTCCTAATTATCATCATAGCAACAACAACGGTCACCTTAATCTTCCAACACCATCTTCTTCATCTCAAAGAGTTTCACAACCTAGTTCTGGACAGGTTCCACCGTCCATGATGATGACTTTTGGATCAGTTCCAGCTGAATCATCAAGTGAAGATCTCAACATGTTTGGTGCACAATTTTCCATACAGACGCCGCAGCAACCGGTTTTGAAGAAGAGGGTAAGGACGAAATTCTCACAGCAACAAAAAGATAGGATGATGGAGTTTGCTGAAAAGATTGGGTGGAAGATTCAGAAACATGATGAACAAGAAGTGCAACAGTTTTGTTCTCAAGTTGGTATCAAGAGACAGGTTTTTAAAGTTTTTATGCATAATAACAAACAAGCTATGAAGAAACAGCAAATGTAAGCTTAGTTATAATAAACTAATTTCATTATTATTTTTTTCAAAAAAGCTTAGAGGCGAAACTCGCATACACTTGGTGCTTAAAAGTGGATAATTGCAGGTTCAAACTCGCACTCTAG
Protein sequence

>MS.gene047789.t1

METKMSQTTLGYNRDSSSSSPTPPPPQVHTLVFNNPPQNSHPNHTTTTTNLYPPPHHAPSSQRPVIDPDLTAATTTTNTSTITTQPQPQQITSSTTTKICYRECLRNHAASMGSHVVDGCGEFMPSGEEGTPQYFKCAACDCHRNFHRKHIQQQHSIPQQHVQHVPNYHHSNNNGHLNLPTPSSSSQRVSQPSSGQVPPSMMMTFGSVPAESSSEDLNMFGAQFSIQTPQQPVLKKRVRTKFSQQQKDRMMEFAEKIGWKIQKHDEQEVQQFCSQVGIKRQVFKVFMHNNKQAMKKQQILEAKLAYTWCLKVDNCRFKLAL