AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene058667


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058667.t1 MTR_2g026930 70.792 202 47 4 1 192 1 200 3.20e-54 171
MS.gene058667.t1 MTR_2g026920 76.768 198 38 4 1 192 1 196 1.28e-49 159
MS.gene058667.t1 MTR_2g026820 66.667 81 25 2 113 192 538 617 1.65e-28 111
MS.gene058667.t1 MTR_1g012700 47.863 117 55 3 80 191 49 164 8.89e-24 92.4
MS.gene058667.t1 MTR_2g026775 49.383 81 39 1 112 190 679 759 4.37e-23 96.3
MS.gene058667.t1 MTR_1g012690 43.750 112 45 3 82 190 57 153 2.27e-19 80.9
MS.gene058667.t1 MTR_1g012630 48.810 84 38 2 112 190 126 209 9.28e-19 80.5
MS.gene058667.t1 MTR_1g012710 46.429 84 40 2 112 190 67 150 5.00e-18 77.4
MS.gene058667.t1 MTR_4g101330 51.899 79 34 1 117 191 91 169 7.01e-17 74.7
MS.gene058667.t1 MTR_4g101310 50.000 78 35 1 117 190 56 133 2.08e-16 72.4
MS.gene058667.t1 MTR_4g108150 46.753 77 38 1 117 190 46 122 2.38e-16 72.0
MS.gene058667.t1 MTR_2g026760 49.351 77 35 2 117 190 51 126 9.85e-16 70.5
MS.gene058667.t1 MTR_4g101260 36.691 139 60 2 55 190 18 131 1.90e-15 70.1
MS.gene058667.t1 MTR_3g106740 47.436 78 37 2 117 190 52 129 1.71e-14 67.4
MS.gene058667.t1 MTR_4g101280 50.000 78 35 1 117 190 65 142 1.94e-14 67.4
MS.gene058667.t1 MTR_3g106750 52.830 53 25 0 138 190 76 128 6.00e-11 58.2
MS.gene058667.t1 MTR_5g012340 38.961 77 44 1 117 190 100 176 8.58e-11 58.5
MS.gene058667.t1 MTR_5g012380 38.961 77 44 1 117 190 93 169 8.87e-11 58.5
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene058667.t1 AT5G46890 55.263 76 31 2 117 190 52 126 5.61e-21 84.3
MS.gene058667.t1 AT5G46900 55.263 76 31 2 117 190 52 126 2.46e-20 82.8
MS.gene058667.t1 AT4G12490 38.265 196 100 5 1 190 1 181 3.04e-20 84.0
MS.gene058667.t1 AT2G45180 53.247 77 33 1 117 190 57 133 1.59e-19 80.9
MS.gene058667.t1 AT4G12500 52.564 78 33 1 117 190 99 176 9.16e-18 77.4
MS.gene058667.t1 AT4G12520 47.436 78 37 1 117 190 51 128 4.56e-17 74.3
MS.gene058667.t1 AT4G12510 47.436 78 37 1 117 190 51 128 4.56e-17 74.3
MS.gene058667.t1 AT1G12090 51.282 78 34 1 117 190 60 137 2.71e-16 72.4
MS.gene058667.t1 AT4G12545 51.899 79 32 3 117 190 30 107 4.50e-16 70.9
MS.gene058667.t1 AT4G12480 45.283 106 44 2 89 190 72 167 9.20e-15 68.9
MS.gene058667.t1 AT1G12100 39.773 88 49 1 107 190 44 131 1.05e-14 68.2
MS.gene058667.t1 AT3G22142 38.372 86 46 3 111 190 1394 1478 1.07e-14 72.0
MS.gene058667.t1 AT4G12550 48.148 81 36 3 115 190 31 110 4.59e-14 65.9
MS.gene058667.t1 AT4G12530 44.304 79 41 1 115 190 37 115 7.20e-14 65.5
MS.gene058667.t1 AT4G00165 41.250 80 43 2 115 190 49 128 7.31e-14 65.9
MS.gene058667.t1 AT4G00165 41.250 80 43 2 115 190 49 128 7.31e-14 65.9
MS.gene058667.t1 AT4G22460 42.391 92 43 3 101 186 39 126 4.22e-12 61.2
MS.gene058667.t1 AT4G12470 35.052 194 88 3 1 190 1 160 5.43e-11 58.9
MS.gene058667.t1 AT1G62510 39.516 124 51 2 71 190 46 149 8.52e-11 58.2

Find 71 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGCAAATGTTCAAGTTTAAA+AGG 0.192055 7.4:-27022390 None:intergenic
TGAACCGTTGTGGGGTTAAT+AGG 0.251269 7.4:+27022575 MS.gene058667:CDS
TCTCTTCCTTGATCTCCTTT+TGG 0.265851 7.4:+27022078 MS.gene058667:CDS
ATCAAGGAAGAGAATGAAAA+TGG 0.288268 7.4:-27022068 None:intergenic
GGAGGTGTCGTAGGAATTGA+TGG 0.412771 7.4:-27022322 None:intergenic
GGAATCGGTGGTGGTGTAGA+AGG 0.413931 7.4:-27022343 None:intergenic
TATTTGCAAAATGGGTTCAA+AGG 0.444542 7.4:+27022036 None:intergenic
TGCACTCAGAGCTAATATCT+TGG 0.446855 7.4:+27022513 MS.gene058667:CDS
ATTTGCAAAATGGGTTCAAA+GGG 0.456799 7.4:+27022037 None:intergenic
TAGAAACCAAAAGGAGATCA+AGG 0.459499 7.4:-27022084 None:intergenic
GGTGGTGGTGTGGAAGGAGG+TGG 0.463637 7.4:-27022223 None:intergenic
GGTGTCACTGGAATCGGTGG+TGG 0.464402 7.4:-27022352 None:intergenic
AGACATGGTGGTGGTGGTAG+TGG 0.464802 7.4:-27022139 None:intergenic
GACGAAGGTGGAGGTGTGGA+AGG 0.467449 7.4:-27022283 None:intergenic
CAACAAGAGTAGAAACCAAA+AGG 0.472992 7.4:-27022093 None:intergenic
GAATAATCTTGAACCGTTGT+GGG 0.474149 7.4:+27022566 MS.gene058667:CDS
TGTGGGGTTAATAGGCCTGC+TGG 0.474902 7.4:+27022583 MS.gene058667:CDS
ATTGATGGTGGCGTGGAAGG+AGG 0.476846 7.4:-27022307 None:intergenic
GCACTCAGAGCTAATATCTT+GGG 0.477872 7.4:+27022514 MS.gene058667:CDS
AGGGGACGAAGGTGGAGGTG+TGG 0.485226 7.4:-27022287 None:intergenic
GTGGAAAGACATGGTGGTGG+TGG 0.485554 7.4:-27022145 None:intergenic
GTCGAAGGTGGTGGTGTGGA+AGG 0.489110 7.4:-27022229 None:intergenic
GTGGAAGGAGGGGACGAAGG+TGG 0.493083 7.4:-27022295 None:intergenic
ACCACAGGTGGTGGTGTTGA+AGG 0.497195 7.4:-27022187 None:intergenic
TGATGGTGGCGTGGAAGGAG+GGG 0.497819 7.4:-27022305 None:intergenic
GAAGGTGGTGGTGTGGAAGG+AGG 0.510965 7.4:-27022226 None:intergenic
TTGATGGTGGCGTGGAAGGA+GGG 0.512687 7.4:-27022306 None:intergenic
TCTTAACATCAATGCTGACT+TGG 0.513922 7.4:+27022543 MS.gene058667:CDS
TACAACAAGGATTGTTTCGT+GGG 0.515759 7.4:-27022441 None:intergenic
GAAGGAGGGGACGAAGGTGG+AGG 0.516524 7.4:-27022292 None:intergenic
GGAATTGATGGTGGCGTGGA+AGG 0.518694 7.4:-27022310 None:intergenic
GGAATAATCTTGAACCGTTG+TGG 0.519169 7.4:+27022565 MS.gene058667:CDS
GAAGGAGGTGTCGAAGGTGG+TGG 0.519674 7.4:-27022238 None:intergenic
GGAGTTATCATAGGTGGTGA+TGG 0.522356 7.4:-27022262 None:intergenic
ATCATAGGTGGTGATGGAGA+AGG 0.523002 7.4:-27022256 None:intergenic
GGTGTAGAAGGAGGTGTCGT+AGG 0.524763 7.4:-27022331 None:intergenic
GTGGAAGGAGGTGGTGTCGA+AGG 0.538378 7.4:-27022214 None:intergenic
ATCAACAAGGCCACTGATGA+GGG 0.548884 7.4:-27022464 None:intergenic
GGTGTGGAAAGACATGGTGG+TGG 0.564359 7.4:-27022148 None:intergenic
GATGGAGAAGGAGGTGTCGA+AGG 0.568848 7.4:-27022244 None:intergenic
CTTAACATCAATGCTGACTT+GGG 0.569880 7.4:+27022544 MS.gene058667:CDS
CGTCTACATGTAAAACCAGC+AGG 0.570295 7.4:-27022598 None:intergenic
GGTGTGGAAGGAGTTATCAT+AGG 0.571036 7.4:-27022271 None:intergenic
AGGTGTCGAAGGTGGTGGTG+TGG 0.572788 7.4:-27022233 None:intergenic
GGTGTTGAAGGAGTATCAAC+AGG 0.573364 7.4:-27022175 None:intergenic
GATCAACAAGGCCACTGATG+AGG 0.574584 7.4:-27022465 None:intergenic
AAAATGGGTTCAAAGGGTGT+TGG 0.576868 7.4:+27022043 None:intergenic
ATAGGTGGTGATGGAGAAGG+AGG 0.582945 7.4:-27022253 None:intergenic
GTACAACAAGGATTGTTTCG+TGG 0.583674 7.4:-27022442 None:intergenic
CACAACTGCATTCAATACGT+TGG 0.585168 7.4:-27022413 None:intergenic
GGCGTGGAAGGAGGGGACGA+AGG 0.588177 7.4:-27022298 None:intergenic
GGAGAAGGAGGTGTCGAAGG+TGG 0.595365 7.4:-27022241 None:intergenic
CCTTGTTGTACCCTCATCAG+TGG 0.597770 7.4:+27022454 MS.gene058667:CDS
GAAGGAGTTACCACAGGTGG+TGG 0.599734 7.4:-27022196 None:intergenic
AGTATCAACAGGTGGTGGTG+TGG 0.601054 7.4:-27022164 None:intergenic
TCCTTCAACACCACCACCTG+TGG 0.606270 7.4:+27022186 MS.gene058667:CDS
GGTGGTGTGGAAAGACATGG+TGG 0.619769 7.4:-27022151 None:intergenic
ATCGGTGGTGGTGTAGAAGG+AGG 0.621488 7.4:-27022340 None:intergenic
AATAATCTTGAACCGTTGTG+GGG 0.623368 7.4:+27022567 MS.gene058667:CDS
GTGGAAGGAGTTATCATAGG+TGG 0.636745 7.4:-27022268 None:intergenic
GGTGTCGAAGGAGTTACCAC+AGG 0.637015 7.4:-27022202 None:intergenic
GAAGGAGTATCAACAGGTGG+TGG 0.647566 7.4:-27022169 None:intergenic
CGTAGGAATTGATGGTGGCG+TGG 0.652918 7.4:-27022314 None:intergenic
GTCGAAGGAGTTACCACAGG+TGG 0.663904 7.4:-27022199 None:intergenic
CAGAGGCATCTAGATCAACA+AGG 0.676803 7.4:-27022477 None:intergenic
CCACTGATGAGGGTACAACA+AGG 0.678661 7.4:-27022454 None:intergenic
GGTGGTGGTGTGGAAAGACA+TGG 0.699232 7.4:-27022154 None:intergenic
GGTGTCGTAGGAATTGATGG+TGG 0.735782 7.4:-27022319 None:intergenic
GTTGAAGGAGTATCAACAGG+TGG 0.747259 7.4:-27022172 None:intergenic
TGCAGCGCAAAGACACACAG+AGG 0.757164 7.4:-27022494 None:intergenic
CAGGCCTATTAACCCCACAA+CGG 0.766047 7.4:-27022579 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTAAAAGGTTACAATTTTG+CGG - chr7.4:27022379-27022398 None:intergenic 20.0%
!! TTAAAAGGTTACAATTTTGC+GGG - chr7.4:27022378-27022397 None:intergenic 25.0%
ATCAAGGAAGAGAATGAAAA+TGG - chr7.4:27022071-27022090 None:intergenic 30.0%
! CGCAAATGTTCAAGTTTAAA+AGG - chr7.4:27022393-27022412 None:intergenic 30.0%
! TAAAAGGTTACAATTTTGCG+GGG - chr7.4:27022377-27022396 None:intergenic 30.0%
AATAATCTTGAACCGTTGTG+GGG + chr7.4:27022567-27022586 MS.gene058667:CDS 35.0%
CAACAAGAGTAGAAACCAAA+AGG - chr7.4:27022096-27022115 None:intergenic 35.0%
GAATAATCTTGAACCGTTGT+GGG + chr7.4:27022566-27022585 MS.gene058667:CDS 35.0%
TACAACAAGGATTGTTTCGT+GGG - chr7.4:27022444-27022463 None:intergenic 35.0%
TAGAAACCAAAAGGAGATCA+AGG - chr7.4:27022087-27022106 None:intergenic 35.0%
! AAAAGGTTACAATTTTGCGG+GGG - chr7.4:27022376-27022395 None:intergenic 35.0%
! TCTTAACATCAATGCTGACT+TGG + chr7.4:27022543-27022562 MS.gene058667:CDS 35.0%
!! CTTAACATCAATGCTGACTT+GGG + chr7.4:27022544-27022563 MS.gene058667:CDS 35.0%
CACAACTGCATTCAATACGT+TGG - chr7.4:27022416-27022435 None:intergenic 40.0%
GCACTCAGAGCTAATATCTT+GGG + chr7.4:27022514-27022533 MS.gene058667:CDS 40.0%
GGAATAATCTTGAACCGTTG+TGG + chr7.4:27022565-27022584 MS.gene058667:CDS 40.0%
GTACAACAAGGATTGTTTCG+TGG - chr7.4:27022445-27022464 None:intergenic 40.0%
TGCACTCAGAGCTAATATCT+TGG + chr7.4:27022513-27022532 MS.gene058667:CDS 40.0%
! TCTCTTCCTTGATCTCCTTT+TGG + chr7.4:27022078-27022097 MS.gene058667:CDS 40.0%
ATCAACAAGGCCACTGATGA+GGG - chr7.4:27022467-27022486 None:intergenic 45.0%
CGTCTACATGTAAAACCAGC+AGG - chr7.4:27022601-27022620 None:intergenic 45.0%
GGAGTTATCATAGGTGGTGA+TGG - chr7.4:27022265-27022284 None:intergenic 45.0%
GGTGTGGAAGGAGTTATCAT+AGG - chr7.4:27022274-27022293 None:intergenic 45.0%
GTGGAAGGAGTTATCATAGG+TGG - chr7.4:27022271-27022290 None:intergenic 45.0%
TGAACCGTTGTGGGGTTAAT+AGG + chr7.4:27022575-27022594 MS.gene058667:CDS 45.0%
!! ATCATAGGTGGTGATGGAGA+AGG - chr7.4:27022259-27022278 None:intergenic 45.0%
!! CAGAGGCATCTAGATCAACA+AGG - chr7.4:27022480-27022499 None:intergenic 45.0%
!! GGTGTTGAAGGAGTATCAAC+AGG - chr7.4:27022178-27022197 None:intergenic 45.0%
!! GTTGAAGGAGTATCAACAGG+TGG - chr7.4:27022175-27022194 None:intergenic 45.0%
CAGGCCTATTAACCCCACAA+CGG - chr7.4:27022582-27022601 None:intergenic 50.0%
GATCAACAAGGCCACTGATG+AGG - chr7.4:27022468-27022487 None:intergenic 50.0%
! AGTATCAACAGGTGGTGGTG+TGG - chr7.4:27022167-27022186 None:intergenic 50.0%
! CCACTGATGAGGGTACAACA+AGG - chr7.4:27022457-27022476 None:intergenic 50.0%
! CCTTGTTGTACCCTCATCAG+TGG + chr7.4:27022454-27022473 MS.gene058667:CDS 50.0%
! GGTGTCGTAGGAATTGATGG+TGG - chr7.4:27022322-27022341 None:intergenic 50.0%
!! ATAGGTGGTGATGGAGAAGG+AGG - chr7.4:27022256-27022275 None:intergenic 50.0%
!! GAAGGAGTATCAACAGGTGG+TGG - chr7.4:27022172-27022191 None:intergenic 50.0%
!! GGAGGTGTCGTAGGAATTGA+TGG - chr7.4:27022325-27022344 None:intergenic 50.0%
GAAGGAGTTACCACAGGTGG+TGG - chr7.4:27022199-27022218 None:intergenic 55.0%
GGTGGTGTGGAAAGACATGG+TGG - chr7.4:27022154-27022173 None:intergenic 55.0%
GGTGTGGAAAGACATGGTGG+TGG - chr7.4:27022151-27022170 None:intergenic 55.0%
GTCGAAGGAGTTACCACAGG+TGG - chr7.4:27022202-27022221 None:intergenic 55.0%
TCCTTCAACACCACCACCTG+TGG + chr7.4:27022186-27022205 MS.gene058667:CDS 55.0%
TGCAGCGCAAAGACACACAG+AGG - chr7.4:27022497-27022516 None:intergenic 55.0%
TGTGGGGTTAATAGGCCTGC+TGG + chr7.4:27022583-27022602 MS.gene058667:CDS 55.0%
! ACCACAGGTGGTGGTGTTGA+AGG - chr7.4:27022190-27022209 None:intergenic 55.0%
! ATCGGTGGTGGTGTAGAAGG+AGG - chr7.4:27022343-27022362 None:intergenic 55.0%
! GGAATCGGTGGTGGTGTAGA+AGG - chr7.4:27022346-27022365 None:intergenic 55.0%
! GGTGGTGGTGTGGAAAGACA+TGG - chr7.4:27022157-27022176 None:intergenic 55.0%
! GGTGTCGAAGGAGTTACCAC+AGG - chr7.4:27022205-27022224 None:intergenic 55.0%
!! AGACATGGTGGTGGTGGTAG+TGG - chr7.4:27022142-27022161 None:intergenic 55.0%
!! ATTGATGGTGGCGTGGAAGG+AGG - chr7.4:27022310-27022329 None:intergenic 55.0%
!! CGTAGGAATTGATGGTGGCG+TGG - chr7.4:27022317-27022336 None:intergenic 55.0%
!! GATGGAGAAGGAGGTGTCGA+AGG - chr7.4:27022247-27022266 None:intergenic 55.0%
!! GGAATTGATGGTGGCGTGGA+AGG - chr7.4:27022313-27022332 None:intergenic 55.0%
!! GGTGTAGAAGGAGGTGTCGT+AGG - chr7.4:27022334-27022353 None:intergenic 55.0%
!! GTGGAAAGACATGGTGGTGG+TGG - chr7.4:27022148-27022167 None:intergenic 55.0%
!! TTGATGGTGGCGTGGAAGGA+GGG - chr7.4:27022309-27022328 None:intergenic 55.0%
!!! CAATTTTGCGGGGGTGTCAC+TGG - chr7.4:27022367-27022386 None:intergenic 55.0%
! GAAGGTGGTGGTGTGGAAGG+AGG - chr7.4:27022229-27022248 None:intergenic 60.0%
! GACGAAGGTGGAGGTGTGGA+AGG - chr7.4:27022286-27022305 None:intergenic 60.0%
! GTCGAAGGTGGTGGTGTGGA+AGG - chr7.4:27022232-27022251 None:intergenic 60.0%
! GTGGAAGGAGGTGGTGTCGA+AGG - chr7.4:27022217-27022236 None:intergenic 60.0%
!! AGGTGTCGAAGGTGGTGGTG+TGG - chr7.4:27022236-27022255 None:intergenic 60.0%
!! GAAGGAGGTGTCGAAGGTGG+TGG - chr7.4:27022241-27022260 None:intergenic 60.0%
!! GGAGAAGGAGGTGTCGAAGG+TGG - chr7.4:27022244-27022263 None:intergenic 60.0%
!! GGTGTCACTGGAATCGGTGG+TGG - chr7.4:27022355-27022374 None:intergenic 60.0%
!! TGATGGTGGCGTGGAAGGAG+GGG - chr7.4:27022308-27022327 None:intergenic 60.0%
!! TGCGGGGGTGTCACTGGAAT+CGG - chr7.4:27022361-27022380 None:intergenic 60.0%
AGGGGACGAAGGTGGAGGTG+TGG - chr7.4:27022290-27022309 None:intergenic 65.0%
GAAGGAGGGGACGAAGGTGG+AGG - chr7.4:27022295-27022314 None:intergenic 65.0%
GTGGAAGGAGGGGACGAAGG+TGG - chr7.4:27022298-27022317 None:intergenic 65.0%
! GGTGGTGGTGTGGAAGGAGG+TGG - chr7.4:27022226-27022245 None:intergenic 65.0%
!! GGGGGTGTCACTGGAATCGG+TGG - chr7.4:27022358-27022377 None:intergenic 65.0%
GGCGTGGAAGGAGGGGACGA+AGG - chr7.4:27022301-27022320 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 27022046 27022624 27022046 ID=MS.gene058667
chr7.4 mRNA 27022046 27022624 27022046 ID=MS.gene058667.t1;Parent=MS.gene058667
chr7.4 exon 27022046 27022624 27022046 ID=MS.gene058667.t1.exon1;Parent=MS.gene058667.t1
chr7.4 CDS 27022046 27022624 27022046 ID=cds.MS.gene058667.t1;Parent=MS.gene058667.t1
Gene Sequence

>MS.gene058667

ATGGGTTCAAAGGGTGTTGGATCCATTTTCATTCTCTTCCTTGATCTCCTTTTGGTTTCTACTCTTGTTGTTGCAAGTCATGCTCTTACGAGACCACTACCACCACCACCATGTCTTTCCACACCACCACCTGTTGATACTCCTTCAACACCACCACCTGTGGTAACTCCTTCGACACCACCTCCTTCCACACCACCACCTTCGACACCTCCTTCTCCATCACCACCTATGATAACTCCTTCCACACCTCCACCTTCGTCCCCTCCTTCCACGCCACCATCAATTCCTACGACACCTCCTTCTACACCACCACCGATTCCAGTGACACCCCCGCAAAATTGTAACCTTTTAAACTTGAACATTTGCGCCAACGTATTGAATGCAGTTGTGCTCAACCCACGAAACAATCCTTGTTGTACCCTCATCAGTGGCCTTGTTGATCTAGATGCCTCTGTGTGTCTTTGCGCTGCACTCAGAGCTAATATCTTGGGAATACGTCTTAACATCAATGCTGACTTGGGAATAATCTTGAACCGTTGTGGGGTTAATAGGCCTGCTGGTTTTACATGTAGACGTTAA

Protein sequence

>MS.gene058667.t1

MGSKGVGSIFILFLDLLLVSTLVVASHALTRPLPPPPCLSTPPPVDTPSTPPPVVTPSTPPPSTPPPSTPPSPSPPMITPSTPPPSSPPSTPPSIPTTPPSTPPPIPVTPPQNCNLLNLNICANVLNAVVLNPRNNPCCTLISGLVDLDASVCLCAALRANILGIRLNINADLGIILNRCGVNRPAGFTCRR