AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011997

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011997.t1 MTR_8g077510 91.286 241 12 3 1 235 1 238 3.06e-130 367
MS.gene011997.t1 MTR_5g020230 55.691 246 77 12 1 225 1 235 6.40e-69 211
MS.gene011997.t1 MTR_1g016170 59.322 59 21 2 114 172 179 234 1.78e-13 68.6
MS.gene011997.t1 MTR_7g112330 50.000 60 20 1 121 170 19 78 2.58e-13 65.1
MS.gene011997.t1 MTR_4g126350 55.385 65 27 2 89 153 153 215 2.72e-13 68.6
MS.gene011997.t1 MTR_4g121110 67.568 37 12 0 124 160 30 66 1.43e-12 63.5
MS.gene011997.t1 MTR_2g094600 36.538 104 51 3 68 156 145 248 2.21e-12 65.9
MS.gene011997.t1 MTR_1g116010 48.148 54 28 0 103 156 143 196 3.13e-12 64.7
MS.gene011997.t1 MTR_4g058910 56.098 41 18 0 116 156 306 346 8.41e-12 64.3
MS.gene011997.t1 MTR_1g094930 56.250 48 15 1 109 156 138 179 9.62e-12 63.2
MS.gene011997.t1 MTR_1g094930 56.250 48 15 1 109 156 233 274 1.89e-11 63.2
MS.gene011997.t1 MTR_3g117380 51.111 45 22 0 112 156 217 261 2.67e-11 62.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011997.t1 AT3G50870 38.811 286 98 11 20 235 17 295 4.39e-46 155
MS.gene011997.t1 AT2G18380 52.778 144 54 4 23 164 1 132 4.24e-37 129
MS.gene011997.t1 AT4G36620 42.857 210 78 7 52 234 16 210 5.94e-34 121
MS.gene011997.t1 AT5G56860 64.000 50 15 2 110 157 215 263 2.62e-13 68.9
MS.gene011997.t1 AT4G26150 73.684 38 9 1 117 154 193 229 7.86e-13 67.4
MS.gene011997.t1 AT5G26930 68.571 35 11 0 126 160 28 62 8.73e-13 63.5
MS.gene011997.t1 AT5G49300 71.429 35 10 0 126 160 38 72 1.67e-12 63.2
MS.gene011997.t1 AT3G06740 71.429 35 10 0 126 160 43 77 3.01e-12 62.8
MS.gene011997.t1 AT3G54810 49.254 67 29 2 109 171 215 280 1.31e-11 63.5
MS.gene011997.t1 AT3G54810 49.254 67 29 2 109 171 215 280 1.31e-11 63.5
MS.gene011997.t1 AT1G08010 58.537 41 16 1 116 156 213 252 2.55e-11 62.8
MS.gene011997.t1 AT1G08010 58.537 41 16 1 116 156 213 252 2.55e-11 62.8
MS.gene011997.t1 AT1G08010 58.537 41 16 1 116 156 213 252 2.55e-11 62.8
MS.gene011997.t1 AT4G32890 30.769 143 74 5 22 156 104 229 4.15e-11 62.0
MS.gene011997.t1 AT4G34680 42.188 64 30 1 93 156 156 212 5.80e-11 61.2
MS.gene011997.t1 AT4G34680 42.188 64 30 1 93 156 156 212 5.80e-11 61.2
MS.gene011997.t1 AT3G20750 66.667 33 11 0 129 161 164 196 9.34e-11 60.1

Find 47 sgRNAs with CRISPR-Local

Find 61 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCATTCCAAATTTCCTTTCT+TGG 0.186888 8.2:+28039642 MS.gene011997:CDS
AGTCTCCAAGAAAGGAAATT+TGG 0.258564 8.2:-28039647 None:intergenic
GATGGAGTAGTGTAAGAGTA+AGG 0.348845 8.2:-28038862 None:intergenic
TCAGATGCAGAATCAGAAAA+TGG 0.349796 8.2:+28039620 MS.gene011997:CDS
ATTGTTTCCTTTGCTTGACT+TGG 0.370949 8.2:-28039028 None:intergenic
TCAAGCAAAGGAAACAATAT+TGG 0.387578 8.2:+28039033 MS.gene011997:CDS
AGTCACTATGCAATGCTTGC+GGG 0.430912 8.2:+28039429 MS.gene011997:intron
CGCGACTAACGGCGGCATAA+TGG 0.431430 8.2:+28039505 MS.gene011997:CDS
ACACCACTTCTACACCCCTT+TGG 0.442678 8.2:+28039106 MS.gene011997:CDS
AGCGACGGTTTCGTTTATCT+TGG 0.447089 8.2:-28038942 None:intergenic
TCTCAACAAGGTCACATAAT+GGG 0.447815 8.2:+28038742 MS.gene011997:CDS
CTCTCAACAAGGTCACATAA+TGG 0.454874 8.2:+28038741 MS.gene011997:CDS
CCACTTCTACACCCCTTTGG+AGG 0.484365 8.2:+28039109 MS.gene011997:CDS
GAGTAGTTAGAATTTGTTTG+AGG 0.488131 8.2:-28038793 None:intergenic
TTGAGAATTATGTTTAGTGT+TGG 0.488709 8.2:-28038998 None:intergenic
ACGAGGACCATTCCTCCAAA+GGG 0.492453 8.2:-28039121 None:intergenic
TGGCAATGAGCTAAGTTTCA+TGG 0.499631 8.2:+28039592 MS.gene011997:CDS
TCTACACCCCTTTGGAGGAA+TGG 0.501186 8.2:+28039114 MS.gene011997:CDS
AACGGCGGCATAATGGAGTC+AGG 0.518068 8.2:+28039512 MS.gene011997:CDS
TTCAGATAGACGTGTGGAAG+GGG 0.526620 8.2:-28038917 None:intergenic
TTGTGTTGAGTCTCCAAGAA+AGG 0.529190 8.2:-28039655 None:intergenic
ATGGAGTAGTGTAAGAGTAA+GGG 0.532615 8.2:-28038861 None:intergenic
GAATGGTCCTCGTGGCCCTA+AGG 0.533064 8.2:+28039131 MS.gene011997:CDS
CAGTCACTATGCAATGCTTG+CGG 0.541543 8.2:+28039428 MS.gene011997:intron
CACGAGGACCATTCCTCCAA+AGG 0.545071 8.2:-28039122 None:intergenic
GCCGTTAGTCGCGGCTGTAG+TGG 0.553432 8.2:-28039495 None:intergenic
TTGCCATACATTTGACTCTG+TGG 0.554705 8.2:-28039575 None:intergenic
GCCACTACAGCCGCGACTAA+CGG 0.559565 8.2:+28039494 MS.gene011997:CDS
GTGCAATCAACAGAAGAAGA+TGG 0.561538 8.2:-28038880 None:intergenic
CAACCACAGAGTCAAATGTA+TGG 0.561677 8.2:+28039572 MS.gene011997:CDS
CCTCCAAAGGGGTGTAGAAG+TGG 0.563224 8.2:-28039109 None:intergenic
TCTTCAGATAGACGTGTGGA+AGG 0.577895 8.2:-28038919 None:intergenic
CTTCAGATAGACGTGTGGAA+GGG 0.580915 8.2:-28038918 None:intergenic
CATTATGCCGCCGTTAGTCG+CGG 0.583911 8.2:-28039504 None:intergenic
CGCGGCTGTAGTGGCAACCG+CGG 0.597888 8.2:-28039486 None:intergenic
TCTCAATCCAAGTCAAGCAA+AGG 0.601871 8.2:+28039021 MS.gene011997:CDS
AATTAGCAAGAGAAGAGCGA+CGG 0.619540 8.2:-28038957 None:intergenic
ATGGGAGGAACATGCACATG+TGG 0.624656 8.2:+28038760 MS.gene011997:CDS
TTGCGGGATTAGATACAAGA+AGG 0.629096 8.2:+28039445 MS.gene011997:CDS
ACTACAGCCGCGACTAACGG+CGG 0.630076 8.2:+28039497 MS.gene011997:CDS
ATCTTTACCTTAGGGCCACG+AGG 0.660086 8.2:-28039138 None:intergenic
AGAGAGAAGAGCGAACGCCG+CGG 0.661922 8.2:+28039469 MS.gene011997:CDS
CTTTGGAGGAATGGTCCTCG+TGG 0.675633 8.2:+28039123 MS.gene011997:CDS
CAACAAGGTCACATAATGGG+AGG 0.680593 8.2:+28038745 MS.gene011997:CDS
TTGGTCTTCAGATAGACGTG+TGG 0.692169 8.2:-28038923 None:intergenic
CGAGGACCATTCCTCCAAAG+GGG 0.705344 8.2:-28039120 None:intergenic
TGTTGTAGTAGCTCTCAACA+AGG 0.711133 8.2:+28038730 MS.gene011997:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! CAAAAAATTATTATTAATAG+CGG - chr8.2:28039338-28039357 None:intergenic 10.0%
!! AAAAACATTTATAGTCTATT+AGG + chr8.2:28039233-28039252 MS.gene011997:intron 15.0%
!!! TTAAGAATGTTTTGTAATAA+TGG + chr8.2:28039391-28039410 MS.gene011997:intron 15.0%
!!! AATCATAATGATCATTTTGT+TGG - chr8.2:28038837-28038856 None:intergenic 20.0%
! TTGAGAATTATGTTTAGTGT+TGG - chr8.2:28039001-28039020 None:intergenic 25.0%
AACATTTATAGTCTACTACG+AGG - chr8.2:28039208-28039227 None:intergenic 30.0%
ACAACAACAACAACAATTCA+TGG + chr8.2:28039543-28039562 MS.gene011997:CDS 30.0%
CGTAGTAGACTATAAATGTT+CGG + chr8.2:28039208-28039227 MS.gene011997:intron 30.0%
GGTAATGTATCTTTACCTTA+GGG - chr8.2:28039149-28039168 None:intergenic 30.0%
TCAAGCAAAGGAAACAATAT+TGG + chr8.2:28039033-28039052 MS.gene011997:CDS 30.0%
TTTGAACATAGACACAAAGA+TGG - chr8.2:28039170-28039189 None:intergenic 30.0%
! GAGTAGTTAGAATTTGTTTG+AGG - chr8.2:28038796-28038815 None:intergenic 30.0%
! TGGTAATGTATCTTTACCTT+AGG - chr8.2:28039150-28039169 None:intergenic 30.0%
AGTCTCCAAGAAAGGAAATT+TGG - chr8.2:28039650-28039669 None:intergenic 35.0%
ATGGAGTAGTGTAAGAGTAA+GGG - chr8.2:28038864-28038883 None:intergenic 35.0%
ATTGTTTCCTTTGCTTGACT+TGG - chr8.2:28039031-28039050 None:intergenic 35.0%
GCATTCCAAATTTCCTTTCT+TGG + chr8.2:28039642-28039661 MS.gene011997:CDS 35.0%
GTCAGAGTCTTACTATTGAA+CGG - chr8.2:28039262-28039281 None:intergenic 35.0%
TCAGATGCAGAATCAGAAAA+TGG + chr8.2:28039620-28039639 MS.gene011997:CDS 35.0%
TCTCAACAAGGTCACATAAT+GGG + chr8.2:28038742-28038761 MS.gene011997:CDS 35.0%
! CTGACTTTGACTTTGTTAGT+GGG + chr8.2:28039277-28039296 MS.gene011997:intron 35.0%
! TCTGACTTTGACTTTGTTAG+TGG + chr8.2:28039276-28039295 MS.gene011997:intron 35.0%
AATTAGCAAGAGAAGAGCGA+CGG - chr8.2:28038960-28038979 None:intergenic 40.0%
CAACCACAGAGTCAAATGTA+TGG + chr8.2:28039572-28039591 MS.gene011997:CDS 40.0%
CTCTCAACAAGGTCACATAA+TGG + chr8.2:28038741-28038760 MS.gene011997:CDS 40.0%
GATGGAGTAGTGTAAGAGTA+AGG - chr8.2:28038865-28038884 None:intergenic 40.0%
GTGCAATCAACAGAAGAAGA+TGG - chr8.2:28038883-28038902 None:intergenic 40.0%
TATAGTCTACTACGAGGTCT+CGG - chr8.2:28039202-28039221 None:intergenic 40.0%
TCTCAATCCAAGTCAAGCAA+AGG + chr8.2:28039021-28039040 MS.gene011997:CDS 40.0%
TGGCAATGAGCTAAGTTTCA+TGG + chr8.2:28039592-28039611 MS.gene011997:CDS 40.0%
TGTTGTAGTAGCTCTCAACA+AGG + chr8.2:28038730-28038749 MS.gene011997:CDS 40.0%
TTGCCATACATTTGACTCTG+TGG - chr8.2:28039578-28039597 None:intergenic 40.0%
TTGCGGGATTAGATACAAGA+AGG + chr8.2:28039445-28039464 MS.gene011997:CDS 40.0%
TTGTGTTGAGTCTCCAAGAA+AGG - chr8.2:28039658-28039677 None:intergenic 40.0%
AGCGACGGTTTCGTTTATCT+TGG - chr8.2:28038945-28038964 None:intergenic 45.0%
AGTCACTATGCAATGCTTGC+GGG + chr8.2:28039429-28039448 MS.gene011997:intron 45.0%
CAGTCACTATGCAATGCTTG+CGG + chr8.2:28039428-28039447 MS.gene011997:intron 45.0%
CTTCAGATAGACGTGTGGAA+GGG - chr8.2:28038921-28038940 None:intergenic 45.0%
TCTTCAGATAGACGTGTGGA+AGG - chr8.2:28038922-28038941 None:intergenic 45.0%
TTCAGATAGACGTGTGGAAG+GGG - chr8.2:28038920-28038939 None:intergenic 45.0%
! CAACAAGGTCACATAATGGG+AGG + chr8.2:28038745-28038764 MS.gene011997:CDS 45.0%
! TTGGTCTTCAGATAGACGTG+TGG - chr8.2:28038926-28038945 None:intergenic 45.0%
ACACCACTTCTACACCCCTT+TGG + chr8.2:28039106-28039125 MS.gene011997:CDS 50.0%
ACGAGGACCATTCCTCCAAA+GGG - chr8.2:28039124-28039143 None:intergenic 50.0%
ATCTTTACCTTAGGGCCACG+AGG - chr8.2:28039141-28039160 None:intergenic 50.0%
ATGGGAGGAACATGCACATG+TGG + chr8.2:28038760-28038779 MS.gene011997:CDS 50.0%
! TCTACACCCCTTTGGAGGAA+TGG + chr8.2:28039114-28039133 MS.gene011997:CDS 50.0%
CACGAGGACCATTCCTCCAA+AGG - chr8.2:28039125-28039144 None:intergenic 55.0%
CATTATGCCGCCGTTAGTCG+CGG - chr8.2:28039507-28039526 None:intergenic 55.0%
CCACTTCTACACCCCTTTGG+AGG + chr8.2:28039109-28039128 MS.gene011997:CDS 55.0%
CGAGGACCATTCCTCCAAAG+GGG - chr8.2:28039123-28039142 None:intergenic 55.0%
! AACGGCGGCATAATGGAGTC+AGG + chr8.2:28039512-28039531 MS.gene011997:CDS 55.0%
! CCTCCAAAGGGGTGTAGAAG+TGG - chr8.2:28039112-28039131 None:intergenic 55.0%
! CTTTGGAGGAATGGTCCTCG+TGG + chr8.2:28039123-28039142 MS.gene011997:CDS 55.0%
ACTACAGCCGCGACTAACGG+CGG + chr8.2:28039497-28039516 MS.gene011997:CDS 60.0%
AGAGAGAAGAGCGAACGCCG+CGG + chr8.2:28039469-28039488 MS.gene011997:CDS 60.0%
CGCGACTAACGGCGGCATAA+TGG + chr8.2:28039505-28039524 MS.gene011997:CDS 60.0%
GAATGGTCCTCGTGGCCCTA+AGG + chr8.2:28039131-28039150 MS.gene011997:CDS 60.0%
GCCACTACAGCCGCGACTAA+CGG + chr8.2:28039494-28039513 MS.gene011997:CDS 60.0%
GCCGTTAGTCGCGGCTGTAG+TGG - chr8.2:28039498-28039517 None:intergenic 65.0%
CGCGGCTGTAGTGGCAACCG+CGG - chr8.2:28039489-28039508 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 28038718 28039703 28038718 ID=MS.gene011997
chr8.2 mRNA 28038718 28039703 28038718 ID=MS.gene011997.t1;Parent=MS.gene011997
chr8.2 exon 28038718 28039152 28038718 ID=MS.gene011997.t1.exon1;Parent=MS.gene011997.t1
chr8.2 CDS 28038718 28039152 28038718 ID=cds.MS.gene011997.t1;Parent=MS.gene011997.t1
chr8.2 exon 28039431 28039703 28039431 ID=MS.gene011997.t1.exon2;Parent=MS.gene011997.t1
chr8.2 CDS 28039431 28039703 28039431 ID=cds.MS.gene011997.t1;Parent=MS.gene011997.t1
Gene Sequence

>MS.gene011997

ATGATGCATCATTGTTGTAGTAGCTCTCAACAAGGTCACATAATGGGAGGAACATGCACATGTGGTATGTTTCATCCTCAAACAAATTCTAACTACTCGTTGCTTTACTCTAACTACCAACAAAATGATCATTATGATTTTGACCCTTACTCTTACACTACTCCATCTTCTTCTGTTGATTGCACACTCTCTCTTGCTACCCCTTCCACACGTCTATCTGAAGACCAAGATAAACGAAACCGTCGCTCTTCTCTTGCTAATTTTTTTTGTAGCAAATCTTCCAACACTAAACATAATTCTCAATCTCAATCCAAGTCAAGCAAAGGAAACAATATTGGTAGTAACTCTAACAATGATTCTCTTCTTTCTCGTCGATGTGCTAGCTGTGACACCACTTCTACACCCCTTTGGAGGAATGGTCCTCGTGGCCCTAAGGTAAAGATACATTACCATCTTTGTGTCTATGTTCAAAATATATGAGCCGAGACCTCGTAGTAGACTATAAATGTTCGGCAAAAAACATTTATAGTCTATTAGGTCTCCGTTCAATAGTAAGACTCTGACTTTGACTTTGTTAGTGGGAGACAATTTTATAGTACGAGACAATGTCATTGTCACCGCTATTAATAATAATTTTTTGTTTCTTGATGTTATATGTTCTTTTTGTCTTCTTTTAAGAATGTTTTGTAATAATGGTTCAATTGAATTTGCAGTCACTATGCAATGCTTGCGGGATTAGATACAAGAAGGAAGAGAGAAGAGCGAACGCCGCGGTTGCCACTACAGCCGCGACTAACGGCGGCATAATGGAGTCAGGAAACTTCTACAACAACAACAACAATTCATGGTACTCACAACCACAGAGTCAAATGTATGGCAATGAGCTAAGTTTCATGGATGATTCAGATGCAGAATCAGAAAATGGCATTCCAAATTTCCTTTCTTGGAGACTCAACACAAGTCTTGTTCACGATTACACAAGATGA
Protein sequence

>MS.gene011997.t1

MMHHCCSSSQQGHIMGGTCTCGMFHPQTNSNYSLLYSNYQQNDHYDFDPYSYTTPSSSVDCTLSLATPSTRLSEDQDKRNRRSSLANFFCSKSSNTKHNSQSQSKSSKGNNIGSNSNNDSLLSRRCASCDTTSTPLWRNGPRGPKSLCNACGIRYKKEERRANAAVATTAATNGGIMESGNFYNNNNNSWYSQPQSQMYGNELSFMDDSDAESENGIPNFLSWRLNTSLVHDYTR