AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011710


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011710.t1 MTR_4g097175 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene011710.t1 MTR_1g023630 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene011710.t1 MTR_8g061940 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene011710.t1 MTR_8g099430 99.265 136 1 0 1 136 1 136 4.84e-96 272
MS.gene011710.t1 MTR_4g097170 99.265 136 1 0 1 136 42 177 7.71e-95 271
MS.gene011710.t1 MTR_7g059070 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_5g029820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_5g029770 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_4g065990 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_4g088150 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_2g035230 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_8g092720 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_8g063500 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_8g103245 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_8g092820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011710.t1 MTR_7g013610 97.059 136 4 0 1 136 100 235 2.63e-92 266
MS.gene011710.t1 MTR_2g082310 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene011710.t1 MTR_2g082340 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene011710.t1 MTR_2g082370 86.301 146 10 1 1 136 1 146 3.79e-84 243
MS.gene011710.t1 MTR_2g082400 85.294 136 18 2 1 135 1 135 1.39e-76 223
MS.gene011710.t1 MTR_7g013600 83.036 112 19 0 25 136 2 113 1.72e-62 187
MS.gene011710.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 3.79e-56 172
MS.gene011710.t1 MTR_1g023630 77.477 111 23 1 1 111 1 109 1.51e-54 167
MS.gene011710.t1 MTR_7g023880 60.150 133 39 3 3 134 18 137 2.40e-44 142
MS.gene011710.t1 MTR_5g024630 63.793 116 39 2 1 116 1 113 1.54e-42 136
MS.gene011710.t1 MTR_5g024530 65.455 110 15 2 19 128 68 154 6.25e-40 131
MS.gene011710.t1 MTR_0197s0100 96.970 66 2 0 1 66 1 66 1.84e-39 129
MS.gene011710.t1 MTR_8g027840 56.122 98 42 1 37 133 28 125 4.65e-31 108
MS.gene011710.t1 MTR_8g105150 59.783 92 3 2 37 127 11 69 1.24e-26 95.1
MS.gene011710.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 5.77e-20 80.5
MS.gene011710.t1 MTR_5g089120 68.085 47 15 0 82 128 6 52 1.58e-16 70.1
MS.gene011710.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.14e-15 66.6
MS.gene011710.t1 MTR_4g128040 72.973 37 10 0 79 115 20 56 6.10e-14 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.gene011710.t1 AT5G10980 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011710.t1 AT4G40030 100.000 136 0 0 1 136 29 164 2.04e-96 275
MS.gene011710.t1 AT5G65360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011710.t1 AT5G10390 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011710.t1 AT5G10400 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011710.t1 AT3G27360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011710.t1 AT1G09200 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011710.t1 AT1G75600 96.324 136 5 0 1 136 1 136 1.02e-92 264
MS.gene011710.t1 AT1G13370 94.853 136 7 0 1 136 1 136 2.16e-91 261
MS.gene011710.t1 AT5G65350 92.647 136 10 0 1 136 1 136 1.27e-88 254
MS.gene011710.t1 AT1G19890 90.511 137 12 1 1 136 1 137 1.89e-85 246
MS.gene011710.t1 AT5G12910 71.111 135 34 2 1 135 1 130 1.15e-65 196
MS.gene011710.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene011710.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene011710.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene011710.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112

Find 44 sgRNAs with CRISPR-Local

Find 57 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGTTGCAAGTTGCTTCCT+TGG 0.333909 8.3:-22193572 None:intergenic
CACCGAAGAGCAACAGTTCC+TGG 0.341134 8.3:-22193759 None:intergenic
TCAAGAGCTCGGTACTCTTC+TGG 0.348030 8.3:-22193931 None:intergenic
CCTTGCCAACTGGATGTCCT+TGG 0.351370 8.3:-22194226 None:intergenic
CACGGATCCTCCTTGCCAAC+TGG 0.363910 8.3:-22194236 None:intergenic
CTTGCCAACTGGATGTCCTT+GGG 0.434839 8.3:-22194225 None:intergenic
ATATCTTGTTGGTCTCTTTG+AGG 0.438404 8.3:+22194158 MS.gene011710:CDS
TGAAATTGCTCAGGACTTCA+AGG 0.441698 8.3:+22193985 MS.gene011710:CDS
TTCTTAACTCCACCAGTAGT+TGG 0.444620 8.3:-22193720 None:intergenic
GCTGCTGAGGCATATCTTGT+TGG 0.457640 8.3:+22194147 MS.gene011710:CDS
CACGAACCAACCTCTGGAAT+GGG 0.467959 8.3:-22193964 None:intergenic
CGCAAGTCTGCACCAACTAC+TGG 0.471576 8.3:+22193708 MS.gene011710:CDS
GCCCAGGAACTGTTGCTCTT+CGG 0.472314 8.3:+22193757 MS.gene011710:CDS
CTTCCTTGGTGCCTTACCAC+CGG 0.479634 8.3:-22193558 None:intergenic
TGCATTGCAAGAGGCTGCTG+AGG 0.479818 8.3:+22194134 MS.gene011710:CDS
AGAGTACCGAGCTCTTGATC+AGG 0.484025 8.3:+22193936 MS.gene011710:CDS
ATCCGTGGTGAGCGCGCCTA+AGG 0.494321 8.3:+22194252 MS.gene011710:CDS
ATGCAAGCACAGCATGACTC+TGG 0.500306 8.3:-22194116 None:intergenic
TCGTAAGTCAACCGGTGGTA+AGG 0.501661 8.3:+22193547 MS.gene011710:CDS
CAATTTCACGAACCAACCTC+TGG 0.503886 8.3:-22193970 None:intergenic
TGACTTACGAGCTGTTTGCT+TGG 0.508768 8.3:-22193534 None:intergenic
GTTGGTTCGTGAAATTGCTC+AGG 0.513873 8.3:+22193976 MS.gene011710:CDS
TGCTGTGCTTGCATTGCAAG+AGG 0.513898 8.3:+22194125 MS.gene011710:CDS
CAAACAGCTCGTAAGTCAAC+CGG 0.519692 8.3:+22193539 MS.gene011710:CDS
TCACGAACCAACCTCTGGAA+TGG 0.521454 8.3:-22193965 None:intergenic
TAATAGTAACTCGCTTGGCA+TGG 0.547452 8.3:-22194200 None:intergenic
CTCCTTAGGCGCGCTCACCA+CGG 0.549887 8.3:-22194254 None:intergenic
ACCGAAGAGCAACAGTTCCT+GGG 0.559961 8.3:-22193758 None:intergenic
GAAGCTCCCATTCCAGAGGT+TGG 0.572362 8.3:+22193958 MS.gene011710:CDS
GGGCATAATAGTAACTCGCT+TGG 0.573260 8.3:-22194205 None:intergenic
AAGGAAGCAACTTGCAACCA+AGG 0.574800 8.3:+22193574 MS.gene011710:CDS
AAGCCACATCGTTATCGCCC+AGG 0.581263 8.3:+22193741 MS.gene011710:CDS
CCAAGGACATCCAGTTGGCA+AGG 0.588868 8.3:+22194226 MS.gene011710:CDS
GAGCTTCCTGATCAAGAGCT+CGG 0.624511 8.3:-22193942 None:intergenic
GCGAGTTACTATTATGCCCA+AGG 0.629580 8.3:+22194209 MS.gene011710:CDS
AAGTCTGCACCAACTACTGG+TGG 0.650548 8.3:+22193711 MS.gene011710:CDS
TATGCCCAAGGACATCCAGT+TGG 0.656475 8.3:+22194221 MS.gene011710:CDS
CAACCGGTGGTAAGGCACCA+AGG 0.657003 8.3:+22193555 MS.gene011710:CDS
TCAGGAAGCTCCCATTCCAG+AGG 0.664518 8.3:+22193954 MS.gene011710:CDS
CAGTTGGCAAGGAGGATCCG+TGG 0.664833 8.3:+22194237 MS.gene011710:CDS
CAGCATGACTCTGGAAACGA+AGG 0.672290 8.3:-22194107 None:intergenic
AGGACATCCAGTTGGCAAGG+AGG 0.674393 8.3:+22194229 MS.gene011710:CDS
GTTCCTGGGCGATAACGATG+TGG 0.684844 8.3:-22193744 None:intergenic
ACAGCTCGTAAGTCAACCGG+TGG 0.708150 8.3:+22193542 MS.gene011710:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! GTTTCTAATAATTTGTTATT+TGG + chr8.3:22193875-22193894 MS.gene011710:intron 15.0%
!!! TAATAATTTGTTATTTGGAT+TGG + chr8.3:22193880-22193899 MS.gene011710:intron 15.0%
!!! TATTTTAAAACAGTGAGATT+AGG + chr8.3:22193903-22193922 MS.gene011710:intron 20.0%
!!! TTGTTTCTATTGAATTGAAT+TGG + chr8.3:22193848-22193867 MS.gene011710:intron 20.0%
! TCTATTGAATTGAATTGGTT+TGG + chr8.3:22193853-22193872 MS.gene011710:intron 25.0%
!! CTGTTGAAAATTTTCTTTCA+GGG + chr8.3:22193787-22193806 MS.gene011710:intron 25.0%
!! TCTGTTGAAAATTTTCTTTC+AGG + chr8.3:22193786-22193805 MS.gene011710:intron 25.0%
!!! TTTTTTTTTCCCTTACCTTT+AGG + chr8.3:22193680-22193699 MS.gene011710:intron 25.0%
AAGCAACTAAAATCAAACCT+TGG - chr8.3:22193594-22193613 None:intergenic 30.0%
GGATGTGGTTTCTAATAATT+TGG + chr8.3:22194067-22194086 MS.gene011710:intron 30.0%
ATTCATGATCAGTGTAGTCA+AGG + chr8.3:22194046-22194065 MS.gene011710:intron 35.0%
! ATATCTTGTTGGTCTCTTTG+AGG + chr8.3:22194158-22194177 MS.gene011710:CDS 35.0%
TAATAGTAACTCGCTTGGCA+TGG - chr8.3:22194203-22194222 None:intergenic 40.0%
TGAAATTGCTCAGGACTTCA+AGG + chr8.3:22193985-22194004 MS.gene011710:CDS 40.0%
TTCTTAACTCCACCAGTAGT+TGG - chr8.3:22193723-22193742 None:intergenic 40.0%
AAGGAAGCAACTTGCAACCA+AGG + chr8.3:22193574-22193593 MS.gene011710:CDS 45.0%
CAAACAGCTCGTAAGTCAAC+CGG + chr8.3:22193539-22193558 MS.gene011710:CDS 45.0%
CAATTTCACGAACCAACCTC+TGG - chr8.3:22193973-22193992 None:intergenic 45.0%
GATCAGTGTAGTCAAGGATG+TGG + chr8.3:22194052-22194071 MS.gene011710:intron 45.0%
GCGAGTTACTATTATGCCCA+AGG + chr8.3:22194209-22194228 MS.gene011710:CDS 45.0%
GGGCATAATAGTAACTCGCT+TGG - chr8.3:22194208-22194227 None:intergenic 45.0%
TGACTTACGAGCTGTTTGCT+TGG - chr8.3:22193537-22193556 None:intergenic 45.0%
TTGGTTGCAAGTTGCTTCCT+TGG - chr8.3:22193575-22193594 None:intergenic 45.0%
!! GTTGGTTCGTGAAATTGCTC+AGG + chr8.3:22193976-22193995 MS.gene011710:CDS 45.0%
AAGTCTGCACCAACTACTGG+TGG + chr8.3:22193711-22193730 MS.gene011710:CDS 50.0%
ACCGAAGAGCAACAGTTCCT+GGG - chr8.3:22193761-22193780 None:intergenic 50.0%
ATGCAAGCACAGCATGACTC+TGG - chr8.3:22194119-22194138 None:intergenic 50.0%
CTTGCCAACTGGATGTCCTT+GGG - chr8.3:22194228-22194247 None:intergenic 50.0%
GAGCTTCCTGATCAAGAGCT+CGG - chr8.3:22193945-22193964 None:intergenic 50.0%
GCTGCTGAGGCATATCTTGT+TGG + chr8.3:22194147-22194166 MS.gene011710:CDS 50.0%
TATGCCCAAGGACATCCAGT+TGG + chr8.3:22194221-22194240 MS.gene011710:CDS 50.0%
TCAAGAGCTCGGTACTCTTC+TGG - chr8.3:22193934-22193953 None:intergenic 50.0%
TCGTAAGTCAACCGGTGGTA+AGG + chr8.3:22193547-22193566 MS.gene011710:CDS 50.0%
TGCGTGCAGCCTAAAGGTAA+GGG - chr8.3:22193692-22193711 None:intergenic 50.0%
TGCTGTGCTTGCATTGCAAG+AGG + chr8.3:22194125-22194144 MS.gene011710:CDS 50.0%
TTGCGTGCAGCCTAAAGGTA+AGG - chr8.3:22193693-22193712 None:intergenic 50.0%
! CAGCATGACTCTGGAAACGA+AGG - chr8.3:22194110-22194129 None:intergenic 50.0%
! TCACGAACCAACCTCTGGAA+TGG - chr8.3:22193968-22193987 None:intergenic 50.0%
!! AGAGTACCGAGCTCTTGATC+AGG + chr8.3:22193936-22193955 MS.gene011710:CDS 50.0%
!! CACGAACCAACCTCTGGAAT+GGG - chr8.3:22193967-22193986 None:intergenic 50.0%
AAGCCACATCGTTATCGCCC+AGG + chr8.3:22193741-22193760 MS.gene011710:CDS 55.0%
ACAGCTCGTAAGTCAACCGG+TGG + chr8.3:22193542-22193561 MS.gene011710:CDS 55.0%
AGGACATCCAGTTGGCAAGG+AGG + chr8.3:22194229-22194248 MS.gene011710:CDS 55.0%
CACCGAAGAGCAACAGTTCC+TGG - chr8.3:22193762-22193781 None:intergenic 55.0%
CAGACTTGCGTGCAGCCTAA+AGG - chr8.3:22193698-22193717 None:intergenic 55.0%
CCAAGGACATCCAGTTGGCA+AGG + chr8.3:22194226-22194245 MS.gene011710:CDS 55.0%
CCTTGCCAACTGGATGTCCT+TGG - chr8.3:22194229-22194248 None:intergenic 55.0%
CGCAAGTCTGCACCAACTAC+TGG + chr8.3:22193708-22193727 MS.gene011710:CDS 55.0%
GAAGCTCCCATTCCAGAGGT+TGG + chr8.3:22193958-22193977 MS.gene011710:CDS 55.0%
GCCCAGGAACTGTTGCTCTT+CGG + chr8.3:22193757-22193776 MS.gene011710:CDS 55.0%
GTTCCTGGGCGATAACGATG+TGG - chr8.3:22193747-22193766 None:intergenic 55.0%
TCAGGAAGCTCCCATTCCAG+AGG + chr8.3:22193954-22193973 MS.gene011710:CDS 55.0%
TGCATTGCAAGAGGCTGCTG+AGG + chr8.3:22194134-22194153 MS.gene011710:CDS 55.0%
!! CTTCCTTGGTGCCTTACCAC+CGG - chr8.3:22193561-22193580 None:intergenic 55.0%
CACGGATCCTCCTTGCCAAC+TGG - chr8.3:22194239-22194258 None:intergenic 60.0%
CAGTTGGCAAGGAGGATCCG+TGG + chr8.3:22194237-22194256 MS.gene011710:CDS 60.0%
! CAACCGGTGGTAAGGCACCA+AGG + chr8.3:22193555-22193574 MS.gene011710:CDS 60.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 22193524 22194272 22193524 ID=MS.gene011710
chr8.3 mRNA 22193524 22194272 22193524 ID=MS.gene011710.t1;Parent=MS.gene011710
chr8.3 exon 22193524 22193595 22193524 ID=MS.gene011710.t1.exon1;Parent=MS.gene011710.t1
chr8.3 CDS 22193524 22193595 22193524 ID=cds.MS.gene011710.t1;Parent=MS.gene011710.t1
chr8.3 exon 22193702 22193778 22193702 ID=MS.gene011710.t1.exon2;Parent=MS.gene011710.t1
chr8.3 CDS 22193702 22193778 22193702 ID=cds.MS.gene011710.t1;Parent=MS.gene011710.t1
chr8.3 exon 22193916 22194006 22193916 ID=MS.gene011710.t1.exon3;Parent=MS.gene011710.t1
chr8.3 CDS 22193916 22194006 22193916 ID=cds.MS.gene011710.t1;Parent=MS.gene011710.t1
chr8.3 exon 22194102 22194272 22194102 ID=MS.gene011710.t1.exon4;Parent=MS.gene011710.t1
chr8.3 CDS 22194102 22194272 22194102 ID=cds.MS.gene011710.t1;Parent=MS.gene011710.t1
Gene Sequence

>MS.gene011710

ATGGCACGTACCAAGCAAACAGCTCGTAAGTCAACCGGTGGTAAGGCACCAAGGAAGCAACTTGCAACCAAGGTTTGATTTTAGTTGCTTATCATTATAAACACATTGATTTTAATCTGTATTATGACTGTTGAATCTTATTTTAACGATTTCTTGTTTTTTTTTCCCTTACCTTTAGGCTGCACGCAAGTCTGCACCAACTACTGGTGGAGTTAAGAAGCCACATCGTTATCGCCCAGGAACTGTTGCTCTTCGGTGAGTTTCTGTTGAAAATTTTCTTTCAGGGTTGTAATTCAATGTGTTCTGTTCTGTTTTGATTTTAATTTGTTTCTATTGAATTGAATTGGTTTGGTTTCTAATAATTTGTTATTTGGATTGGTATTTTAAAACAGTGAGATTAGGAAGTACCAGAAGAGTACCGAGCTCTTGATCAGGAAGCTCCCATTCCAGAGGTTGGTTCGTGAAATTGCTCAGGACTTCAAGGTAATGTGTAATTACTGTTGTGAGATATTATGTTTCTGTATTCATGATCAGTGTAGTCAAGGATGTGGTTTCTAATAATTTGGTATTTGTCGCAGACTGACCTTCGTTTCCAGAGTCATGCTGTGCTTGCATTGCAAGAGGCTGCTGAGGCATATCTTGTTGGTCTCTTTGAGGACACTAACTTGTGCGCTATCCATGCCAAGCGAGTTACTATTATGCCCAAGGACATCCAGTTGGCAAGGAGGATCCGTGGTGAGCGCGCCTAA

Protein sequence

>MS.gene011710.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA