AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene011711


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene011711.t1 MTR_4g097175 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene011711.t1 MTR_1g023630 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene011711.t1 MTR_8g061940 100.000 136 0 0 1 136 1 136 1.33e-96 274
MS.gene011711.t1 MTR_8g099430 99.265 136 1 0 1 136 1 136 4.84e-96 272
MS.gene011711.t1 MTR_4g097170 99.265 136 1 0 1 136 42 177 7.71e-95 271
MS.gene011711.t1 MTR_7g059070 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_5g029820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_5g029770 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_4g065990 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_4g088150 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_2g035230 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_8g092720 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_8g063500 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_8g103245 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_8g092820 97.059 136 4 0 1 136 1 136 3.29e-93 265
MS.gene011711.t1 MTR_7g013610 97.059 136 4 0 1 136 100 235 2.63e-92 266
MS.gene011711.t1 MTR_2g082310 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene011711.t1 MTR_2g082340 92.647 136 10 0 1 136 1 136 4.16e-90 257
MS.gene011711.t1 MTR_2g082370 86.301 146 10 1 1 136 1 146 3.79e-84 243
MS.gene011711.t1 MTR_2g082400 85.294 136 18 2 1 135 1 135 1.39e-76 223
MS.gene011711.t1 MTR_7g013600 83.036 112 19 0 25 136 2 113 1.72e-62 187
MS.gene011711.t1 MTR_7g023830 67.164 134 43 1 1 134 1 133 3.79e-56 172
MS.gene011711.t1 MTR_1g023630 77.477 111 23 1 1 111 1 109 1.51e-54 167
MS.gene011711.t1 MTR_7g023880 60.150 133 39 3 3 134 18 137 2.40e-44 142
MS.gene011711.t1 MTR_5g024630 63.793 116 39 2 1 116 1 113 1.54e-42 136
MS.gene011711.t1 MTR_5g024530 65.455 110 15 2 19 128 68 154 6.25e-40 131
MS.gene011711.t1 MTR_0197s0100 96.970 66 2 0 1 66 1 66 1.84e-39 129
MS.gene011711.t1 MTR_8g027840 56.122 98 42 1 37 133 28 125 4.65e-31 108
MS.gene011711.t1 MTR_8g105150 59.783 92 3 2 37 127 11 69 1.24e-26 95.1
MS.gene011711.t1 MTR_8g092740 97.368 38 1 0 99 136 118 155 5.77e-20 80.5
MS.gene011711.t1 MTR_5g089120 68.085 47 15 0 82 128 6 52 1.58e-16 70.1
MS.gene011711.t1 MTR_5g024600 62.963 54 20 0 1 54 1 54 1.14e-15 66.6
MS.gene011711.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.gene011711.t1 AT5G10980 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40040 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40030 100.000 136 0 0 1 136 1 136 1.39e-96 274
MS.gene011711.t1 AT4G40030 100.000 136 0 0 1 136 29 164 2.04e-96 275
MS.gene011711.t1 AT5G65360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011711.t1 AT5G10390 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011711.t1 AT5G10400 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011711.t1 AT3G27360 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011711.t1 AT1G09200 97.059 136 4 0 1 136 1 136 3.84e-93 265
MS.gene011711.t1 AT1G75600 96.324 136 5 0 1 136 1 136 1.02e-92 264
MS.gene011711.t1 AT1G13370 94.853 136 7 0 1 136 1 136 2.16e-91 261
MS.gene011711.t1 AT5G65350 92.647 136 10 0 1 136 1 136 1.27e-88 254
MS.gene011711.t1 AT1G19890 90.511 137 12 1 1 136 1 137 1.89e-85 246
MS.gene011711.t1 AT5G12910 71.111 135 34 2 1 135 1 130 1.15e-65 196
MS.gene011711.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene011711.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene011711.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112
MS.gene011711.t1 AT1G01370 54.867 113 48 2 24 134 63 174 3.24e-32 112

Find 44 sgRNAs with CRISPR-Local

Find 56 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGGTTGCAAGTTGCTTCCT+AGG 0.341167 8.3:-22189835 None:intergenic
CCTTGCCAACTGGATGTCCT+TGG 0.351370 8.3:-22190515 None:intergenic
CACGGATCCTCCTTGCCAAC+TGG 0.363910 8.3:-22190525 None:intergenic
CACCGAAGAGCAACAGTTCC+GGG 0.372127 8.3:-22190016 None:intergenic
ATCCGTGGTGAGCGTGCTTA+AGG 0.395681 8.3:+22190541 MS.gene011711:CDS
TGAAATTGCTCAAGACTTCA+AGG 0.405126 8.3:+22190266 MS.gene011711:CDS
TCACCGAAGAGCAACAGTTC+CGG 0.407614 8.3:-22190017 None:intergenic
CTTGCCAACTGGATGTCCTT+GGG 0.434839 8.3:-22190514 None:intergenic
ATATCTTGTTGGTCTGTTTG+AGG 0.444642 8.3:+22190447 MS.gene011711:CDS
GCTGCTGAGGCATATCTTGT+TGG 0.457640 8.3:+22190436 MS.gene011711:CDS
GCCCCGGAACTGTTGCTCTT+CGG 0.468662 8.3:+22190014 MS.gene011711:CDS
TGCATTGCAAGAGGCTGCTG+AGG 0.479818 8.3:+22190423 MS.gene011711:CDS
AGAGTACTGAGCTCTTGATC+AGG 0.482557 8.3:+22190217 MS.gene011711:CDS
CGTAAGTCTGCTCCCACTAC+TGG 0.483075 8.3:+22189965 MS.gene011711:CDS
CAAACTGCTCGTAAGTCTAC+TGG 0.493098 8.3:+22189802 MS.gene011711:CDS
ATGCAAGCACAGCATGACTC+TGG 0.500306 8.3:-22190405 None:intergenic
CAATTTCACGAACCAACCTC+TGG 0.507537 8.3:-22190251 None:intergenic
TGCTGTGCTTGCATTGCAAG+AGG 0.513898 8.3:+22190414 MS.gene011711:CDS
GAAGCTCCCCTTCCAGAGGT+TGG 0.527763 8.3:+22190239 MS.gene011711:CDS
AGACTTACGAGCAGTTTGCT+TGG 0.530724 8.3:-22189797 None:intergenic
TTTCTTAACTCCACCAGTAG+TGG 0.546326 8.3:-22189978 None:intergenic
TAATAGTAACTCGCTTGGCA+TGG 0.547452 8.3:-22190489 None:intergenic
CACGAACCAACCTCTGGAAG+GGG 0.550311 8.3:-22190245 None:intergenic
TTCTTAACTCCACCAGTAGT+GGG 0.561000 8.3:-22189977 None:intergenic
GGGCATAATAGTAACTCGCT+TGG 0.573260 8.3:-22190494 None:intergenic
AAACCACATCGTTACCGCCC+CGG 0.580189 8.3:+22189998 MS.gene011711:CDS
TCACGAACCAACCTCTGGAA+GGG 0.587957 8.3:-22190246 None:intergenic
CCAAGGACATCCAGTTGGCA+AGG 0.588868 8.3:+22190515 MS.gene011711:CDS
TTCACGAACCAACCTCTGGA+AGG 0.592307 8.3:-22190247 None:intergenic
TCGTAAGTCTACTGGTGGAA+AGG 0.600087 8.3:+22189810 MS.gene011711:CDS
AAGTCTGCTCCCACTACTGG+TGG 0.603052 8.3:+22189968 MS.gene011711:CDS
TAGGAAGCAACTTGCAACCA+AGG 0.610266 8.3:+22189837 MS.gene011711:CDS
GCGAGTTACTATTATGCCCA+AGG 0.629580 8.3:+22190498 MS.gene011711:CDS
TCAGGAAGCTCCCCTTCCAG+AGG 0.635098 8.3:+22190235 MS.gene011711:CDS
CTACTGGTGGAAAGGCACCT+AGG 0.637308 8.3:+22189818 MS.gene011711:CDS
GTTCCGGGGCGGTAACGATG+TGG 0.646981 8.3:-22190001 None:intergenic
CTCCTTAAGCACGCTCACCA+CGG 0.651017 8.3:-22190543 None:intergenic
ACCGAAGAGCAACAGTTCCG+GGG 0.653413 8.3:-22190015 None:intergenic
TATGCCCAAGGACATCCAGT+TGG 0.656475 8.3:+22190510 MS.gene011711:CDS
ACTGCTCGTAAGTCTACTGG+TGG 0.660657 8.3:+22189805 MS.gene011711:CDS
CAGTTGGCAAGGAGGATCCG+TGG 0.664833 8.3:+22190526 MS.gene011711:CDS
CAGCATGACTCTGGAAACGA+AGG 0.672290 8.3:-22190396 None:intergenic
AGGACATCCAGTTGGCAAGG+AGG 0.674393 8.3:+22190518 MS.gene011711:CDS
GAAGAGCAACAGTTCCGGGG+CGG 0.724004 8.3:-22190012 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAATATGAAGTGATTGTATT+GGG + chr8.3:22190088-22190107 MS.gene011711:intron 20.0%
!! TTAATATGAAGTGATTGTAT+TGG + chr8.3:22190087-22190106 MS.gene011711:intron 20.0%
!!! ATTGATTGTTATTTGCATTA+TGG + chr8.3:22189889-22189908 MS.gene011711:intron 20.0%
!!! TTCTGTTGAAATTTTCTTTA+AGG + chr8.3:22190042-22190061 MS.gene011711:intron 20.0%
!! GAATGTTTGGTTAATTGTTT+TGG + chr8.3:22189917-22189936 MS.gene011711:intron 25.0%
!! TTGTTTGAAGTAATTGTGTT+GGG + chr8.3:22190134-22190153 MS.gene011711:intron 25.0%
!! TTTGTTTGAAGTAATTGTGT+TGG + chr8.3:22190133-22190152 MS.gene011711:intron 25.0%
!!! TTGGTTGTTTCTGATAATTT+TGG + chr8.3:22190353-22190372 MS.gene011711:intron 25.0%
!!! TTGTTTTAAACAGTGAGATT+AGG + chr8.3:22190184-22190203 MS.gene011711:intron 25.0%
ATCAGTTTAGATGACAGATT+TGG + chr8.3:22190334-22190353 MS.gene011711:intron 30.0%
CATTATGGTGATTGAATGTT+TGG + chr8.3:22189904-22189923 MS.gene011711:intron 30.0%
GATGATTCAAAAACTCACCT+TGG - chr8.3:22189857-22189876 None:intergenic 35.0%
TGAAATTGCTCAAGACTTCA+AGG + chr8.3:22190266-22190285 MS.gene011711:CDS 35.0%
! ATATCTTGTTGGTCTGTTTG+AGG + chr8.3:22190447-22190466 MS.gene011711:CDS 35.0%
!! TGGTTGTTTCTGTTTCCTTT+AGG + chr8.3:22189937-22189956 MS.gene011711:intron 35.0%
TAATAGTAACTCGCTTGGCA+TGG - chr8.3:22190492-22190511 None:intergenic 40.0%
TTCTTAACTCCACCAGTAGT+GGG - chr8.3:22189980-22189999 None:intergenic 40.0%
TTTCTTAACTCCACCAGTAG+TGG - chr8.3:22189981-22190000 None:intergenic 40.0%
CAAACTGCTCGTAAGTCTAC+TGG + chr8.3:22189802-22189821 MS.gene011711:CDS 45.0%
CAATTTCACGAACCAACCTC+TGG - chr8.3:22190254-22190273 None:intergenic 45.0%
GCGAGTTACTATTATGCCCA+AGG + chr8.3:22190498-22190517 MS.gene011711:CDS 45.0%
GGGCATAATAGTAACTCGCT+TGG - chr8.3:22190497-22190516 None:intergenic 45.0%
TAGGAAGCAACTTGCAACCA+AGG + chr8.3:22189837-22189856 MS.gene011711:CDS 45.0%
TCGTAAGTCTACTGGTGGAA+AGG + chr8.3:22189810-22189829 MS.gene011711:CDS 45.0%
TTGGTTGCAAGTTGCTTCCT+AGG - chr8.3:22189838-22189857 None:intergenic 45.0%
! AGACTTACGAGCAGTTTGCT+TGG - chr8.3:22189800-22189819 None:intergenic 45.0%
!! AGAGTACTGAGCTCTTGATC+AGG + chr8.3:22190217-22190236 MS.gene011711:CDS 45.0%
ACTGCTCGTAAGTCTACTGG+TGG + chr8.3:22189805-22189824 MS.gene011711:CDS 50.0%
ATGCAAGCACAGCATGACTC+TGG - chr8.3:22190408-22190427 None:intergenic 50.0%
CAGACTTACGTGCAGCCTAA+AGG - chr8.3:22189955-22189974 None:intergenic 50.0%
CTTGCCAACTGGATGTCCTT+GGG - chr8.3:22190517-22190536 None:intergenic 50.0%
GCTGCTGAGGCATATCTTGT+TGG + chr8.3:22190436-22190455 MS.gene011711:CDS 50.0%
TATGCCCAAGGACATCCAGT+TGG + chr8.3:22190510-22190529 MS.gene011711:CDS 50.0%
TCACCGAAGAGCAACAGTTC+CGG - chr8.3:22190020-22190039 None:intergenic 50.0%
TGCTGTGCTTGCATTGCAAG+AGG + chr8.3:22190414-22190433 MS.gene011711:CDS 50.0%
TTCACGAACCAACCTCTGGA+AGG - chr8.3:22190250-22190269 None:intergenic 50.0%
! CAGCATGACTCTGGAAACGA+AGG - chr8.3:22190399-22190418 None:intergenic 50.0%
! TCACGAACCAACCTCTGGAA+GGG - chr8.3:22190249-22190268 None:intergenic 50.0%
AAACCACATCGTTACCGCCC+CGG + chr8.3:22189998-22190017 MS.gene011711:CDS 55.0%
AAGTCTGCTCCCACTACTGG+TGG + chr8.3:22189968-22189987 MS.gene011711:CDS 55.0%
ACCGAAGAGCAACAGTTCCG+GGG - chr8.3:22190018-22190037 None:intergenic 55.0%
AGGACATCCAGTTGGCAAGG+AGG + chr8.3:22190518-22190537 MS.gene011711:CDS 55.0%
CACCGAAGAGCAACAGTTCC+GGG - chr8.3:22190019-22190038 None:intergenic 55.0%
CCAAGGACATCCAGTTGGCA+AGG + chr8.3:22190515-22190534 MS.gene011711:CDS 55.0%
CCTTGCCAACTGGATGTCCT+TGG - chr8.3:22190518-22190537 None:intergenic 55.0%
CGTAAGTCTGCTCCCACTAC+TGG + chr8.3:22189965-22189984 MS.gene011711:CDS 55.0%
TGCATTGCAAGAGGCTGCTG+AGG + chr8.3:22190423-22190442 MS.gene011711:CDS 55.0%
! CACGAACCAACCTCTGGAAG+GGG - chr8.3:22190248-22190267 None:intergenic 55.0%
!! CTACTGGTGGAAAGGCACCT+AGG + chr8.3:22189818-22189837 MS.gene011711:CDS 55.0%
CACGGATCCTCCTTGCCAAC+TGG - chr8.3:22190528-22190547 None:intergenic 60.0%
CAGTTGGCAAGGAGGATCCG+TGG + chr8.3:22190526-22190545 MS.gene011711:CDS 60.0%
GAAGAGCAACAGTTCCGGGG+CGG - chr8.3:22190015-22190034 None:intergenic 60.0%
GAAGCTCCCCTTCCAGAGGT+TGG + chr8.3:22190239-22190258 MS.gene011711:CDS 60.0%
GCCCCGGAACTGTTGCTCTT+CGG + chr8.3:22190014-22190033 MS.gene011711:CDS 60.0%
TCAGGAAGCTCCCCTTCCAG+AGG + chr8.3:22190235-22190254 MS.gene011711:CDS 60.0%
GTTCCGGGGCGGTAACGATG+TGG - chr8.3:22190004-22190023 None:intergenic 65.0%


Chromosome Type Strat End Strand Name
chr8.3 gene 22189787 22190561 22189787 ID=MS.gene011711
chr8.3 mRNA 22189787 22190561 22189787 ID=MS.gene011711.t1;Parent=MS.gene011711
chr8.3 exon 22189787 22189858 22189787 ID=MS.gene011711.t1.exon1;Parent=MS.gene011711.t1
chr8.3 CDS 22189787 22189858 22189787 ID=cds.MS.gene011711.t1;Parent=MS.gene011711.t1
chr8.3 exon 22189959 22190035 22189959 ID=MS.gene011711.t1.exon2;Parent=MS.gene011711.t1
chr8.3 CDS 22189959 22190035 22189959 ID=cds.MS.gene011711.t1;Parent=MS.gene011711.t1
chr8.3 exon 22190197 22190287 22190197 ID=MS.gene011711.t1.exon3;Parent=MS.gene011711.t1
chr8.3 CDS 22190197 22190287 22190197 ID=cds.MS.gene011711.t1;Parent=MS.gene011711.t1
chr8.3 exon 22190391 22190561 22190391 ID=MS.gene011711.t1.exon4;Parent=MS.gene011711.t1
chr8.3 CDS 22190391 22190561 22190391 ID=cds.MS.gene011711.t1;Parent=MS.gene011711.t1
Gene Sequence

>MS.gene011711

ATGGCACGTACCAAGCAAACTGCTCGTAAGTCTACTGGTGGAAAGGCACCTAGGAAGCAACTTGCAACCAAGGTGAGTTTTTGAATCATCATATTCATAATCATTGATTGTTATTTGCATTATGGTGATTGAATGTTTGGTTAATTGTTTTGGTTGTTTCTGTTTCCTTTAGGCTGCACGTAAGTCTGCTCCCACTACTGGTGGAGTTAAGAAACCACATCGTTACCGCCCCGGAACTGTTGCTCTTCGGTGAGTTTCTGTTGAAATTTTCTTTAAGGTTATGATTTAGTATGCTCTGTTTTAATATGAAGTGATTGTATTGGGTTATGATTCAATGTGTTCTGTTTTTGTTTGAAGTAATTGTGTTGGGTTTTCTAATAGTTTGTTATATGAATTGTTGTTTTAAACAGTGAGATTAGGAAGTATCAGAAGAGTACTGAGCTCTTGATCAGGAAGCTCCCCTTCCAGAGGTTGGTTCGTGAAATTGCTCAAGACTTCAAGGTAATGTGCAGTTGCTGTTATGAGAACTTGTGCTTTTGTTTTCATAATCAGTTTAGATGACAGATTTGGTTGTTTCTGATAATTTTGGTTCTTGTTGTTGCAGACTGACCTTCGTTTCCAGAGTCATGCTGTGCTTGCATTGCAAGAGGCTGCTGAGGCATATCTTGTTGGTCTGTTTGAGGACACTAACTTGTGCGCTATCCATGCCAAGCGAGTTACTATTATGCCCAAGGACATCCAGTTGGCAAGGAGGATCCGTGGTGAGCGTGCTTAA

Protein sequence

>MS.gene011711.t1

MARTKQTARKSTGGKAPRKQLATKAARKSAPTTGGVKKPHRYRPGTVALREIRKYQKSTELLIRKLPFQRLVREIAQDFKTDLRFQSHAVLALQEAAEAYLVGLFEDTNLCAIHAKRVTIMPKDIQLARRIRGERA