AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene012753

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene012753.t1 MTR_4g133490 92.241 348 27 0 1 348 1 348 0.0 629
MS.gene012753.t1 MTR_4g133320 92.857 308 22 0 41 348 1 308 0.0 556
MS.gene012753.t1 MTR_3g006120 69.679 343 98 2 7 345 9 349 2.09e-172 483
MS.gene012753.t1 MTR_3g006100 67.816 348 108 2 2 346 4 350 4.24e-169 475
MS.gene012753.t1 MTR_3g006010 68.300 347 106 2 2 345 121 466 5.39e-169 479
MS.gene012753.t1 MTR_3g006140 65.230 348 119 1 2 347 26 373 3.03e-165 466
MS.gene012753.t1 MTR_3g006180 67.847 339 105 2 12 347 1 338 1.80e-164 462
MS.gene012753.t1 MTR_3g068220 61.798 356 121 5 2 346 4 355 8.31e-141 403
MS.gene012753.t1 MTR_6g091830 57.542 358 137 5 2 348 102 455 1.37e-138 401
MS.gene012753.t1 MTR_6g092140 57.263 358 138 5 2 348 102 455 2.60e-137 398
MS.gene012753.t1 MTR_7g070100 60.000 350 134 4 1 347 3 349 4.96e-133 383
MS.gene012753.t1 MTR_3g045700 58.120 351 139 5 2 348 4 350 1.90e-126 367
MS.gene012753.t1 MTR_7g083950 57.386 352 139 7 2 348 87 432 1.62e-121 357
MS.gene012753.t1 MTR_6g088340 55.556 315 125 5 45 348 123 433 4.34e-113 335
MS.gene012753.t1 MTR_6g011110 59.786 281 97 4 80 348 1 277 2.19e-107 315
MS.gene012753.t1 MTR_1g100280 52.809 356 126 7 2 347 13 336 4.08e-104 309
MS.gene012753.t1 MTR_3g085910 52.012 323 96 4 2 314 3 276 7.48e-103 304
MS.gene012753.t1 MTR_3g086480 59.144 257 97 5 87 340 2 253 2.52e-90 271
MS.gene012753.t1 MTR_1g109340 54.945 273 116 3 78 347 86 354 1.83e-88 270
MS.gene012753.t1 MTR_1g109520 56.962 158 62 1 196 347 19 176 1.65e-50 166
MS.gene012753.t1 MTR_1g089085 58.865 141 53 3 2 141 39 175 9.43e-45 151
MS.gene012753.t1 MTR_1g089620 61.111 126 46 1 177 302 34 156 5.91e-43 150
MS.gene012753.t1 MTR_1g012330 59.124 137 56 0 80 216 1 137 1.38e-42 148
MS.gene012753.t1 MTR_1g106050 65.741 108 35 1 1 106 1 108 1.77e-38 134
MS.gene012753.t1 MTR_1g109090 55.372 121 53 1 2 121 16 136 2.18e-36 129
MS.gene012753.t1 MTR_0128s0040 47.761 134 68 2 31 164 3 134 9.34e-32 116
MS.gene012753.t1 MTR_6g023220 25.581 344 245 7 7 345 18 355 2.10e-26 108
MS.gene012753.t1 MTR_6g091850 47.525 101 45 2 256 348 1 101 1.44e-25 99.0
MS.gene012753.t1 MTR_1g093300 53.061 98 46 0 174 271 1 98 3.21e-23 94.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 63 sgRNAs with CRISPR-Local

Find 75 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTGGCACTTTGCATATTC+TGG 0.140245 8.1:-624949 MS.gene012753:CDS
GTTTATCAATCTCGAAATTT+TGG 0.149964 8.1:-624721 MS.gene012753:CDS
ACCTTCTTTCTTCTCCTAAA+TGG 0.179169 8.1:+624868 None:intergenic
CAAAGATGATCAATTATTTC+TGG 0.210256 8.1:-624966 MS.gene012753:CDS
GATGTATTGGAGAGATTTCT+TGG 0.258709 8.1:-625079 MS.gene012753:CDS
TGTGGTTCATACCAAGTCTA+TGG 0.311544 8.1:-624491 MS.gene012753:CDS
TTTCAACTTGACATACTTCA+TGG 0.321469 8.1:+624435 None:intergenic
CAGGGAACTATCAACTTTCT+TGG 0.330236 8.1:-625191 MS.gene012753:CDS
GTCATCAAAGTCTAGAGATT+TGG 0.331846 8.1:+625149 None:intergenic
CTTTCATAACCCCACATGTT+CGG 0.334790 8.1:+624352 None:intergenic
TTTCATAACCCCACATGTTC+GGG 0.364907 8.1:+624353 None:intergenic
GAACGATAAACTTGTTGGTT+AGG 0.372838 8.1:+624988 None:intergenic
GGGCATTTCATAAGATGTAT+TGG 0.386928 8.1:-625092 MS.gene012753:CDS
TCTTTGAACGATAAACTTGT+TGG 0.391219 8.1:+624983 None:intergenic
TATGTCAAGTTGAAAACTTT+GGG 0.415747 8.1:-624427 MS.gene012753:CDS
TTGCTTGTGTGTGTAAGAAT+TGG 0.421391 8.1:-625116 MS.gene012753:CDS
CAAAATGCAAAGTGTATGTA+GGG 0.426712 8.1:-624297 MS.gene012753:CDS
ACAAGCTGCCAAAGTACATT+AGG 0.428568 8.1:-624267 MS.gene012753:CDS
CATTGCATTATTATATGCTC+CGG 0.435194 8.1:-624401 MS.gene012753:CDS
AGGGAACTATCAACTTTCTT+GGG 0.435308 8.1:-625190 MS.gene012753:CDS
AAAATTGACTTTAAAGGTTG+GGG 0.437076 8.1:+624837 None:intergenic
TAACTTCTTTGTCGCGCCTA+AGG 0.438182 8.1:-624540 MS.gene012753:CDS
TGGGTTACTTATTCAACAAT+GGG 0.440934 8.1:-624697 MS.gene012753:CDS
TTGGTTAGGTATGCTGATAA+AGG 0.451302 8.1:+625002 None:intergenic
ACAAAATGCAAAGTGTATGT+AGG 0.455850 8.1:-624298 MS.gene012753:CDS
AGTGGATATTTGATCATGAC+AGG 0.457131 8.1:-624919 MS.gene012753:CDS
AGCCACTAAGACAAAATCCT+TGG 0.472342 8.1:+624771 None:intergenic
TTCTTTGTCGCGCCTAAGGT+TGG 0.489388 8.1:-624536 MS.gene012753:CDS
GTATGTCAAGTTGAAAACTT+TGG 0.511075 8.1:-624428 MS.gene012753:CDS
GCATATTCTGGATCTTCTAG+TGG 0.514037 8.1:-624937 MS.gene012753:CDS
TTGGGTTACTTATTCAACAA+TGG 0.515244 8.1:-624698 MS.gene012753:CDS
CGTCACAACTAACCAACCTT+AGG 0.518704 8.1:+624524 None:intergenic
TCATGTGACCTAATGTACTT+TGG 0.520097 8.1:+624259 None:intergenic
ACAAAGTCAACAATCATCCA+TGG 0.526718 8.1:+624670 None:intergenic
GTCAACGACAAGGGCAACAT+AGG 0.530388 8.1:-624622 MS.gene012753:CDS
TCCATTTAGGAGAAGAAAGA+AGG 0.539421 8.1:-624869 MS.gene012753:CDS
CCACATGTTCGGGTTGCTCA+AGG 0.539860 8.1:+624363 None:intergenic
ACACACAAGCAAATTGAAAG+AGG 0.547191 8.1:+625127 None:intergenic
CTTGTGTGTGTAAGAATTGG+AGG 0.551053 8.1:-625113 MS.gene012753:CDS
TTCATACTACAAGACCCTAC+TGG 0.561934 8.1:-624231 MS.gene012753:CDS
CCTTGAGCAACCCGAACATG+TGG 0.567823 8.1:-624363 MS.gene012753:CDS
ATTGCATTATTATATGCTCC+GGG 0.570402 8.1:-624400 MS.gene012753:CDS
CAAGACCCTACTGGTTGGAC+TGG 0.573914 8.1:-624222 MS.gene012753:CDS
TACTACAAGACCCTACTGGT+TGG 0.586463 8.1:-624227 MS.gene012753:CDS
AAAAGACCAGTCCAACCAGT+AGG 0.594037 8.1:+624216 None:intergenic
TCAACGACAAGGGCAACATA+GGG 0.594974 8.1:-624621 MS.gene012753:CDS
ATTAAATGCCACCATAGACT+TGG 0.597479 8.1:+624480 None:intergenic
AAAGACCAGTCCAACCAGTA+GGG 0.607927 8.1:+624217 None:intergenic
CAAAGTCAACAATCATCCAT+GGG 0.622007 8.1:+624671 None:intergenic
CTTGAGCAACCCGAACATGT+GGG 0.625028 8.1:-624362 MS.gene012753:CDS
CGCGACAAAGAAGTTACGCT+AGG 0.633955 8.1:+624547 None:intergenic
ATTCAACAATGGGATACCCA+TGG 0.636286 8.1:-624687 MS.gene012753:CDS
TATATATGTTGTCAACGACA+AGG 0.653477 8.1:-624632 MS.gene012753:CDS
TGTCAAAAGCAAGCAAGACA+CGG 0.654737 8.1:+624800 None:intergenic
GAGATTTGGAAATGATATCG+AGG 0.657764 8.1:+625163 None:intergenic
TTGAGCAACCCGAACATGTG+GGG 0.659897 8.1:-624361 MS.gene012753:CDS
ATATATGTTGTCAACGACAA+GGG 0.666270 8.1:-624631 MS.gene012753:CDS
TTGTGTGTGTAAGAATTGGA+GGG 0.670781 8.1:-625112 MS.gene012753:CDS
GGTTCATACCAAGTCTATGG+TGG 0.672324 8.1:-624488 MS.gene012753:CDS
AAGGCATAGTAGTTTCCACC+CGG 0.674044 8.1:+624382 None:intergenic
AAAATGCAAAGTGTATGTAG+GGG 0.684341 8.1:-624296 MS.gene012753:CDS
GCATTATTATATGCTCCGGG+TGG 0.696983 8.1:-624397 MS.gene012753:CDS
GTGGATATTTGATCATGACA+GGG 0.707619 8.1:-624918 MS.gene012753:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAGAAAAATTGACTTTAA+AGG + chr8.1:624544-624563 None:intergenic 15.0%
!!! AAAAATTGACTTTAAAGGTT+GGG + chr8.1:624539-624558 None:intergenic 20.0%
! CAAAGATGATCAATTATTTC+TGG - chr8.1:624406-624425 MS.gene012753:CDS 25.0%
! GGAAAAAGATTTCTTGAAAA+AGG + chr8.1:624352-624371 None:intergenic 25.0%
!! AAAATTGACTTTAAAGGTTG+GGG + chr8.1:624538-624557 None:intergenic 25.0%
!! GAAAAATTGACTTTAAAGGT+TGG + chr8.1:624540-624559 None:intergenic 25.0%
!! GTTTATCAATCTCGAAATTT+TGG - chr8.1:624651-624670 MS.gene012753:CDS 25.0%
!! TTTTGCTAATGAATCCATTT+AGG - chr8.1:624490-624509 MS.gene012753:CDS 25.0%
!!! TATGTCAAGTTGAAAACTTT+GGG - chr8.1:624945-624964 MS.gene012753:CDS 25.0%
AAAATGCAAAGTGTATGTAG+GGG - chr8.1:625076-625095 MS.gene012753:CDS 30.0%
ACAAAATGCAAAGTGTATGT+AGG - chr8.1:625074-625093 MS.gene012753:CDS 30.0%
ATATATGTTGTCAACGACAA+GGG - chr8.1:624741-624760 MS.gene012753:CDS 30.0%
ATTGCATTATTATATGCTCC+GGG - chr8.1:624972-624991 MS.gene012753:CDS 30.0%
CAAAATGCAAAGTGTATGTA+GGG - chr8.1:625075-625094 MS.gene012753:CDS 30.0%
CATTGCATTATTATATGCTC+CGG - chr8.1:624971-624990 MS.gene012753:CDS 30.0%
TATATATGTTGTCAACGACA+AGG - chr8.1:624740-624759 MS.gene012753:CDS 30.0%
TCTTTGAACGATAAACTTGT+TGG + chr8.1:624392-624411 None:intergenic 30.0%
TGGGTTACTTATTCAACAAT+GGG - chr8.1:624675-624694 MS.gene012753:CDS 30.0%
TTGGGTTACTTATTCAACAA+TGG - chr8.1:624674-624693 MS.gene012753:CDS 30.0%
TTTCAACTTGACATACTTCA+TGG + chr8.1:624940-624959 None:intergenic 30.0%
! GAAGACTTTTGAACAAGTAA+TGG + chr8.1:624330-624349 None:intergenic 30.0%
!! ATCAATCTCGAAATTTTGGT+TGG - chr8.1:624655-624674 MS.gene012753:CDS 30.0%
!! GTATGTCAAGTTGAAAACTT+TGG - chr8.1:624944-624963 MS.gene012753:CDS 30.0%
!!! TCAATCTCGAAATTTTGGTT+GGG - chr8.1:624656-624675 MS.gene012753:CDS 30.0%
ACAAAGTCAACAATCATCCA+TGG + chr8.1:624705-624724 None:intergenic 35.0%
ACACACAAGCAAATTGAAAG+AGG + chr8.1:624248-624267 None:intergenic 35.0%
ACCTTCTTTCTTCTCCTAAA+TGG + chr8.1:624507-624526 None:intergenic 35.0%
AGGGAACTATCAACTTTCTT+GGG - chr8.1:624182-624201 MS.gene012753:CDS 35.0%
AGTGGATATTTGATCATGAC+AGG - chr8.1:624453-624472 MS.gene012753:CDS 35.0%
ATTAAATGCCACCATAGACT+TGG + chr8.1:624895-624914 None:intergenic 35.0%
CAAAGTCAACAATCATCCAT+GGG + chr8.1:624704-624723 None:intergenic 35.0%
GAGATTTGGAAATGATATCG+AGG + chr8.1:624212-624231 None:intergenic 35.0%
GATGTATTGGAGAGATTTCT+TGG - chr8.1:624293-624312 MS.gene012753:CDS 35.0%
GGGCATTTCATAAGATGTAT+TGG - chr8.1:624280-624299 MS.gene012753:CDS 35.0%
GTCATCAAAGTCTAGAGATT+TGG + chr8.1:624226-624245 None:intergenic 35.0%
GTGGATATTTGATCATGACA+GGG - chr8.1:624454-624473 MS.gene012753:CDS 35.0%
TCATGTGACCTAATGTACTT+TGG + chr8.1:625116-625135 None:intergenic 35.0%
TCCATTTAGGAGAAGAAAGA+AGG - chr8.1:624503-624522 MS.gene012753:CDS 35.0%
TTGCTTGTGTGTGTAAGAAT+TGG - chr8.1:624256-624275 MS.gene012753:CDS 35.0%
TTGGTTAGGTATGCTGATAA+AGG + chr8.1:624373-624392 None:intergenic 35.0%
TTGTGTGTGTAAGAATTGGA+GGG - chr8.1:624260-624279 MS.gene012753:CDS 35.0%
! TTGTGACGAACAACTTTTTG+TGG - chr8.1:624863-624882 MS.gene012753:CDS 35.0%
!! GAACGATAAACTTGTTGGTT+AGG + chr8.1:624387-624406 None:intergenic 35.0%
ACAAGCTGCCAAAGTACATT+AGG - chr8.1:625105-625124 MS.gene012753:CDS 40.0%
AGCCACTAAGACAAAATCCT+TGG + chr8.1:624604-624623 None:intergenic 40.0%
ATTCAACAATGGGATACCCA+TGG - chr8.1:624685-624704 MS.gene012753:CDS 40.0%
CAGGGAACTATCAACTTTCT+TGG - chr8.1:624181-624200 MS.gene012753:CDS 40.0%
CTTGTGTGTGTAAGAATTGG+AGG - chr8.1:624259-624278 MS.gene012753:CDS 40.0%
CTTTCATAACCCCACATGTT+CGG + chr8.1:625023-625042 None:intergenic 40.0%
GCATATTCTGGATCTTCTAG+TGG - chr8.1:624435-624454 MS.gene012753:CDS 40.0%
TGTCAAAAGCAAGCAAGACA+CGG + chr8.1:624575-624594 None:intergenic 40.0%
TGTGGTTCATACCAAGTCTA+TGG - chr8.1:624881-624900 MS.gene012753:CDS 40.0%
TTCATACTACAAGACCCTAC+TGG - chr8.1:625141-625160 MS.gene012753:CDS 40.0%
TTCTGGCACTTTGCATATTC+TGG - chr8.1:624423-624442 MS.gene012753:CDS 40.0%
TTTCATAACCCCACATGTTC+GGG + chr8.1:625022-625041 None:intergenic 40.0%
! CTCCAAGGATTTTGTCTTAG+TGG - chr8.1:624599-624618 MS.gene012753:CDS 40.0%
!! GTCTTGCTTGCTTTTGACAA+AGG - chr8.1:624576-624595 MS.gene012753:CDS 40.0%
AAAAGACCAGTCCAACCAGT+AGG + chr8.1:625159-625178 None:intergenic 45.0%
AAAGACCAGTCCAACCAGTA+GGG + chr8.1:625158-625177 None:intergenic 45.0%
AAGGCATAGTAGTTTCCACC+CGG + chr8.1:624993-625012 None:intergenic 45.0%
CGTCACAACTAACCAACCTT+AGG + chr8.1:624851-624870 None:intergenic 45.0%
GCATTATTATATGCTCCGGG+TGG - chr8.1:624975-624994 MS.gene012753:CDS 45.0%
GGTTCATACCAAGTCTATGG+TGG - chr8.1:624884-624903 MS.gene012753:CDS 45.0%
TAACTTCTTTGTCGCGCCTA+AGG - chr8.1:624832-624851 MS.gene012753:CDS 45.0%
TACTACAAGACCCTACTGGT+TGG - chr8.1:625145-625164 MS.gene012753:CDS 45.0%
TCAACGACAAGGGCAACATA+GGG - chr8.1:624751-624770 MS.gene012753:CDS 45.0%
! TGCTTTTGACAAAGGCTCCA+AGG - chr8.1:624584-624603 MS.gene012753:CDS 45.0%
CGCGACAAAGAAGTTACGCT+AGG + chr8.1:624828-624847 None:intergenic 50.0%
CTTGAGCAACCCGAACATGT+GGG - chr8.1:625010-625029 MS.gene012753:CDS 50.0%
GTCAACGACAAGGGCAACAT+AGG - chr8.1:624750-624769 MS.gene012753:CDS 50.0%
TTCTTTGTCGCGCCTAAGGT+TGG - chr8.1:624836-624855 MS.gene012753:CDS 50.0%
TTGAGCAACCCGAACATGTG+GGG - chr8.1:625011-625030 MS.gene012753:CDS 50.0%
CCTTGAGCAACCCGAACATG+TGG - chr8.1:625009-625028 MS.gene012753:CDS 55.0%
! CAAGACCCTACTGGTTGGAC+TGG - chr8.1:625150-625169 MS.gene012753:CDS 55.0%
!! CCACATGTTCGGGTTGCTCA+AGG + chr8.1:625012-625031 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.1 gene 624174 625220 624174 ID=MS.gene012753
chr8.1 mRNA 624174 625220 624174 ID=MS.gene012753.t1;Parent=MS.gene012753
chr8.1 exon 624174 625220 624174 ID=MS.gene012753.t1.exon1;Parent=MS.gene012753.t1
chr8.1 CDS 624174 625220 624174 ID=cds.MS.gene012753.t1;Parent=MS.gene012753.t1
Gene Sequence

>MS.gene012753

ATGGTAGCAGGGAACTATCAACTTTCTTGGGATGTCCTCGATATCATTTCCAAATCTCTAGACTTTGATGACCTCTTTCAATTTGCTTGTGTGTGTAAGAATTGGAGGGCATTTCATAAGATGTATTGGAGAGATTTCTTGGCATTACAAGAACCATTACTTGTTCAAAAGTCTTCCTTTTTCAAGAAATCTTTTTCCTTTATCAGCATACCTAACCAACAAGTTTATCGTTCAAAGATGATCAATTATTTCTGGCACTTTGCATATTCTGGATCTTCTAGTGGATATTTGATCATGACAGGGAACAATAATTCATTTTTGCTAATGAATCCATTTAGGAGAAGAAAGAAGGTAATCAATGCCCCAACCTTTAAAGTCAATTTTTCTTATTTTGCTTACCGTGTCTTGCTTGCTTTTGACAAAGGCTCCAAGGATTTTGTCTTAGTGGCTTTATGTAAAAGTTCTAATAGTTTGCATGTTTATCAATCTCGAAATTTTGGTTGGGTTACTTATTCAACAATGGGATACCCATGGATGATTGTTGACTTTGTTGTTTTGCATAACACTATATATGTTGTCAACGACAAGGGCAACATAGGGATACTCAACTTAAATTATGTGAATATAAAATTTTTAGAAATGAAGAGTATTCCTAGCGTAACTTCTTTGTCGCGCCTAAGGTTGGTTAGTTGTGACGAACAACTTTTTGTGGTTCATACCAAGTCTATGGTGGCATTTAATGTGTACAAGATTGACTTCTCAACCATGAAGTATGTCAAGTTGAAAACTTTGGGTGACATTGCATTATTATATGCTCCGGGTGGAAACTACTATGCCTTGAGCAACCCGAACATGTGGGGTTATGAAAGCAACTCTGTGTATGTTATCGATCATTCGTCTACAAAATGCAAAGTGTATGTAGGGGATGACAACAAGCTGCCAAAGTACATTAGGTCACATGATGATCTTCATACTACAAGACCCTACTGGTTGGACTGGTCTTTTAGACATTTTCACTACGAGATAGATTATTCTCTAGTTGACTAA
Protein sequence

>MS.gene012753.t1

MVAGNYQLSWDVLDIISKSLDFDDLFQFACVCKNWRAFHKMYWRDFLALQEPLLVQKSSFFKKSFSFISIPNQQVYRSKMINYFWHFAYSGSSSGYLIMTGNNNSFLLMNPFRRRKKVINAPTFKVNFSYFAYRVLLAFDKGSKDFVLVALCKSSNSLHVYQSRNFGWVTYSTMGYPWMIVDFVVLHNTIYVVNDKGNIGILNLNYVNIKFLEMKSIPSVTSLSRLRLVSCDEQLFVVHTKSMVAFNVYKIDFSTMKYVKLKTLGDIALLYAPGGNYYALSNPNMWGYESNSVYVIDHSSTKCKVYVGDDNKLPKYIRSHDDLHTTRPYWLDWSFRHFHYEIDYSLVD