AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene95088

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene95088.t1 MTR_4g133490 91.954 348 28 0 1 348 1 348 0.0 628
MS.gene95088.t1 MTR_4g133320 92.532 308 23 0 41 348 1 308 0.0 555
MS.gene95088.t1 MTR_3g006120 69.971 343 97 2 7 345 9 349 6.06e-173 484
MS.gene95088.t1 MTR_3g006100 68.103 348 107 2 2 346 4 350 8.49e-170 476
MS.gene95088.t1 MTR_3g006010 68.588 347 105 2 2 345 121 466 1.09e-169 481
MS.gene95088.t1 MTR_3g006140 65.517 348 118 1 2 347 26 373 6.41e-166 468
MS.gene95088.t1 MTR_3g006180 68.142 339 104 2 12 347 1 338 3.72e-165 464
MS.gene95088.t1 MTR_3g068220 62.079 356 120 5 2 346 4 355 1.78e-141 405
MS.gene95088.t1 MTR_6g091830 57.821 358 136 5 2 348 102 455 2.32e-139 403
MS.gene95088.t1 MTR_6g092140 57.542 358 137 5 2 348 102 455 5.02e-138 400
MS.gene95088.t1 MTR_7g070100 60.286 350 133 4 1 347 3 349 1.03e-133 385
MS.gene95088.t1 MTR_3g045700 58.405 351 138 5 2 348 4 350 4.21e-127 368
MS.gene95088.t1 MTR_7g083950 57.102 352 140 7 2 348 87 432 5.61e-121 355
MS.gene95088.t1 MTR_6g088340 55.873 315 124 5 45 348 123 433 7.80e-114 337
MS.gene95088.t1 MTR_6g011110 59.431 281 98 4 80 348 1 277 8.17e-107 314
MS.gene95088.t1 MTR_1g100280 52.528 356 127 7 2 347 13 336 1.43e-103 308
MS.gene95088.t1 MTR_3g085910 52.322 323 95 4 2 314 3 276 1.44e-103 306
MS.gene95088.t1 MTR_3g086480 58.755 257 98 5 87 340 2 253 8.44e-90 270
MS.gene95088.t1 MTR_1g109340 55.311 273 115 3 78 347 86 354 4.29e-89 271
MS.gene95088.t1 MTR_1g109520 57.595 158 61 1 196 347 19 176 3.37e-51 168
MS.gene95088.t1 MTR_1g089085 58.865 141 53 3 2 141 39 175 9.95e-45 151
MS.gene95088.t1 MTR_1g089620 61.905 126 45 1 177 302 34 156 1.45e-43 152
MS.gene95088.t1 MTR_1g012330 59.124 137 56 0 80 216 1 137 1.43e-42 148
MS.gene95088.t1 MTR_1g106050 65.741 108 35 1 1 106 1 108 1.66e-38 134
MS.gene95088.t1 MTR_1g109090 55.372 121 53 1 2 121 16 136 2.28e-36 129
MS.gene95088.t1 MTR_0128s0040 47.761 134 68 2 31 164 3 134 9.44e-32 116
MS.gene95088.t1 MTR_6g091850 48.515 101 44 2 256 348 1 101 1.27e-26 102
MS.gene95088.t1 MTR_6g023220 25.581 344 245 7 7 345 18 355 2.16e-26 108
MS.gene95088.t1 MTR_1g093300 52.041 98 47 0 174 271 1 98 1.08e-22 92.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 64 sgRNAs with CRISPR-Local

Find 76 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTGGCACTTTGCATATTC+TGG 0.140245 8.2:-633932 MS.gene95088:CDS
GTTTATCAATCTCGAAATTT+TGG 0.149964 8.2:-633704 MS.gene95088:CDS
ACCTTCTTTCTTCTCCTAAA+TGG 0.179169 8.2:+633851 None:intergenic
CAAAGATGATCAATTATTTC+TGG 0.210256 8.2:-633949 MS.gene95088:CDS
GATGTATTGGAGAGATTTCT+TGG 0.258709 8.2:-634062 MS.gene95088:CDS
TGTGGTTCATACCAAGTCTA+TGG 0.311544 8.2:-633474 MS.gene95088:CDS
CAGGGAACTATCAACTTTCT+TGG 0.330236 8.2:-634174 MS.gene95088:CDS
GTCATCAAAGTCTAGAGATT+TGG 0.331846 8.2:+634132 None:intergenic
CTTTCATAACCCCACATGTT+CGG 0.334790 8.2:+633335 None:intergenic
TTCCAACTTGACATACTTCA+TGG 0.336973 8.2:+633418 None:intergenic
TTTCATAACCCCACATGTTC+GGG 0.364907 8.2:+633336 None:intergenic
GAACGATAAACTTGTTGGTT+AGG 0.372838 8.2:+633971 None:intergenic
GGGCATTTCATAAGATGTAT+TGG 0.386928 8.2:-634075 MS.gene95088:CDS
TCTTTGAACGATAAACTTGT+TGG 0.391219 8.2:+633966 None:intergenic
TTGCTTGTGTGTGTAAGAAT+TGG 0.421391 8.2:-634099 MS.gene95088:CDS
CAAAATGCAAAGTGTATGTA+GGG 0.426712 8.2:-633280 MS.gene95088:CDS
ACAAGCTGCCAAAGTACATT+AGG 0.428568 8.2:-633250 MS.gene95088:CDS
CATTGCATTATTATATGCTC+CGG 0.435194 8.2:-633384 MS.gene95088:CDS
AGGGAACTATCAACTTTCTT+GGG 0.435308 8.2:-634173 MS.gene95088:CDS
AAAATTGACTTTAAAGGTTG+GGG 0.437076 8.2:+633820 None:intergenic
TAACTTCTTTGTCGCGCCTA+AGG 0.438182 8.2:-633523 MS.gene95088:CDS
TGGGTTACTTATTCAACAAT+GGG 0.440934 8.2:-633680 MS.gene95088:CDS
TTGGTTAGGTATGCTGATAA+AGG 0.451302 8.2:+633985 None:intergenic
TATGTCAAGTTGGAAACTTT+GGG 0.454406 8.2:-633410 MS.gene95088:CDS
ACAAAATGCAAAGTGTATGT+AGG 0.455850 8.2:-633281 MS.gene95088:CDS
AGTGGATATTTGATCATGAC+AGG 0.457131 8.2:-633902 MS.gene95088:CDS
GTATGTCAAGTTGGAAACTT+TGG 0.467792 8.2:-633411 MS.gene95088:CDS
AGCCACTAAGACAAAATCCT+TGG 0.472342 8.2:+633754 None:intergenic
TTCTTTGTCGCGCCTAAGGT+TGG 0.489388 8.2:-633519 MS.gene95088:CDS
GCATATTCTGGATCTTCTAG+TGG 0.514037 8.2:-633920 MS.gene95088:CDS
TTGGGTTACTTATTCAACAA+TGG 0.515244 8.2:-633681 MS.gene95088:CDS
CGTCACAACTAACCAACCTT+AGG 0.518704 8.2:+633507 None:intergenic
TCATGTGACCTAATGTACTT+TGG 0.520097 8.2:+633242 None:intergenic
AACCATGAAGTATGTCAAGT+TGG 0.523678 8.2:-633420 MS.gene95088:CDS
ACAAAGTCAACAATCATCCA+TGG 0.526718 8.2:+633653 None:intergenic
GTCAACGACAAGGGCAACAT+AGG 0.530388 8.2:-633605 MS.gene95088:CDS
TCCATTTAGGAGAAGAAAGA+AGG 0.539421 8.2:-633852 MS.gene95088:CDS
CCACATGTTCGGGTTGCTCA+AGG 0.539860 8.2:+633346 None:intergenic
ACACACAAGCAAATTGAAAG+AGG 0.547191 8.2:+634110 None:intergenic
CTTGTGTGTGTAAGAATTGG+AGG 0.551053 8.2:-634096 MS.gene95088:CDS
TTCATACTACAAGACCCTAC+TGG 0.561934 8.2:-633214 MS.gene95088:CDS
CCTTGAGCAACCCGAACATG+TGG 0.567823 8.2:-633346 MS.gene95088:CDS
ATTGCATTATTATATGCTCC+GGG 0.570402 8.2:-633383 MS.gene95088:CDS
CAAGACCCTACTGGTTGGAC+TGG 0.573914 8.2:-633205 MS.gene95088:CDS
TACTACAAGACCCTACTGGT+TGG 0.586463 8.2:-633210 MS.gene95088:CDS
AAAAGACCAGTCCAACCAGT+AGG 0.594037 8.2:+633199 None:intergenic
TCAACGACAAGGGCAACATA+GGG 0.594974 8.2:-633604 MS.gene95088:CDS
ATTAAATGCCACCATAGACT+TGG 0.597479 8.2:+633463 None:intergenic
AAAGACCAGTCCAACCAGTA+GGG 0.607927 8.2:+633200 None:intergenic
CAAAGTCAACAATCATCCAT+GGG 0.622007 8.2:+633654 None:intergenic
CTTGAGCAACCCGAACATGT+GGG 0.625028 8.2:-633345 MS.gene95088:CDS
CGCGACAAAGAAGTTACGCT+AGG 0.633955 8.2:+633530 None:intergenic
ATTCAACAATGGGATACCCA+TGG 0.636286 8.2:-633670 MS.gene95088:CDS
TATATATGTTGTCAACGACA+AGG 0.653477 8.2:-633615 MS.gene95088:CDS
TGTCAAAAGCAAGCAAGACA+CGG 0.654737 8.2:+633783 None:intergenic
GAGATTTGGAAATGATATCG+AGG 0.657764 8.2:+634146 None:intergenic
TTGAGCAACCCGAACATGTG+GGG 0.659897 8.2:-633344 MS.gene95088:CDS
ATATATGTTGTCAACGACAA+GGG 0.666270 8.2:-633614 MS.gene95088:CDS
TTGTGTGTGTAAGAATTGGA+GGG 0.670781 8.2:-634095 MS.gene95088:CDS
GGTTCATACCAAGTCTATGG+TGG 0.672324 8.2:-633471 MS.gene95088:CDS
AAGGCATAGTAGTTTCCACC+CGG 0.674044 8.2:+633365 None:intergenic
AAAATGCAAAGTGTATGTAG+GGG 0.684341 8.2:-633279 MS.gene95088:CDS
GCATTATTATATGCTCCGGG+TGG 0.696983 8.2:-633380 MS.gene95088:CDS
GTGGATATTTGATCATGACA+GGG 0.707619 8.2:-633901 MS.gene95088:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAGAAAAATTGACTTTAA+AGG + chr8.2:633527-633546 None:intergenic 15.0%
!!! AAAAATTGACTTTAAAGGTT+GGG + chr8.2:633522-633541 None:intergenic 20.0%
! CAAAGATGATCAATTATTTC+TGG - chr8.2:633389-633408 MS.gene95088:CDS 25.0%
! GGAAAAAGATTTCTTGAAAA+AGG + chr8.2:633335-633354 None:intergenic 25.0%
!! AAAATTGACTTTAAAGGTTG+GGG + chr8.2:633521-633540 None:intergenic 25.0%
!! GAAAAATTGACTTTAAAGGT+TGG + chr8.2:633523-633542 None:intergenic 25.0%
!! GTTTATCAATCTCGAAATTT+TGG - chr8.2:633634-633653 MS.gene95088:CDS 25.0%
!! TTTTGCTAATGAATCCATTT+AGG - chr8.2:633473-633492 MS.gene95088:CDS 25.0%
AAAATGCAAAGTGTATGTAG+GGG - chr8.2:634059-634078 MS.gene95088:CDS 30.0%
ACAAAATGCAAAGTGTATGT+AGG - chr8.2:634057-634076 MS.gene95088:CDS 30.0%
ATATATGTTGTCAACGACAA+GGG - chr8.2:633724-633743 MS.gene95088:CDS 30.0%
ATTGCATTATTATATGCTCC+GGG - chr8.2:633955-633974 MS.gene95088:CDS 30.0%
CAAAATGCAAAGTGTATGTA+GGG - chr8.2:634058-634077 MS.gene95088:CDS 30.0%
CATTGCATTATTATATGCTC+CGG - chr8.2:633954-633973 MS.gene95088:CDS 30.0%
TATATATGTTGTCAACGACA+AGG - chr8.2:633723-633742 MS.gene95088:CDS 30.0%
TCTTTGAACGATAAACTTGT+TGG + chr8.2:633375-633394 None:intergenic 30.0%
TGGGTTACTTATTCAACAAT+GGG - chr8.2:633658-633677 MS.gene95088:CDS 30.0%
TTGGGTTACTTATTCAACAA+TGG - chr8.2:633657-633676 MS.gene95088:CDS 30.0%
! GAAGACTTTTGAACAAGTAA+TGG + chr8.2:633313-633332 None:intergenic 30.0%
!! ATCAATCTCGAAATTTTGGT+TGG - chr8.2:633638-633657 MS.gene95088:CDS 30.0%
!! TATGTCAAGTTGGAAACTTT+GGG - chr8.2:633928-633947 MS.gene95088:CDS 30.0%
!!! TCAATCTCGAAATTTTGGTT+GGG - chr8.2:633639-633658 MS.gene95088:CDS 30.0%
AACCATGAAGTATGTCAAGT+TGG - chr8.2:633918-633937 MS.gene95088:CDS 35.0%
ACAAAGTCAACAATCATCCA+TGG + chr8.2:633688-633707 None:intergenic 35.0%
ACACACAAGCAAATTGAAAG+AGG + chr8.2:633231-633250 None:intergenic 35.0%
ACCTTCTTTCTTCTCCTAAA+TGG + chr8.2:633490-633509 None:intergenic 35.0%
AGGGAACTATCAACTTTCTT+GGG - chr8.2:633165-633184 MS.gene95088:CDS 35.0%
AGTGGATATTTGATCATGAC+AGG - chr8.2:633436-633455 MS.gene95088:CDS 35.0%
ATTAAATGCCACCATAGACT+TGG + chr8.2:633878-633897 None:intergenic 35.0%
CAAAGTCAACAATCATCCAT+GGG + chr8.2:633687-633706 None:intergenic 35.0%
GAGATTTGGAAATGATATCG+AGG + chr8.2:633195-633214 None:intergenic 35.0%
GATGTATTGGAGAGATTTCT+TGG - chr8.2:633276-633295 MS.gene95088:CDS 35.0%
GGGCATTTCATAAGATGTAT+TGG - chr8.2:633263-633282 MS.gene95088:CDS 35.0%
GTCATCAAAGTCTAGAGATT+TGG + chr8.2:633209-633228 None:intergenic 35.0%
GTGGATATTTGATCATGACA+GGG - chr8.2:633437-633456 MS.gene95088:CDS 35.0%
TCATGTGACCTAATGTACTT+TGG + chr8.2:634099-634118 None:intergenic 35.0%
TCCATTTAGGAGAAGAAAGA+AGG - chr8.2:633486-633505 MS.gene95088:CDS 35.0%
TTCCAACTTGACATACTTCA+TGG + chr8.2:633923-633942 None:intergenic 35.0%
TTGCTTGTGTGTGTAAGAAT+TGG - chr8.2:633239-633258 MS.gene95088:CDS 35.0%
TTGGTTAGGTATGCTGATAA+AGG + chr8.2:633356-633375 None:intergenic 35.0%
TTGTGTGTGTAAGAATTGGA+GGG - chr8.2:633243-633262 MS.gene95088:CDS 35.0%
! TTGTGACGAACAACTTTTTG+TGG - chr8.2:633846-633865 MS.gene95088:CDS 35.0%
!! GAACGATAAACTTGTTGGTT+AGG + chr8.2:633370-633389 None:intergenic 35.0%
!! GTATGTCAAGTTGGAAACTT+TGG - chr8.2:633927-633946 MS.gene95088:CDS 35.0%
ACAAGCTGCCAAAGTACATT+AGG - chr8.2:634088-634107 MS.gene95088:CDS 40.0%
AGCCACTAAGACAAAATCCT+TGG + chr8.2:633587-633606 None:intergenic 40.0%
ATTCAACAATGGGATACCCA+TGG - chr8.2:633668-633687 MS.gene95088:CDS 40.0%
CAGGGAACTATCAACTTTCT+TGG - chr8.2:633164-633183 MS.gene95088:CDS 40.0%
CTTGTGTGTGTAAGAATTGG+AGG - chr8.2:633242-633261 MS.gene95088:CDS 40.0%
CTTTCATAACCCCACATGTT+CGG + chr8.2:634006-634025 None:intergenic 40.0%
GCATATTCTGGATCTTCTAG+TGG - chr8.2:633418-633437 MS.gene95088:CDS 40.0%
TGTCAAAAGCAAGCAAGACA+CGG + chr8.2:633558-633577 None:intergenic 40.0%
TGTGGTTCATACCAAGTCTA+TGG - chr8.2:633864-633883 MS.gene95088:CDS 40.0%
TTCATACTACAAGACCCTAC+TGG - chr8.2:634124-634143 MS.gene95088:CDS 40.0%
TTCTGGCACTTTGCATATTC+TGG - chr8.2:633406-633425 MS.gene95088:CDS 40.0%
TTTCATAACCCCACATGTTC+GGG + chr8.2:634005-634024 None:intergenic 40.0%
! CTCCAAGGATTTTGTCTTAG+TGG - chr8.2:633582-633601 MS.gene95088:CDS 40.0%
!! GTCTTGCTTGCTTTTGACAA+AGG - chr8.2:633559-633578 MS.gene95088:CDS 40.0%
AAAAGACCAGTCCAACCAGT+AGG + chr8.2:634142-634161 None:intergenic 45.0%
AAAGACCAGTCCAACCAGTA+GGG + chr8.2:634141-634160 None:intergenic 45.0%
AAGGCATAGTAGTTTCCACC+CGG + chr8.2:633976-633995 None:intergenic 45.0%
CGTCACAACTAACCAACCTT+AGG + chr8.2:633834-633853 None:intergenic 45.0%
GCATTATTATATGCTCCGGG+TGG - chr8.2:633958-633977 MS.gene95088:CDS 45.0%
GGTTCATACCAAGTCTATGG+TGG - chr8.2:633867-633886 MS.gene95088:CDS 45.0%
TAACTTCTTTGTCGCGCCTA+AGG - chr8.2:633815-633834 MS.gene95088:CDS 45.0%
TACTACAAGACCCTACTGGT+TGG - chr8.2:634128-634147 MS.gene95088:CDS 45.0%
TCAACGACAAGGGCAACATA+GGG - chr8.2:633734-633753 MS.gene95088:CDS 45.0%
! TGCTTTTGACAAAGGCTCCA+AGG - chr8.2:633567-633586 MS.gene95088:CDS 45.0%
CGCGACAAAGAAGTTACGCT+AGG + chr8.2:633811-633830 None:intergenic 50.0%
CTTGAGCAACCCGAACATGT+GGG - chr8.2:633993-634012 MS.gene95088:CDS 50.0%
GTCAACGACAAGGGCAACAT+AGG - chr8.2:633733-633752 MS.gene95088:CDS 50.0%
TTCTTTGTCGCGCCTAAGGT+TGG - chr8.2:633819-633838 MS.gene95088:CDS 50.0%
TTGAGCAACCCGAACATGTG+GGG - chr8.2:633994-634013 MS.gene95088:CDS 50.0%
CCTTGAGCAACCCGAACATG+TGG - chr8.2:633992-634011 MS.gene95088:CDS 55.0%
! CAAGACCCTACTGGTTGGAC+TGG - chr8.2:634133-634152 MS.gene95088:CDS 55.0%
!! CCACATGTTCGGGTTGCTCA+AGG + chr8.2:633995-634014 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 633157 634203 633157 ID=MS.gene95088
chr8.2 mRNA 633157 634203 633157 ID=MS.gene95088.t1;Parent=MS.gene95088
chr8.2 exon 633157 634203 633157 ID=MS.gene95088.t1.exon1;Parent=MS.gene95088.t1
chr8.2 CDS 633157 634203 633157 ID=cds.MS.gene95088.t1;Parent=MS.gene95088.t1
Gene Sequence

>MS.gene95088

ATGGTAGCAGGGAACTATCAACTTTCTTGGGATGTCCTCGATATCATTTCCAAATCTCTAGACTTTGATGACCTCTTTCAATTTGCTTGTGTGTGTAAGAATTGGAGGGCATTTCATAAGATGTATTGGAGAGATTTCTTGGCATTACAAGAACCATTACTTGTTCAAAAGTCTTCCTTTTTCAAGAAATCTTTTTCCTTTATCAGCATACCTAACCAACAAGTTTATCGTTCAAAGATGATCAATTATTTCTGGCACTTTGCATATTCTGGATCTTCTAGTGGATATTTGATCATGACAGGGAACAATAATTCATTTTTGCTAATGAATCCATTTAGGAGAAGAAAGAAGGTAATCAATGCCCCAACCTTTAAAGTCAATTTTTCTTATTTTGCTTACCGTGTCTTGCTTGCTTTTGACAAAGGCTCCAAGGATTTTGTCTTAGTGGCTTTATGTAAAAGTTCTAATAGTTTGCATGTTTATCAATCTCGAAATTTTGGTTGGGTTACTTATTCAACAATGGGATACCCATGGATGATTGTTGACTTTGTTGTTTTGCATAACACTATATATGTTGTCAACGACAAGGGCAACATAGGGATACTCAACTTAAATTATGTGAATATAAAATTTTTAGAAATGAAGAGTATTCCTAGCGTAACTTCTTTGTCGCGCCTAAGGTTGGTTAGTTGTGACGAACAACTTTTTGTGGTTCATACCAAGTCTATGGTGGCATTTAATGTGTACAAGATTGACTTCTCAACCATGAAGTATGTCAAGTTGGAAACTTTGGGTGACATTGCATTATTATATGCTCCGGGTGGAAACTACTATGCCTTGAGCAACCCGAACATGTGGGGTTATGAAAGCAACTCTGTGTATGTTATCGATCATTCGTCTACAAAATGCAAAGTGTATGTAGGGGATGACAACAAGCTGCCAAAGTACATTAGGTCACATGATGATCTTCATACTACAAGACCCTACTGGTTGGACTGGTCTTTTAGACATTTTCACTACGAGATAGATTATTCTCTAGTTGACTAA
Protein sequence

>MS.gene95088.t1

MVAGNYQLSWDVLDIISKSLDFDDLFQFACVCKNWRAFHKMYWRDFLALQEPLLVQKSSFFKKSFSFISIPNQQVYRSKMINYFWHFAYSGSSSGYLIMTGNNNSFLLMNPFRRRKKVINAPTFKVNFSYFAYRVLLAFDKGSKDFVLVALCKSSNSLHVYQSRNFGWVTYSTMGYPWMIVDFVVLHNTIYVVNDKGNIGILNLNYVNIKFLEMKSIPSVTSLSRLRLVSCDEQLFVVHTKSMVAFNVYKIDFSTMKYVKLETLGDIALLYAPGGNYYALSNPNMWGYESNSVYVIDHSSTKCKVYVGDDNKLPKYIRSHDDLHTTRPYWLDWSFRHFHYEIDYSLVD