AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene43440

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene43440.t1 MTR_4g133490 91.954 348 28 0 1 348 1 348 0.0 628
MS.gene43440.t1 MTR_4g133320 92.532 308 23 0 41 348 1 308 0.0 555
MS.gene43440.t1 MTR_3g006120 69.971 343 97 2 7 345 9 349 7.71e-173 484
MS.gene43440.t1 MTR_3g006100 68.103 348 107 2 2 346 4 350 1.12e-169 476
MS.gene43440.t1 MTR_3g006010 68.588 347 105 2 2 345 121 466 2.48e-169 480
MS.gene43440.t1 MTR_3g006140 65.517 348 118 1 2 347 26 373 1.16e-165 467
MS.gene43440.t1 MTR_3g006180 68.142 339 104 2 12 347 1 338 6.57e-165 464
MS.gene43440.t1 MTR_3g068220 61.517 356 122 5 2 346 4 355 3.59e-140 402
MS.gene43440.t1 MTR_6g091830 57.542 358 137 5 2 348 102 455 1.60e-138 401
MS.gene43440.t1 MTR_6g092140 57.263 358 138 5 2 348 102 455 2.93e-137 398
MS.gene43440.t1 MTR_7g070100 60.000 350 134 4 1 347 3 349 3.07e-133 384
MS.gene43440.t1 MTR_3g045700 57.835 351 140 5 2 348 4 350 4.91e-126 365
MS.gene43440.t1 MTR_7g083950 57.102 352 140 7 2 348 87 432 4.09e-121 356
MS.gene43440.t1 MTR_6g088340 55.556 315 125 5 45 348 123 433 4.79e-113 335
MS.gene43440.t1 MTR_6g011110 59.431 281 98 4 80 348 1 277 8.00e-107 314
MS.gene43440.t1 MTR_1g100280 52.809 356 126 7 2 347 13 336 3.39e-104 310
MS.gene43440.t1 MTR_3g085910 52.012 323 96 4 2 314 3 276 4.24e-103 304
MS.gene43440.t1 MTR_3g086480 58.755 257 98 5 87 340 2 253 5.46e-90 270
MS.gene43440.t1 MTR_1g109340 54.579 273 117 3 78 347 86 354 6.58e-88 268
MS.gene43440.t1 MTR_1g109520 56.962 158 62 1 196 347 19 176 1.12e-50 167
MS.gene43440.t1 MTR_1g089085 58.865 141 53 3 2 141 39 175 1.03e-44 151
MS.gene43440.t1 MTR_1g012330 59.124 137 56 0 80 216 1 137 1.38e-42 148
MS.gene43440.t1 MTR_1g089620 60.317 126 47 1 177 302 34 156 1.67e-42 149
MS.gene43440.t1 MTR_1g106050 65.741 108 35 1 1 106 1 108 1.66e-38 134
MS.gene43440.t1 MTR_1g109090 55.372 121 53 1 2 121 16 136 1.98e-36 129
MS.gene43440.t1 MTR_0128s0040 47.761 134 68 2 31 164 3 134 9.14e-32 116
MS.gene43440.t1 MTR_6g023220 25.291 344 246 7 7 345 18 355 6.24e-26 107
MS.gene43440.t1 MTR_6g091850 47.525 101 45 2 256 348 1 101 2.03e-25 98.6
MS.gene43440.t1 MTR_1g093300 53.061 98 46 0 174 271 1 98 3.49e-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 8.4:-652932 MS.gene43440:CDS
GTTTATCAATCTCGAAATTT+TGG 0.149964 8.4:-652704 MS.gene43440:CDS
ACCTTCTTTCTTCTCCTAAA+TGG 0.179169 8.4:+652851 None:intergenic
CAAAGATGATCAATTATTTC+TGG 0.210256 8.4:-652949 MS.gene43440:CDS
GATGTATTGGAGAGATTTCT+TGG 0.258709 8.4:-653062 MS.gene43440:CDS
TGTGGTTCATACCAAGTCTA+TGG 0.311544 8.4:-652474 MS.gene43440:CDS
TTTCAACTTGACATACTTCA+TGG 0.321469 8.4:+652418 None:intergenic
CAGGGAACTATCAACTTTCT+TGG 0.330236 8.4:-653174 MS.gene43440:CDS
GTCATCAAAGTCTAGAGATT+TGG 0.331846 8.4:+653132 None:intergenic
CTTTCATAACCCCACATGTT+CGG 0.334790 8.4:+652335 None:intergenic
TTTCATAACCCCACATGTTC+GGG 0.364907 8.4:+652336 None:intergenic
GAACGATAAACTTGTTGGTT+AGG 0.372838 8.4:+652971 None:intergenic
GGGCATTTCATAAGATGTAT+TGG 0.386928 8.4:-653075 MS.gene43440:CDS
TCTTTGAACGATAAACTTGT+TGG 0.391219 8.4:+652966 None:intergenic
TATGTCAAGTTGAAAACTTT+GGG 0.415747 8.4:-652410 MS.gene43440:CDS
TTGCTTGTGTGTGTAAGAAT+TGG 0.421391 8.4:-653099 MS.gene43440:CDS
CAAAATGCAAAGTGTATGTA+GGG 0.426712 8.4:-652280 MS.gene43440:CDS
ACAAGCTGCCAAAGTACATT+AGG 0.428568 8.4:-652250 MS.gene43440:CDS
CATTGCATTATTATATGCTC+CGG 0.435194 8.4:-652384 MS.gene43440:CDS
AGGGAACTATCAACTTTCTT+GGG 0.435308 8.4:-653173 MS.gene43440:CDS
AAAATTGACTTTAAAGGTTG+GGG 0.437076 8.4:+652820 None:intergenic
TAACTTCTTTGTCGCGCCTA+AGG 0.438182 8.4:-652523 MS.gene43440:CDS
TGGGTTACTTATTCAACAAT+GGG 0.440934 8.4:-652680 MS.gene43440:CDS
TTGGTTAGGTATGCTGATAA+AGG 0.451302 8.4:+652985 None:intergenic
ACAAAATGCAAAGTGTATGT+AGG 0.455850 8.4:-652281 MS.gene43440:CDS
AGTGGATATTTGATCATGAC+AGG 0.457131 8.4:-652902 MS.gene43440:CDS
AGCCACTAAGACAAAATCCT+TGG 0.472342 8.4:+652754 None:intergenic
TTCTTTGTCGCGCCTAAGGT+TGG 0.489388 8.4:-652519 MS.gene43440:CDS
GTATGTCAAGTTGAAAACTT+TGG 0.511075 8.4:-652411 MS.gene43440:CDS
GCATATTCTGGATCTTCTAG+TGG 0.514037 8.4:-652920 MS.gene43440:CDS
TTGGGTTACTTATTCAACAA+TGG 0.515244 8.4:-652681 MS.gene43440:CDS
CGTCACAACTAACCAACCTT+AGG 0.518704 8.4:+652507 None:intergenic
TCATGTGACCTAATGTACTT+TGG 0.520097 8.4:+652242 None:intergenic
ACAAAGTCAACAATCATCCA+TGG 0.526718 8.4:+652653 None:intergenic
GTCAACGACAAGGGCAACAT+AGG 0.530388 8.4:-652605 MS.gene43440:CDS
TCCATTTAGGAGAAGAAAGA+AGG 0.539421 8.4:-652852 MS.gene43440:CDS
CCACATGTTCGGGTTGCTCA+AGG 0.539860 8.4:+652346 None:intergenic
ACACACAAGCAAATTGAAAG+AGG 0.547191 8.4:+653110 None:intergenic
CTTGTGTGTGTAAGAATTGG+AGG 0.551053 8.4:-653096 MS.gene43440:CDS
TTCATACTACAAGACCCTAC+TGG 0.561934 8.4:-652214 MS.gene43440:CDS
CCTTGAGCAACCCGAACATG+TGG 0.567823 8.4:-652346 MS.gene43440:CDS
ATTGCATTATTATATGCTCC+GGG 0.570402 8.4:-652383 MS.gene43440:CDS
CAAGACCCTACTGGTTGGAC+TGG 0.573914 8.4:-652205 MS.gene43440:CDS
TACTACAAGACCCTACTGGT+TGG 0.586463 8.4:-652210 MS.gene43440:CDS
AAAAGACCAGTCCAACCAGT+AGG 0.594037 8.4:+652199 None:intergenic
TCAACGACAAGGGCAACATA+GGG 0.594974 8.4:-652604 MS.gene43440:CDS
ATTAAATGCCACCATAGACT+TGG 0.597479 8.4:+652463 None:intergenic
AAAGACCAGTCCAACCAGTA+GGG 0.607927 8.4:+652200 None:intergenic
CAAAGTCAACAATCATCCAT+GGG 0.622007 8.4:+652654 None:intergenic
CTTGAGCAACCCGAACATGT+GGG 0.625028 8.4:-652345 MS.gene43440:CDS
CGCGACAAAGAAGTTACGCT+AGG 0.633955 8.4:+652530 None:intergenic
ATTCAACAATGGGATACCCA+TGG 0.636286 8.4:-652670 MS.gene43440:CDS
TATATATGTTGTCAACGACA+AGG 0.653477 8.4:-652615 MS.gene43440:CDS
TGTCAAAAGCAAGCAAGACA+CGG 0.654737 8.4:+652783 None:intergenic
GAGATTTGGAAATGATATCG+AGG 0.657764 8.4:+653146 None:intergenic
TTGAGCAACCCGAACATGTG+GGG 0.659897 8.4:-652344 MS.gene43440:CDS
ATATATGTTGTCAACGACAA+GGG 0.666270 8.4:-652614 MS.gene43440:CDS
TTGTGTGTGTAAGAATTGGA+GGG 0.670781 8.4:-653095 MS.gene43440:CDS
GGTTCATACCAAGTCTATGG+TGG 0.672324 8.4:-652471 MS.gene43440:CDS
AAGGCATAGTAGTTTCCACC+CGG 0.674044 8.4:+652365 None:intergenic
AAAATGCAAAGTGTATGTAG+GGG 0.684341 8.4:-652279 MS.gene43440:CDS
GCATTATTATATGCTCCGGG+TGG 0.696983 8.4:-652380 MS.gene43440:CDS
GTGGATATTTGATCATGACA+GGG 0.707619 8.4:-652901 MS.gene43440:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATAAGAAAAATTGACTTTAA+AGG + chr8.4:652527-652546 None:intergenic 15.0%
!!! AAAAATTGACTTTAAAGGTT+GGG + chr8.4:652522-652541 None:intergenic 20.0%
! CAAAGATGATCAATTATTTC+TGG - chr8.4:652389-652408 MS.gene43440:CDS 25.0%
! GGAAAAAGATTTCTTGAAAA+AGG + chr8.4:652335-652354 None:intergenic 25.0%
!! AAAATTGACTTTAAAGGTTG+GGG + chr8.4:652521-652540 None:intergenic 25.0%
!! GAAAAATTGACTTTAAAGGT+TGG + chr8.4:652523-652542 None:intergenic 25.0%
!! GTTTATCAATCTCGAAATTT+TGG - chr8.4:652634-652653 MS.gene43440:CDS 25.0%
!! TTTTGCTAATGAATCCATTT+AGG - chr8.4:652473-652492 MS.gene43440:CDS 25.0%
!!! TATGTCAAGTTGAAAACTTT+GGG - chr8.4:652928-652947 MS.gene43440:CDS 25.0%
AAAATGCAAAGTGTATGTAG+GGG - chr8.4:653059-653078 MS.gene43440:CDS 30.0%
ACAAAATGCAAAGTGTATGT+AGG - chr8.4:653057-653076 MS.gene43440:CDS 30.0%
ATATATGTTGTCAACGACAA+GGG - chr8.4:652724-652743 MS.gene43440:CDS 30.0%
ATTGCATTATTATATGCTCC+GGG - chr8.4:652955-652974 MS.gene43440:CDS 30.0%
CAAAATGCAAAGTGTATGTA+GGG - chr8.4:653058-653077 MS.gene43440:CDS 30.0%
CATTGCATTATTATATGCTC+CGG - chr8.4:652954-652973 MS.gene43440:CDS 30.0%
TATATATGTTGTCAACGACA+AGG - chr8.4:652723-652742 MS.gene43440:CDS 30.0%
TCTTTGAACGATAAACTTGT+TGG + chr8.4:652375-652394 None:intergenic 30.0%
TGGGTTACTTATTCAACAAT+GGG - chr8.4:652658-652677 MS.gene43440:CDS 30.0%
TTGGGTTACTTATTCAACAA+TGG - chr8.4:652657-652676 MS.gene43440:CDS 30.0%
TTTCAACTTGACATACTTCA+TGG + chr8.4:652923-652942 None:intergenic 30.0%
! GAAGACTTTTGAACAAGTAA+TGG + chr8.4:652313-652332 None:intergenic 30.0%
!! ATCAATCTCGAAATTTTGGT+TGG - chr8.4:652638-652657 MS.gene43440:CDS 30.0%
!! GTATGTCAAGTTGAAAACTT+TGG - chr8.4:652927-652946 MS.gene43440:CDS 30.0%
!!! TCAATCTCGAAATTTTGGTT+GGG - chr8.4:652639-652658 MS.gene43440:CDS 30.0%
ACAAAGTCAACAATCATCCA+TGG + chr8.4:652688-652707 None:intergenic 35.0%
ACACACAAGCAAATTGAAAG+AGG + chr8.4:652231-652250 None:intergenic 35.0%
ACCTTCTTTCTTCTCCTAAA+TGG + chr8.4:652490-652509 None:intergenic 35.0%
AGGGAACTATCAACTTTCTT+GGG - chr8.4:652165-652184 MS.gene43440:CDS 35.0%
AGTGGATATTTGATCATGAC+AGG - chr8.4:652436-652455 MS.gene43440:CDS 35.0%
ATTAAATGCCACCATAGACT+TGG + chr8.4:652878-652897 None:intergenic 35.0%
CAAAGTCAACAATCATCCAT+GGG + chr8.4:652687-652706 None:intergenic 35.0%
GAGATTTGGAAATGATATCG+AGG + chr8.4:652195-652214 None:intergenic 35.0%
GATGTATTGGAGAGATTTCT+TGG - chr8.4:652276-652295 MS.gene43440:CDS 35.0%
GGGCATTTCATAAGATGTAT+TGG - chr8.4:652263-652282 MS.gene43440:CDS 35.0%
GTCATCAAAGTCTAGAGATT+TGG + chr8.4:652209-652228 None:intergenic 35.0%
GTGGATATTTGATCATGACA+GGG - chr8.4:652437-652456 MS.gene43440:CDS 35.0%
TCATGTGACCTAATGTACTT+TGG + chr8.4:653099-653118 None:intergenic 35.0%
TCCATTTAGGAGAAGAAAGA+AGG - chr8.4:652486-652505 MS.gene43440:CDS 35.0%
TTGCTTGTGTGTGTAAGAAT+TGG - chr8.4:652239-652258 MS.gene43440:CDS 35.0%
TTGGTTAGGTATGCTGATAA+AGG + chr8.4:652356-652375 None:intergenic 35.0%
TTGTGTGTGTAAGAATTGGA+GGG - chr8.4:652243-652262 MS.gene43440:CDS 35.0%
! TTGTGACGAACAACTTTTTG+TGG - chr8.4:652846-652865 MS.gene43440:CDS 35.0%
!! GAACGATAAACTTGTTGGTT+AGG + chr8.4:652370-652389 None:intergenic 35.0%
ACAAGCTGCCAAAGTACATT+AGG - chr8.4:653088-653107 MS.gene43440:CDS 40.0%
AGCCACTAAGACAAAATCCT+TGG + chr8.4:652587-652606 None:intergenic 40.0%
ATTCAACAATGGGATACCCA+TGG - chr8.4:652668-652687 MS.gene43440:CDS 40.0%
CAGGGAACTATCAACTTTCT+TGG - chr8.4:652164-652183 MS.gene43440:CDS 40.0%
CTTGTGTGTGTAAGAATTGG+AGG - chr8.4:652242-652261 MS.gene43440:CDS 40.0%
CTTTCATAACCCCACATGTT+CGG + chr8.4:653006-653025 None:intergenic 40.0%
GCATATTCTGGATCTTCTAG+TGG - chr8.4:652418-652437 MS.gene43440:CDS 40.0%
TGTCAAAAGCAAGCAAGACA+CGG + chr8.4:652558-652577 None:intergenic 40.0%
TGTGGTTCATACCAAGTCTA+TGG - chr8.4:652864-652883 MS.gene43440:CDS 40.0%
TTCATACTACAAGACCCTAC+TGG - chr8.4:653124-653143 MS.gene43440:CDS 40.0%
TTCTGGCACTTTGCATATTC+TGG - chr8.4:652406-652425 MS.gene43440:CDS 40.0%
TTTCATAACCCCACATGTTC+GGG + chr8.4:653005-653024 None:intergenic 40.0%
! CTCCAAGGATTTTGTCTTAG+TGG - chr8.4:652582-652601 MS.gene43440:CDS 40.0%
!! GTCTTGCTTGCTTTTGACAA+AGG - chr8.4:652559-652578 MS.gene43440:CDS 40.0%
AAAAGACCAGTCCAACCAGT+AGG + chr8.4:653142-653161 None:intergenic 45.0%
AAAGACCAGTCCAACCAGTA+GGG + chr8.4:653141-653160 None:intergenic 45.0%
AAGGCATAGTAGTTTCCACC+CGG + chr8.4:652976-652995 None:intergenic 45.0%
CGTCACAACTAACCAACCTT+AGG + chr8.4:652834-652853 None:intergenic 45.0%
GCATTATTATATGCTCCGGG+TGG - chr8.4:652958-652977 MS.gene43440:CDS 45.0%
GGTTCATACCAAGTCTATGG+TGG - chr8.4:652867-652886 MS.gene43440:CDS 45.0%
TAACTTCTTTGTCGCGCCTA+AGG - chr8.4:652815-652834 MS.gene43440:CDS 45.0%
TACTACAAGACCCTACTGGT+TGG - chr8.4:653128-653147 MS.gene43440:CDS 45.0%
TCAACGACAAGGGCAACATA+GGG - chr8.4:652734-652753 MS.gene43440:CDS 45.0%
! TGCTTTTGACAAAGGCTCCA+AGG - chr8.4:652567-652586 MS.gene43440:CDS 45.0%
CGCGACAAAGAAGTTACGCT+AGG + chr8.4:652811-652830 None:intergenic 50.0%
CTTGAGCAACCCGAACATGT+GGG - chr8.4:652993-653012 MS.gene43440:CDS 50.0%
GTCAACGACAAGGGCAACAT+AGG - chr8.4:652733-652752 MS.gene43440:CDS 50.0%
TTCTTTGTCGCGCCTAAGGT+TGG - chr8.4:652819-652838 MS.gene43440:CDS 50.0%
TTGAGCAACCCGAACATGTG+GGG - chr8.4:652994-653013 MS.gene43440:CDS 50.0%
CCTTGAGCAACCCGAACATG+TGG - chr8.4:652992-653011 MS.gene43440:CDS 55.0%
! CAAGACCCTACTGGTTGGAC+TGG - chr8.4:653133-653152 MS.gene43440:CDS 55.0%
!! CCACATGTTCGGGTTGCTCA+AGG + chr8.4:652995-653014 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr8.4 gene 652157 653203 652157 ID=MS.gene43440
chr8.4 mRNA 652157 653203 652157 ID=MS.gene43440.t1;Parent=MS.gene43440
chr8.4 exon 652157 653203 652157 ID=MS.gene43440.t1.exon1;Parent=MS.gene43440.t1
chr8.4 CDS 652157 653203 652157 ID=cds.MS.gene43440.t1;Parent=MS.gene43440.t1
Gene Sequence

>MS.gene43440

ATGGTAGCAGGGAACTATCAACTTTCTTGGGATGTCCTCGATATCATTTCCAAATCTCTAGACTTTGATGACCTCTTTCAATTTGCTTGTGTGTGTAAGAATTGGAGGGCATTTCATAAGATGTATTGGAGAGATTTCTTGGCATTACAAGAACCATTACTTGTTCAAAAGTCTTCCTTTTTCAAGAAATCTTTTTCCTTTATCAGCATACCTAACCAACAAGTTTATCGTTCAAAGATGATCAATTATTTCTGGCACTTTGCATATTCTGGATCTTCTAGTGGATATTTGATCATGACAGGGAACAATAATTCATTTTTGCTAATGAATCCATTTAGGAGAAGAAAGAAGGTAATCAATGCCCCAACCTTTAAAGTCAATTTTTCTTATTTTGCTTACCGTGTCTTGCTTGCTTTTGACAAAGGCTCCAAGGATTTTGTCTTAGTGGCTTTATGTAAAAGTTCTAATAGTTTGCATGTTTATCAATCTCGAAATTTTGGTTGGGTTACTTATTCAACAATGGGATACCCATGGATGATTGTTGACTTTGTTGTTTTGCATAACACTATATATGTTGTCAACGACAAGGGCAACATAGGGATACTCAACTTAAATTATGTGAATATAAAATTTTTAGAAATGAAGAGTATTCCTAGCGTAACTTCTTTGTCGCGCCTAAGGTTGGTTAGTTGTGACGAACAACTTTTTGTGGTTCATACCAAGTCTATGGTGGCATTTAATGTGTACAAGATTGACTTCTCAACCATGAAGTATGTCAAGTTGAAAACTTTGGGTGACATTGCATTATTATATGCTCCGGGTGGAAACTACTATGCCTTGAGCAACCCGAACATGTGGGGTTATGAAAGCAACTCTCTGTATGTTATCGATCATTCGTCTACAAAATGCAAAGTGTATGTAGGGGATGACAACAAGCTGCCAAAGTACATTAGGTCACATGATGATCTTCATACTACAAGACCCTACTGGTTGGACTGGTCTTTTAGACATTTTCACTACGAGATAGATTATTCTCTAGTTGACTAA
Protein sequence

>MS.gene43440.t1

MVAGNYQLSWDVLDIISKSLDFDDLFQFACVCKNWRAFHKMYWRDFLALQEPLLVQKSSFFKKSFSFISIPNQQVYRSKMINYFWHFAYSGSSSGYLIMTGNNNSFLLMNPFRRRKKVINAPTFKVNFSYFAYRVLLAFDKGSKDFVLVALCKSSNSLHVYQSRNFGWVTYSTMGYPWMIVDFVVLHNTIYVVNDKGNIGILNLNYVNIKFLEMKSIPSVTSLSRLRLVSCDEQLFVVHTKSMVAFNVYKIDFSTMKYVKLKTLGDIALLYAPGGNYYALSNPNMWGYESNSLYVIDHSSTKCKVYVGDDNKLPKYIRSHDDLHTTRPYWLDWSFRHFHYEIDYSLVD