AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG040084

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040084 MtrunA17_Chr7g0265831 93.125 480 25 3 1 477 1 475 0.0 881
MsaG040084 MtrunA17_Chr1g0179191 51.908 524 148 17 17 476 27 510 3.66e-152 443
MsaG040084 MtrunA17_Chr1g0198171 37.931 435 210 16 17 413 10 422 2.28e-79 255
MsaG040084 MtrunA17_Chr1g0201941 37.209 301 134 4 119 365 57 356 4.52e-49 177
MsaG040084 MtrunA17_Chr1g0201941 42.000 100 55 3 110 208 446 543 1.09e-17 85.9
MsaG040084 MtrunA17_Chr1g0201911 35.556 270 143 4 119 367 55 314 2.89e-40 152
MsaG040084 MtrunA17_Chr1g0201911 40.945 127 63 4 108 233 361 476 6.69e-20 92.8
MsaG040084 MtrunA17_Chr6g0463941 63.462 104 32 3 112 213 46 145 4.02e-34 135
MsaG040084 MtrunA17_Chr6g0463941 43.299 97 53 2 115 210 460 555 7.97e-19 89.7
MsaG040084 MtrunA17_Chr1g0190851 26.012 346 205 12 26 366 29 328 4.58e-16 80.9
MsaG040084 MtrunA17_Chr1g0190851 36.559 93 55 3 119 208 418 509 3.87e-11 65.5
MsaG040084 MtrunA17_Chr7g0273941 32.824 131 66 4 88 208 361 479 5.86e-14 73.9
MsaG040084 MtrunA17_Chr2g0290511 32.812 128 82 3 82 206 223 349 2.42e-13 71.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG040084 AT5G03680.1 46.209 422 164 12 1 387 1 394 9.66e-96 301
MsaG040084 AT3G10000.1 39.659 469 224 11 47 477 34 481 1.30e-91 287
MsaG040084 AT3G10000.2 37.953 469 222 12 47 477 34 471 1.15e-81 261
MsaG040084 AT1G76890.2 34.405 311 142 7 112 366 34 338 2.67e-41 155
MsaG040084 AT1G76890.2 40.496 121 70 2 112 231 390 509 1.15e-19 92.4
MsaG040084 AT1G76880.1 54.955 111 44 2 99 209 46 150 2.28e-30 124
MsaG040084 AT1G76880.1 42.000 100 56 2 112 210 401 499 3.90e-17 84.7
MsaG040084 AT1G33240.3 59.596 99 36 2 119 217 62 156 7.37e-30 123
MsaG040084 AT1G33240.3 42.697 89 49 2 119 206 435 522 5.05e-16 81.3
MsaG040084 AT1G33240.1 59.596 99 36 2 119 217 62 156 9.90e-30 123
MsaG040084 AT1G33240.1 42.697 89 49 2 119 206 435 522 5.00e-16 81.3
MsaG040084 AT1G33240.2 42.697 89 49 2 119 206 396 483 5.15e-16 81.3
MsaG040084 AT1G33240.2 62.712 59 19 1 159 217 62 117 4.74e-15 78.2
MsaG040084 AT5G28300.1 37.624 101 51 4 119 208 459 558 3.22e-12 69.3
MsaG040084 AT5G47660.1 41.758 91 45 4 119 206 303 388 1.66e-11 66.2

Find 90 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTAGGGATGCTGCTTTAA+TGG 0.226192 7:-96455042 MsaT040084.1:CDS
ATTATTGCTTTCTCCATATA+AGG 0.243458 7:+96455487 None:intergenic
CGACAACTTGAAGCCTTATA+TGG 0.245987 7:-96455500 MsaT040084.1:CDS
AAATTTCAACTCACTGGTTT+TGG 0.258916 7:+96454676 None:intergenic
TACTATCATAGTGTTGATTA+TGG 0.322614 7:+96456777 None:intergenic
TGATTCACAGCTGAAGAAAT+TGG 0.325251 7:-96455219 MsaT040084.1:CDS
CTCTTTGGGATCAACTTTCT+AGG 0.339621 7:-96456352 MsaT040084.1:intron
GCTTCAACTCCTTCATTTAG+TGG 0.343719 7:-96456512 MsaT040084.1:CDS
TTCAAAGAAGCTACTCAAAA+AGG 0.354316 7:-96456377 MsaT040084.1:CDS
GGAGTAGTGGAAGAAGCTTC+TGG 0.362256 7:-96455265 MsaT040084.1:CDS
TTGATCATTAACATCACAAT+AGG 0.364480 7:+96454842 None:intergenic
AAATTGTTGGTAGTTGATCT+TGG 0.391857 7:+96456716 None:intergenic
CACAAAGACATTGGAACAAA+AGG 0.401812 7:-96455165 MsaT040084.1:CDS
GTGTTGTTGATGTGGGTTGC+CGG 0.402706 7:+96456670 None:intergenic
ATTCCATTATCTCATGGAAA+TGG 0.406779 7:-96456804 None:intergenic
TGTTGATGTGGGTTGCCGGC+GGG 0.415527 7:+96456674 None:intergenic
GAAACAAGAGAAAGAAAGGT+TGG 0.430312 7:-96455108 MsaT040084.1:CDS
CCCTCAGTACTCATCAAGAA+TGG 0.434497 7:+96454744 None:intergenic
TGTGGGAGTGAAGATGAAGA+AGG 0.446001 7:+96455464 None:intergenic
GGAGGAAACAAGAGAAAGAA+AGG 0.446373 7:-96455112 MsaT040084.1:CDS
ATTGGCGTTGATGCTTCAAC+TGG 0.446616 7:-96456461 MsaT040084.1:CDS
GCTGAAACTACTGGTTTCAT+TGG 0.450069 7:-96456479 MsaT040084.1:CDS
TTTGGGCTAAAGAAAGAGCT+TGG 0.456386 7:-96455070 MsaT040084.1:CDS
AAACATTTCCTGATTGTTGT+TGG 0.473343 7:+96455427 None:intergenic
GGAGAAGCAAGAAGAATGGT+TGG 0.477059 7:-96455195 MsaT040084.1:CDS
AAAGAGCTTGGATTGAAGCT+AGG 0.477669 7:-96455058 MsaT040084.1:CDS
TATCACAGTGTTTGTTAATG+TGG 0.481655 7:+96455399 None:intergenic
GGAAAAGCAGGAAGACAAGA+TGG 0.483853 7:-96455542 MsaT040084.1:CDS
GTGGGAGAATTACAACTTGA+AGG 0.483975 7:-96454712 MsaT040084.1:CDS
AAGACCAGGGAAGGAAAAGC+AGG 0.489921 7:-96455554 MsaT040084.1:CDS
TGAGTAGCTTCTTTGAATTG+AGG 0.494836 7:+96456383 None:intergenic
ATCTCATAGTGTTGTTGATG+TGG 0.498646 7:+96456662 None:intergenic
TATAATGTTAACAATGGAGA+TGG 0.503073 7:-96454873 MsaT040084.1:CDS
AATGATCAAAGGGAAGAACT+TGG 0.504968 7:-96454828 MsaT040084.1:CDS
ACTCAATCTTCTTCTCATGA+TGG 0.508615 7:-96454975 MsaT040084.1:CDS
AATTTAGAAGCTGAAACTAC+TGG 0.509455 7:-96456488 MsaT040084.1:CDS
CACTATGAGATGATGATGTT+TGG 0.510125 7:-96456650 MsaT040084.1:CDS
CCTCAGTACTCATCAAGAAT+GGG 0.515932 7:+96454745 None:intergenic
TTGTGATGTTAATGATCAAA+GGG 0.516121 7:-96454838 MsaT040084.1:CDS
TGGAAATAATAAGAAGAGAA+AGG 0.518093 7:-96454955 MsaT040084.1:CDS
TTGATGCTTCAACTGGAAGA+TGG 0.518598 7:-96456454 MsaT040084.1:CDS
ATCACAGTGTTTGTTAATGT+GGG 0.521709 7:+96455400 None:intergenic
TGTTTATATAATGTTAACAA+TGG 0.527902 7:-96454879 MsaT040084.1:CDS
CCATTCTTGATGAGTACTGA+GGG 0.532198 7:-96454744 MsaT040084.1:CDS
GGGTGTTAAGAGAAGAAGAG+TGG 0.532295 7:-96455133 MsaT040084.1:CDS
AAGAGCTTGGATTGAAGCTA+GGG 0.532871 7:-96455057 MsaT040084.1:CDS
TACTGAGGGAGGAAATATGT+GGG 0.537099 7:-96454730 MsaT040084.1:CDS
TCTAAATTACCACTAAATGA+AGG 0.538013 7:+96456503 None:intergenic
GTTGATGTGGGTTGCCGGCG+GGG 0.539548 7:+96456675 None:intergenic
ATTGTGATGTTAATGATCAA+AGG 0.541913 7:-96454839 MsaT040084.1:CDS
TGGTGGAGAAGCAAGAAGAA+TGG 0.548730 7:-96455199 MsaT040084.1:CDS
TCTCATAGTGTTGTTGATGT+GGG 0.555577 7:+96456663 None:intergenic
CTCCGCCGTAGGGAAATTGT+TGG 0.561007 7:+96456703 None:intergenic
GTTAACAATGGAGATGGAGC+TGG 0.562473 7:-96454867 MsaT040084.1:CDS
TTGTTGATGTGGGTTGCCGG+CGG 0.563154 7:+96456673 None:intergenic
AGTGTAAGAGTCTCTTGTCT+AGG 0.565795 7:+96456431 None:intergenic
ATGATAACAACAATGTTGAT+CGG 0.565825 7:-96454905 MsaT040084.1:CDS
TTCACAGCTGAAGAAATTGG+TGG 0.567445 7:-96455216 MsaT040084.1:CDS
GGGAGAGTACAAACAAATGA+TGG 0.567681 7:-96454807 MsaT040084.1:CDS
ACAGTAACAGCAGCAACAGC+AGG 0.567957 7:+96456569 None:intergenic
GCACTAGTGGTGGTGTTGGT+AGG 0.568004 7:+96456533 None:intergenic
GAAAAGCAGGAAGACAAGAT+GGG 0.570202 7:-96455541 MsaT040084.1:CDS
GCGGGGAATAGCTCCGCCGT+AGG 0.579850 7:+96456692 None:intergenic
AGTGGTGGTGTTGGTAGGAG+TGG 0.582934 7:+96456538 None:intergenic
CAAAGAGAATGAGTTCTCCA+TGG 0.584262 7:-96455303 MsaT040084.1:CDS
ATGATCAAAGGGAAGAACTT+GGG 0.587215 7:-96454827 MsaT040084.1:CDS
CGATGATATGTTGAATTCAG+TGG 0.587263 7:+96455358 None:intergenic
GGAGAAACTCACAAAGACAT+TGG 0.587360 7:-96455174 MsaT040084.1:CDS
CGGGGAATAGCTCCGCCGTA+GGG 0.588808 7:+96456693 None:intergenic
AACATGGCTATCAAAGGAGT+GGG 0.590438 7:-96455622 MsaT040084.1:CDS
TGAAGCACTAGTGGTGGTGT+TGG 0.592317 7:+96456529 None:intergenic
CCCATTCTTGATGAGTACTG+AGG 0.594659 7:-96454745 MsaT040084.1:CDS
GTGAAGAACATGGCTATCAA+AGG 0.598664 7:-96455628 MsaT040084.1:CDS
AGGATAATGTGTGAAGAACA+TGG 0.603245 7:-96455638 MsaT040084.1:CDS
GAACATGGCTATCAAAGGAG+TGG 0.606340 7:-96455623 MsaT040084.1:CDS
TGATGATCATAGTACTCATG+AGG 0.611714 7:-96455330 MsaT040084.1:CDS
GATGATCATAGTACTCATGA+GGG 0.620992 7:-96455329 MsaT040084.1:CDS
TGAAGGAGTTGAAGCACTAG+TGG 0.623923 7:+96456520 None:intergenic
AACTACCAACAATTTCCCTA+CGG 0.632466 7:-96456708 MsaT040084.1:CDS
TGAATTCAGTGGAGTTTGTG+AGG 0.634698 7:+96455369 None:intergenic
TGTTAAGAGAAGAAGAGTGG+AGG 0.635425 7:-96455130 MsaT040084.1:CDS
TAGTGGAAGAAGCTTCTGGA+AGG 0.636390 7:-96455261 MsaT040084.1:CDS
CTAGAAAGTTGATCCCAAAG+AGG 0.637397 7:+96456353 None:intergenic
ACGGCGGAGCTATTCCCCGC+CGG 0.640713 7:-96456689 MsaT040084.1:CDS
GTACTGAGGGAGGAAATATG+TGG 0.650852 7:-96454731 MsaT040084.1:CDS
TACCAACAATTTCCCTACGG+CGG 0.660564 7:-96456705 MsaT040084.1:CDS
TTCTTGATGAGTACTGAGGG+AGG 0.678329 7:-96454741 MsaT040084.1:CDS
ATGATCATAGTACTCATGAG+GGG 0.712141 7:-96455328 MsaT040084.1:CDS
AGGAGTTGAAGCACTAGTGG+TGG 0.716487 7:+96456523 None:intergenic
ACAAAATCATGAAGACAACG+AGG 0.773702 7:+96456605 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr7 gene 96454686 96456813 96454686 ID=MsaG040084
Chr7 mRNA 96454686 96456813 96454686 ID=MsaT040084.1;Parent=MsaG040084
Chr7 exon 96454686 96455658 96454686 ID=MsaT040084.1.exon2;Parent=MsaT040084.1
Chr7 CDS 96454686 96455658 96454686 ID=cds.MsaT040084.1;Parent=MsaT040084.1
Chr7 exon 96456353 96456813 96456353 ID=MsaT040084.1.exon1;Parent=MsaT040084.1
Chr7 CDS 96456353 96456813 96456353 ID=cds.MsaT040084.1;Parent=MsaT040084.1
Gene Sequence

>MsaT040084.1

ATGGAAATGGAAGACCATAATCAACACTATGATAGTAATAGTATCACTGATCTCAGACAACTCATTAATATTGTTCCAAGATCAACTACCAACAATTTCCCTACGGCGGAGCTATTCCCCGCCGGCAACCCACATCAACAACACTATGAGATGATGATGTTTGGTAGACAAGTAGCAGATATAATGCCTCGTTGTCTTCATGATTTTGTTTCAACAGATTCACCTGCTGTTGCTGCTGTTACTGTTGCTACTGCCACTCCTACCAACACCACCACTAGTGCTTCAACTCCTTCATTTAGTGGTAATTTAGAAGCTGAAACTACTGGTTTCATTGGCGTTGATGCTTCAACTGGAAGATGGCCTAGACAAGAGACTCTTACACTTCTTGAGATTAGATCTCGTCTTGATCCTCAATTCAAAGAAGCTACTCAAAAAGGTCCTCTTTGGGATCAACTTTCTAGGATAATGTGTGAAGAACATGGCTATCAAAGGAGTGGGAAAAAATGCAGGGAGAAGTTTGAGAATCTATACAAATACTACAAAAAGACCAGGGAAGGAAAAGCAGGAAGACAAGATGGGAAGCACTACAGATTCTTTCGACAACTTGAAGCCTTATATGGAGAAAGCAATAATCCTTCTTCATCTTCACTCCCACAAAACAATTTTTGTACCAACAACAATCAGGAAATGTTTCATTCCCACATTAACAAACACTGTGATAGTCTCAGCCTCACAAACTCCACTGAATTCAACATATCATCGTCAGATGATGATCATAGTACTCATGAGGGGATCAAAGAGAATGAGTTCTCCATGGATAAGAGAAAAAAGAGGAGTAGTGGAAGAAGCTTCTGGAAGGTAAAGATAAAAGACTTCATTGATTCACAGCTGAAGAAATTGGTGGAGAAGCAAGAAGAATGGTTGGAGAAACTCACAAAGACATTGGAACAAAAGGAAAAAGAGAGGGTGTTAAGAGAAGAAGAGTGGAGGAAACAAGAGAAAGAAAGGTTGGAAAAAGAGCATAAATTTTGGGCTAAAGAAAGAGCTTGGATTGAAGCTAGGGATGCTGCTTTAATGGAAGCTTTGCAAAAATTAACGGGTAATAATGATGAGATAATAAAGACTCAATCTTCTTCTCATGATGGAAATAATAAGAAGAGAAAGGAAAACACAAGAAGTTGTTTTTACTTTGATGATAACAACAATGTTGATCGGTCTTGTTTATATAATGTTAACAATGGAGATGGAGCTGGTTCCTATTGTGATGTTAATGATCAAAGGGAAGAACTTGGGAGAGTACAAACAAATGATGGTTCAAATTCTAATAATGTTGTTGCAGCTGAAAGTTGTTTCCCATTCTTGATGAGTACTGAGGGAGGAAATATGTGGGAGAATTACAACTTGAAGGTTAACAAAGCAAACCAAAACCAGTGA
Protein sequence

>MsaT040084.1

MEMEDHNQHYDSNSITDLRQLINIVPRSTTNNFPTAELFPAGNPHQQHYEMMMFGRQVADIMPRCLHDFVSTDSPAVAAVTVATATPTNTTTSASTPSFSGNLEAETTGFIGVDASTGRWPRQETLTLLEIRSRLDPQFKEATQKGPLWDQLSRIMCEEHGYQRSGKKCREKFENLYKYYKKTREGKAGRQDGKHYRFFRQLEALYGESNNPSSSSLPQNNFCTNNNQEMFHSHINKHCDSLSLTNSTEFNISSSDDDHSTHEGIKENEFSMDKRKKRSSGRSFWKVKIKDFIDSQLKKLVEKQEEWLEKLTKTLEQKEKERVLREEEWRKQEKERLEKEHKFWAKERAWIEARDAALMEALQKLTGNNDEIIKTQSSSHDGNNKKRKENTRSCFYFDDNNNVDRSCLYNVNNGDGAGSYCDVNDQREELGRVQTNDGSNSNNVVAAESCFPFLMSTEGGNMWENYNLKVNKANQNQ*