AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG006589


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006589 MtrunA17_Chr4g0046291 71.967 478 111 4 3 469 5 470 0.0 702
MsaG006589 MtrunA17_Chr4g0040681 45.793 511 197 12 3 449 6 500 1.27e-138 408
MsaG006589 MtrunA17_Chr2g0283011 97.222 72 1 1 1 71 1 72 3.10e-41 142
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG006589 AT1G28520.4 63.918 485 149 7 3 470 6 481 0.0 596
MsaG006589 AT1G28520.1 63.918 485 149 7 3 470 6 481 0.0 596
MsaG006589 AT1G28520.2 63.918 485 149 7 3 470 6 481 0.0 596
MsaG006589 AT1G28520.5 63.918 485 149 7 3 470 6 481 0.0 596
MsaG006589 AT1G28520.3 61.237 485 146 8 3 470 6 465 0.0 559
MsaG006589 AT2G42400.1 49.886 437 180 11 10 421 9 431 9.87e-126 373

Find 112 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTTTCATCACTTGCTTTC+TGG -0.000768 2:-7284823 None:intergenic
GTTGCCGCTCCCTCGCATTC+TGG 0.120554 2:-7284544 None:intergenic
TTGGAACTAAAGCTTGTTAA+TGG 0.202187 2:+7284957 MsaT006589.1:CDS
CGCAGAACGTCTGTTATTAT+AGG 0.223785 2:-7285063 None:intergenic
CGTAAAGATGCCACTCAAAA+TGG 0.235737 2:-7284893 None:intergenic
GTATGTACTCATCCATTAAT+AGG 0.244748 2:-7284102 None:intergenic
TCAGCATGATTCCCTATTAA+TGG 0.250839 2:+7284090 MsaT006589.1:CDS
TATGATTGTAACGAGTTTCT+TGG 0.265206 2:+7284043 MsaT006589.1:intron
CGAGTTGTTAGTTGATTTAC+TGG 0.280780 2:-7284143 None:intergenic
TTGCCGCTCCCTCGCATTCT+GGG 0.309111 2:-7284543 None:intergenic
CCTATGTCAGCCTTGGCATT+AGG 0.321376 2:-7285101 None:intergenic
GGTAGATAGGTAGGTATATA+AGG 0.325810 2:-7284280 None:intergenic
GTCAGCCTTGGCATTAGGTT+TGG 0.332556 2:-7285096 None:intergenic
GTCTGCATATTCTGATCATT+AGG 0.347297 2:-7283565 None:intergenic
GCAGAACGTCTGTTATTATA+GGG 0.349385 2:-7285062 None:intergenic
GAGTACATACACTCCATCTT+AGG 0.353453 2:+7284115 MsaT006589.1:CDS
AGGGCAGATGCTTGGTAGAT+AGG 0.368518 2:-7284293 None:intergenic
AAGCAAGTGATGAAAGAGTT+TGG 0.371141 2:+7284828 MsaT006589.1:CDS
TCCTGCTTCTTCTTTGCAGC+AGG 0.376005 2:+7283304 MsaT006589.1:CDS
AGGTTCAAAATGTGCACTTT+GGG 0.394325 2:+7284333 MsaT006589.1:CDS
TGGAACTAAAGCTTGTTAAT+GGG 0.396732 2:+7284958 MsaT006589.1:CDS
ATCACTTGTTATCTTTGTCC+TGG 0.397984 2:-7284991 None:intergenic
AATCATGCTGATGTTGGCTT+TGG 0.399279 2:-7284078 None:intergenic
TCTGTTATTATAGGGAAAAT+AGG 0.400575 2:-7285054 None:intergenic
CCTCCTCCTTCCGCTTTCCT+AGG 0.410735 2:+7284313 MsaT006589.1:CDS
CATCCCCGCCCGTTATAATC+AGG 0.423074 2:-7284792 None:intergenic
TGCCACTCAAAATGGTTTAG+TGG 0.430399 2:-7284885 None:intergenic
TCAAAATGGTTTAGTGGTTG+TGG 0.432899 2:-7284879 None:intergenic
CCTTCCACTCACGAAGCATC+TGG 0.436154 2:-7283262 None:intergenic
TCATGCTTAGGCACAGCTAA+TGG 0.436229 2:-7283541 None:intergenic
TAGGTTCAAAATGTGCACTT+TGG 0.438695 2:+7284332 MsaT006589.1:CDS
GTGATGCATGTGCGTTATAT+CGG 0.439847 2:+7284934 MsaT006589.1:CDS
CTGCAGTAGCCTACATATAT+CGG 0.447566 2:-7283488 None:intergenic
TATGTACTCATCCATTAATA+GGG 0.456560 2:-7284101 None:intergenic
GCTGCTCTTGCTTTAAATGA+AGG 0.460368 2:+7284415 MsaT006589.1:CDS
TGATCATTAGGTTCATGCTT+AGG 0.466635 2:-7283553 None:intergenic
TAGCCCCAGTTCTACGACCT+GGG 0.466781 2:+7284449 MsaT006589.1:CDS
TGCTTTCTTACAGCTACCCT+TGG 0.466878 2:-7283111 None:intergenic
CGTAGAACTGGGGCTATGCC+TGG 0.483033 2:-7284442 None:intergenic
GGTCATTGCCTGATTATAAC+GGG 0.486894 2:+7284784 MsaT006589.1:CDS
CTGATTATAACGGGCGGGGA+TGG 0.489078 2:+7284793 MsaT006589.1:CDS
TGATCTGCAGTTTGCTAGGA+AGG 0.490071 2:+7283196 MsaT006589.1:CDS
AGGTCATTGCCTGATTATAA+CGG 0.503019 2:+7284783 MsaT006589.1:CDS
TCCTAGCAAACTGCAGATCA+AGG 0.504979 2:-7283193 None:intergenic
TGGTTGTGGATCCATGTAGT+AGG 0.510429 2:-7284865 None:intergenic
CATCCCAGAATGCGAGGGAG+CGG 0.511232 2:+7284540 MsaT006589.1:CDS
TTTACTGGGAGCTCCTAAGA+TGG 0.517698 2:-7284128 None:intergenic
CCTAGGAAAGCGGAAGGAGG+AGG 0.522377 2:-7284313 None:intergenic
GAAGGAGGAGGGCAGATGCT+TGG 0.522630 2:-7284301 None:intergenic
CTCTCAACAAGATAGTCATA+TGG 0.523925 2:-7285158 None:intergenic
TGTGGATGTCGCGCTTCTTG+AGG 0.525115 2:+7283229 MsaT006589.1:CDS
ATAGGGAATCATGCTGATGT+TGG 0.530158 2:-7284084 None:intergenic
AGCATCACACAGGCTTATCA+AGG 0.532332 2:+7283130 MsaT006589.1:CDS
CACAAGTTCAACCCTTCCGC+GGG 0.534065 2:-7284367 None:intergenic
CCTAATGCCAAGGCTGACAT+AGG 0.540147 2:+7285101 MsaT006589.1:CDS
CCAGATGCTTCGTGAGTGGA+AGG 0.543218 2:+7283262 MsaT006589.1:CDS
GGCACAGGCTTTAGTGAGGA+TGG 0.545649 2:+7284250 MsaT006589.1:CDS
ACCTGCTGCAAAGAAGAAGC+AGG 0.547011 2:-7283305 None:intergenic
AAGTGATGAAAGAGTTTGGA+GGG 0.547030 2:+7284832 MsaT006589.1:CDS
TTAATGGGAAGAAGAGCTCC+AGG 0.549461 2:+7284973 MsaT006589.1:CDS
CATTCTCGACCGATATATGT+AGG 0.550090 2:+7283479 MsaT006589.1:CDS
CAGATGCTTGGTAGATAGGT+AGG 0.551289 2:-7284289 None:intergenic
AACACCACCTATGTCAGCCT+TGG 0.552881 2:-7285108 None:intergenic
GCTTTAAATGAAGGACAACC+AGG 0.554170 2:+7284424 MsaT006589.1:CDS
ATAGCCCCAGTTCTACGACC+TGG 0.557433 2:+7284448 MsaT006589.1:CDS
TGAGGTTTAGATGATTTCCA+AGG 0.559690 2:+7283094 None:intergenic
ATTGCCTGATTATAACGGGC+GGG 0.560379 2:+7284788 MsaT006589.1:CDS
TCCTTGATCTGCAGTTTGCT+AGG 0.561339 2:+7283192 MsaT006589.1:CDS
CAGTAAATCAACTAACAACT+CGG 0.567663 2:+7284144 MsaT006589.1:CDS
ACACAAGTTCAACCCTTCCG+CGG 0.569071 2:-7284368 None:intergenic
TGCAAAGAAGAAGCAGGAGA+AGG 0.571409 2:-7283299 None:intergenic
TAATAACAGACGTTCTGCGA+AGG 0.574903 2:+7285067 MsaT006589.1:CDS
AAGTCTCCGTGGAATGCACC+TGG 0.578340 2:+7284571 MsaT006589.1:CDS
CTAGGAAAGCGGAAGGAGGA+GGG 0.578498 2:-7284312 None:intergenic
GACTGTTCAAGACCCGCGGA+AGG 0.587498 2:+7284355 MsaT006589.1:CDS
GCTCTTAGTGCAAAGACAGA+AGG 0.588265 2:+7284505 MsaT006589.1:CDS
ACAAGATAGTCATATGGTGA+TGG 0.593941 2:-7285152 None:intergenic
AATAACAGACGTTCTGCGAA+GGG 0.594496 2:+7285068 MsaT006589.1:CDS
TTCACCAGATGCTTCGTGAG+TGG 0.596799 2:+7283258 MsaT006589.1:CDS
TTGCCTGATTATAACGGGCG+GGG 0.601917 2:+7284789 MsaT006589.1:CDS
TGCATGTGCGTTATATCGGT+TGG 0.607322 2:+7284938 MsaT006589.1:CDS
CAGAGCCAAACCTAATGCCA+AGG 0.608334 2:+7285091 MsaT006589.1:CDS
AGGAGAAGGCTCATTGAGCT+CGG 0.609324 2:-7283285 None:intergenic
AATCAACTAACAACTCGGAT+AGG 0.609346 2:+7284149 MsaT006589.1:CDS
AGCCCCAGTTCTACGACCTG+GGG 0.611570 2:+7284450 MsaT006589.1:CDS
GATGAAGAGATCCTACTACA+TGG 0.613968 2:+7284854 MsaT006589.1:CDS
CTAATACCAGGTGCATTCCA+CGG 0.614138 2:-7284577 None:intergenic
TGTCGGCATCCCAGAATGCG+AGG 0.614404 2:+7284534 MsaT006589.1:CDS
GCTACTGCAGCTCTGTGAAG+AGG 0.620067 2:+7283501 MsaT006589.1:CDS
AAGACAGAAGGAAAAGATGT+CGG 0.620071 2:+7284517 MsaT006589.1:CDS
TCACATGCATATCATCTACA+TGG 0.620564 2:-7283166 None:intergenic
GAGGTTTAGATGATTTCCAA+GGG 0.620877 2:+7283095 None:intergenic
AGGCACAGCTAATGGACTAG+TGG 0.628612 2:-7283533 None:intergenic
TAGAGGCACAGGCTTTAGTG+AGG 0.634083 2:+7284246 MsaT006589.1:CDS
TTTGAACCTAGGAAAGCGGA+AGG 0.634334 2:-7284319 None:intergenic
CAAGTGATGAAAGAGTTTGG+AGG 0.635336 2:+7284831 MsaT006589.1:CDS
CAACTAACAACTCGGATAGG+CGG 0.636833 2:+7284152 MsaT006589.1:CDS
TCTCGAAGAGCATTTGAGAG+TGG 0.636901 2:+7284747 MsaT006589.1:CDS
ACTGTTCAAGACCCGCGGAA+GGG 0.637959 2:+7284356 MsaT006589.1:CDS
TTGGGACTGTTCAAGACCCG+CGG 0.641938 2:+7284351 MsaT006589.1:CDS
GAAGCGCGACATCCACACTA+CGG 0.643778 2:-7283223 None:intergenic
GAACCTAGGAAAGCGGAAGG+AGG 0.646171 2:-7284316 None:intergenic
CATTGCCTGATTATAACGGG+CGG 0.646439 2:+7284787 MsaT006589.1:CDS
CGGCAACTGCAAAGTCTCCG+TGG 0.652685 2:+7284560 MsaT006589.1:CDS
GTCGGCATCCCAGAATGCGA+GGG 0.657248 2:+7284535 MsaT006589.1:CDS
TAGGAAGGAGAGCCGTAGTG+TGG 0.661628 2:+7283211 MsaT006589.1:CDS
GAGTTGTTAGTTGATTTACT+GGG 0.663415 2:-7284142 None:intergenic
AATGCCAAGGCTGACATAGG+TGG 0.669352 2:+7285104 MsaT006589.1:CDS
GCTGTAAGAAAGCATCACAC+AGG 0.691286 2:+7283120 MsaT006589.1:CDS
ACACAGGCTTATCAAGGACA+AGG 0.694542 2:+7283136 MsaT006589.1:CDS
AGAGTGGAAACAGAAAGCAA+AGG 0.717117 2:+7284763 MsaT006589.1:CDS
GCCCCAGTTCTACGACCTGG+GGG 0.725582 2:+7284451 MsaT006589.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 7283104 7285199 7283104 ID=MsaG006589
Chr2 mRNA 7283104 7285199 7283104 ID=MsaT006589.1;Parent=MsaG006589
Chr2 exon 7283104 7283325 7283104 ID=MsaT006589.1.exon1;Parent=MsaT006589.1
Chr2 CDS 7283104 7283325 7283104 ID=cds.MsaT006589.1;Parent=MsaT006589.1
Chr2 exon 7283463 7283612 7283463 ID=MsaT006589.1.exon2;Parent=MsaT006589.1
Chr2 CDS 7283463 7283612 7283463 ID=cds.MsaT006589.1;Parent=MsaT006589.1
Chr2 exon 7284058 7284592 7284058 ID=MsaT006589.1.exon3;Parent=MsaT006589.1
Chr2 CDS 7284058 7284592 7284058 ID=cds.MsaT006589.1;Parent=MsaT006589.1
Chr2 exon 7284685 7285199 7284685 ID=MsaT006589.1.exon4;Parent=MsaT006589.1
Chr2 CDS 7284685 7285199 7284685 ID=cds.MsaT006589.1;Parent=MsaT006589.1
Gene Sequence

>MsaT006589.1

ATGATTTCCAAGGGTAGCTGTAAGAAAGCATCACACAGGCTTATCAAGGACAAGGCAAAGAACCATGTAGATGATATGCATGTGATGTTCCTTGATCTGCAGTTTGCTAGGAAGGAGAGCCGTAGTGTGGATGTCGCGCTTCTTGAGGAGCAAGTTCACCAGATGCTTCGTGAGTGGAAGGCCGAGCTCAATGAGCCTTCTCCTGCTTCTTCTTTGCAGCAGGGTGGCAGTCTTCGATCATTCTCGACCGATATATGTAGGCTACTGCAGCTCTGTGAAGAGGAAGATGATGCCACTAGTCCATTAGCTGTGCCTAAGCATGAACCTAATGATCAGAATATGCAGACTGAAGCTAAGATGACGTTTCAAGAATTTCTTGGTTTAAATTTAAACCAAAGCCAACATCAGCATGATTCCCTATTAATGGATGAGTACATACACTCCATCTTAGGAGCTCCCAGTAAATCAACTAACAACTCGGATAGGCGGCCTAATTTTGAATCAAAATGTCGTCAATTTGATTTAAATGAAGATTTTAATCACAACTGTTATACTGCTTTTAGAGGCACAGGCTTTAGTGAGGATGGTGTTGTTCCTTATATACCTACCTATCTACCAAGCATCTGCCCTCCTCCTTCCGCTTTCCTAGGTTCAAAATGTGCACTTTGGGACTGTTCAAGACCCGCGGAAGGGTTGAACTTGTGTCAAGACTATTGCAGTAGTTTTCATGCTGCTCTTGCTTTAAATGAAGGACAACCAGGCATAGCCCCAGTTCTACGACCTGGGGGAATTGAAGTTAAGGATAATTTACTGTTAGCTGCTCTTAGTGCAAAGACAGAAGGAAAAGATGTCGGCATCCCAGAATGCGAGGGAGCGGCAACTGCAAAGTCTCCGTGGAATGCACCTGAGCTCTTTGATCTTTTTGTTCTTGAGGGGGAGACTATTAGGGAGTGGCTTTTCTTTGATAAGTCTCGAAGAGCATTTGAGAGTGGAAACAGAAAGCAAAGGTCATTGCCTGATTATAACGGGCGGGGATGGCATGAATCCAGAAAGCAAGTGATGAAAGAGTTTGGAGGGATGAAGAGATCCTACTACATGGATCCACAACCACTAAACCATTTTGAGTGGCATCTTTACGAATATGAAATTAGCAAGTGTGATGCATGTGCGTTATATCGGTTGGAACTAAAGCTTGTTAATGGGAAGAAGAGCTCCAGGACAAAGATAACAAGTGATTCAGTTACTGATCTTCAGAAGCAGATAAGAAGACTCTCTGCCTATTTTCCCTATAATAACAGACGTTCTGCGAAGGGCAGAGCCAAACCTAATGCCAAGGCTGACATAGGTGGTGTTTATACAGCTTCAAACAATGCACCATCACCATATGACTATCTTGTTGAGAGCACAAGCGCTATTATGTGA

Protein sequence

>MsaT006589.1

MISKGSCKKASHRLIKDKAKNHVDDMHVMFLDLQFARKESRSVDVALLEEQVHQMLREWKAELNEPSPASSLQQGGSLRSFSTDICRLLQLCEEEDDATSPLAVPKHEPNDQNMQTEAKMTFQEFLGLNLNQSQHQHDSLLMDEYIHSILGAPSKSTNNSDRRPNFESKCRQFDLNEDFNHNCYTAFRGTGFSEDGVVPYIPTYLPSICPPPSAFLGSKCALWDCSRPAEGLNLCQDYCSSFHAALALNEGQPGIAPVLRPGGIEVKDNLLLAALSAKTEGKDVGIPECEGAATAKSPWNAPELFDLFVLEGETIREWLFFDKSRRAFESGNRKQRSLPDYNGRGWHESRKQVMKEFGGMKRSYYMDPQPLNHFEWHLYEYEISKCDACALYRLELKLVNGKKSSRTKITSDSVTDLQKQIRRLSAYFPYNNRRSAKGRAKPNAKADIGGVYTASNNAPSPYDYLVESTSAIM*