AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG033847

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033847 MtrunA17_Chr6g0479551 87.405 262 22 2 1 257 1 256 4.32e-167 468
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG033847 AT1G18335.1 50.943 265 113 6 3 258 6 262 6.73e-74 231
MsaG033847 AT1G18335.3 51.136 264 112 6 3 257 6 261 4.10e-73 229
MsaG033847 AT1G18335.2 51.136 264 112 6 3 257 6 261 4.10e-73 229

Find 98 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTCATAGGACACGGCTTC+TGG 0.284691 6:-100558451 MsaT033847.1:intron
CTCTCATAGGACACGGCTTC+TGG 0.284691 6:-100558989 MsaT033847.1:intron
CTCTGAATATATTGCGTAAC+AGG 0.291924 6:+100562368 None:intergenic
TTAGCTTAAGAGCTCTATTC+AGG 0.293764 6:+100558085 None:intergenic
CTCTCGTAGGACATGGCTTC+TGG 0.304045 6:-100558627 MsaT033847.1:intron
CAGCCTCATGCTCAGTTGAT+TGG 0.328993 6:+100558939 None:intergenic
TCATGCTCAGTTGATTGGTT+GGG 0.334696 6:+100558944 None:intergenic
AAAGCTGTTACCGTTATAAT+CGG 0.340369 6:+100563557 None:intergenic
ACCATTGGATCAACTTTAGA+AGG 0.362053 6:+100560193 None:intergenic
CTCGTCCTCGGTTGGTTGGA+TGG 0.363059 6:+100558581 None:intergenic
TGTACATTACCGCTTTGTTT+TGG 0.388601 6:-100561405 MsaT033847.1:CDS
TCGTCGTCAGTTGGTTCGTC+GGG 0.389680 6:+100558406 None:intergenic
CAAAGCAGCTTATAGCATAA+AGG 0.405600 6:-100563598 MsaT033847.1:CDS
CTCATGCTCAGTTGATTGGT+TGG 0.408139 6:+100558943 None:intergenic
CTCGGTTGGTTGGATGGGTT+CGG 0.413998 6:+100558587 None:intergenic
CTCTCATAGGACATGACTTC+GGG 0.417664 6:-100558807 MsaT033847.1:intron
CTCGTCCTCAGTTGGTTGGA+TGG 0.420386 6:+100558761 None:intergenic
TTAGCCAATAGGATGTATTT+CGG 0.421672 6:-100558112 MsaT033847.1:CDS
TCGTCCTCAGTTGGTTGGAT+GGG 0.424743 6:+100558762 None:intergenic
CGTGTCCAGGGGAAAGGATT+GGG 0.426522 6:-100561335 MsaT033847.1:CDS
ATATATTCAGAGACTTCTTA+AGG 0.426624 6:-100562357 MsaT033847.1:intron
ACAGCTCGAGCCTCGTGTCC+AGG 0.444598 6:-100561348 MsaT033847.1:CDS
TCGTCCTCGGTTGGTTGGAT+GGG 0.450341 6:+100558582 None:intergenic
ACAAATATATAGCGTGCTTC+AGG 0.453405 6:+100561530 None:intergenic
CAGCCTCGTCCTCGGTTGGT+TGG 0.458465 6:+100558577 None:intergenic
AATTCCGAAATACATCCTAT+TGG 0.458467 6:+100558108 None:intergenic
TCTTCTTGACGACTAGTTGA+AGG 0.460099 6:+100561449 None:intergenic
AAAGGTGAAGCGTAGAGAAA+TGG 0.460189 6:-100561558 MsaT033847.1:CDS
CTCAGTTGATTGGTTGGGGT+CGG 0.462972 6:+100558949 None:intergenic
GTTGATTGGTTGGGGTCGGC+AGG 0.463023 6:+100558953 None:intergenic
CAGCCTCGTCCTCAGTTGGT+TGG 0.465098 6:+100558757 None:intergenic
GTTGGTTGGATGGGGTCGGC+AGG 0.465781 6:+100558771 None:intergenic
CTTAACATGGAAGGGCCATA+TGG 0.467460 6:-100561602 MsaT033847.1:CDS
GCTTTCCCAATCCTTTCCCC+TGG 0.468580 6:+100561330 None:intergenic
AGGATTGGGAAAGCTTCTAA+TGG 0.474839 6:-100561321 MsaT033847.1:CDS
CTGTCGTGCTAACTGTTCAA+AGG 0.475803 6:-100561011 MsaT033847.1:CDS
GTTGGTTCGTCGGGGTCACC+TGG 0.481274 6:+100558415 None:intergenic
CTCGTCGTCAGTTGGTTCGT+CGG 0.482006 6:+100558405 None:intergenic
GGCGTTGTTGTGAGTTGCAT+TGG 0.483691 6:+100563766 None:intergenic
TATTGAGTTTATCGCCCAAA+AGG 0.484999 6:-100561294 MsaT033847.1:intron
CTCAGTTGGTTGGATGGGGT+CGG 0.486235 6:+100558767 None:intergenic
CAGCTCGAGCCTCGTGTCCA+GGG 0.491833 6:-100561347 MsaT033847.1:CDS
GAAGATAGTGGTCCCTTGGT+TGG 0.492453 6:-100561431 MsaT033847.1:CDS
CATGCTCAGTTGATTGGTTG+GGG 0.499435 6:+100558945 None:intergenic
GTTGGTTGGATGGGTTCGGC+AGG 0.501696 6:+100558591 None:intergenic
CAATGCTAACCTTTCGGCAT+CGG 0.501747 6:+100558253 None:intergenic
ACATGAGGAAGTTAGCCAAT+AGG 0.503838 6:-100558123 MsaT033847.1:CDS
CGTCCTCAGTTGGTTGGATG+GGG 0.507573 6:+100558763 None:intergenic
AGGAATTTCAGCCTCGTCCT+CGG 0.509764 6:+100558569 None:intergenic
TCTTGCCACTCAGATCCATA+TGG 0.513626 6:+100561587 None:intergenic
CTCTCCGTGTGTTTAAAGTC+AGG 0.520731 6:-100562413 MsaT033847.1:CDS
TCGTGTCCAGGGGAAAGGAT+TGG 0.525244 6:-100561336 MsaT033847.1:CDS
TGAGTGGCAAGAGGAAGAAA+AGG 0.525897 6:-100561576 MsaT033847.1:CDS
ATCTACAGCTTAACATGGAA+GGG 0.529467 6:-100561610 MsaT033847.1:intron
ATTTCAGCCTCGTCCTCGGT+TGG 0.531048 6:+100558573 None:intergenic
GAGCCTCGTGTCCAGGGGAA+AGG 0.535185 6:-100561341 MsaT033847.1:CDS
AAGCTGTTACCGTTATAATC+GGG 0.540436 6:+100563558 None:intergenic
AATCTACAGCTTAACATGGA+AGG 0.544882 6:-100561611 MsaT033847.1:intron
ATTTCAGCCTCGTCGTCAGT+TGG 0.553072 6:+100558397 None:intergenic
ACCTTCTAAAGTTGATCCAA+TGG 0.555355 6:-100560194 MsaT033847.1:intron
TCAAGAAGATAGTGGTCCCT+TGG 0.557490 6:-100561435 MsaT033847.1:CDS
CATCCAACCAACCGAGGACG+AGG 0.558069 6:-100558580 MsaT033847.1:CDS
ACGTTGATGCCGATGCCGAA+AGG 0.559474 6:-100558262 MsaT033847.1:intron
ATTTCAGCCTCGTCCTCAGT+TGG 0.560819 6:+100558753 None:intergenic
CCTCTCATAGGACATGACTT+CGG 0.565717 6:-100558808 MsaT033847.1:intron
TGTGAGTTGCATTGGTTCCA+CGG 0.567819 6:+100563774 None:intergenic
CATCCAACCAACTGAGGACG+AGG 0.575763 6:-100558760 MsaT033847.1:CDS
AGTTCATACACATAAAGTAC+TGG 0.583472 6:+100561371 None:intergenic
TGTCGTGCTAACTGTTCAAA+GGG 0.585683 6:-100561010 MsaT033847.1:CDS
TAACCTTCTCTCTGTTACGA+CGG 0.587012 6:+100563745 None:intergenic
ACTAGTCGTCAAGAAGATAG+TGG 0.589965 6:-100561443 MsaT033847.1:CDS
CAACCAATCAACTGAGCATG+AGG 0.596952 6:-100558942 MsaT033847.1:CDS
AATCCTTTCCCCTGGACACG+AGG 0.597062 6:+100561338 None:intergenic
CATTGGTTCCACGGTCACGT+TGG 0.600954 6:+100563783 None:intergenic
ACACTCACCAGCAATGAACT+CGG 0.610335 6:-100563813 None:intergenic
CGACCCCATCCAACCAACTG+AGG 0.623573 6:-100558766 MsaT033847.1:CDS
AGCTCGAGCCTCGTGTCCAG+GGG 0.623716 6:-100561346 MsaT033847.1:CDS
AATATATTGCGTAACAGGAG+AGG 0.626761 6:+100562373 None:intergenic
GGATTGAAACAACGGACATG+AGG 0.632408 6:-100558138 MsaT033847.1:CDS
ATATATCAGGATTGAAACAA+CGG 0.638072 6:-100558146 MsaT033847.1:intron
GAGACGCTCCAACGTGACCG+TGG 0.649093 6:-100563791 MsaT033847.1:CDS
ATTGCGTAACAGGAGAGGAA+AGG 0.649302 6:+100562378 None:intergenic
ATATGGATCTGAGTGGCAAG+AGG 0.653218 6:-100561585 MsaT033847.1:CDS
TCTAAATCTACAGCTTAACA+TGG 0.653637 6:-100561615 MsaT033847.1:intron
CGAACCCATCCAACCAACCG+AGG 0.655141 6:-100558586 MsaT033847.1:CDS
CGACGAACCAACTGACGACG+AGG 0.657612 6:-100558404 MsaT033847.1:CDS
GTGTGTTTAAAGTCAGGACA+TGG 0.661363 6:-100562407 MsaT033847.1:CDS
ACGCTATATATTTGTGCACG+AGG 0.663923 6:-100561522 MsaT033847.1:CDS
ACGCCGTCGTAACAGAGAGA+AGG 0.663934 6:-100563748 MsaT033847.1:CDS
TAATGTACAAATCCAACCAA+GGG 0.669573 6:+100561419 None:intergenic
GTAATGTACAAATCCAACCA+AGG 0.669580 6:+100561418 None:intergenic
ATGTCCTGACTTTAAACACA+CGG 0.673198 6:+100562409 None:intergenic
CGTCGTCAGTTGGTTCGTCG+GGG 0.674091 6:+100558407 None:intergenic
ATCAACTTTAGAAGGTGACG+TGG 0.674095 6:+100560201 None:intergenic
GATGACAACAGTGTTGACTG+AGG 0.683653 6:-100561477 MsaT033847.1:CDS
TATAATCGGGAAAAGAATCG+AGG 0.703476 6:+100563571 None:intergenic
CCTCTTCTTCCAAAACAAAG+CGG 0.723548 6:+100561396 None:intergenic
AAGGGCCATATGGATCTGAG+TGG 0.737924 6:-100561592 MsaT033847.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr6 gene 100558099 100563822 100558099 ID=MsaG033847
Chr6 mRNA 100558099 100563822 100558099 ID=MsaT033847.1;Parent=MsaG033847
Chr6 exon 100558099 100558159 100558099 ID=MsaT033847.1.exon13;Parent=MsaT033847.1
Chr6 CDS 100558099 100558159 100558099 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100558263 100558294 100558263 ID=MsaT033847.1.exon12;Parent=MsaT033847.1
Chr6 CDS 100558263 100558294 100558263 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100558393 100558464 100558393 ID=MsaT033847.1.exon11;Parent=MsaT033847.1
Chr6 CDS 100558393 100558464 100558393 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100558569 100558640 100558569 ID=MsaT033847.1.exon10;Parent=MsaT033847.1
Chr6 CDS 100558569 100558640 100558569 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100558749 100558820 100558749 ID=MsaT033847.1.exon9;Parent=MsaT033847.1
Chr6 CDS 100558749 100558820 100558749 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100558931 100559002 100558931 ID=MsaT033847.1.exon8;Parent=MsaT033847.1
Chr6 CDS 100558931 100559002 100558931 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100560057 100560119 100560057 ID=MsaT033847.1.exon7;Parent=MsaT033847.1
Chr6 CDS 100560057 100560119 100560057 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100560195 100560237 100560195 ID=MsaT033847.1.exon6;Parent=MsaT033847.1
Chr6 CDS 100560195 100560237 100560195 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100560970 100561046 100560970 ID=MsaT033847.1.exon5;Parent=MsaT033847.1
Chr6 CDS 100560970 100561046 100560970 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100561295 100561624 100561295 ID=MsaT033847.1.exon4;Parent=MsaT033847.1
Chr6 CDS 100561295 100561624 100561295 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100562358 100562437 100562358 ID=MsaT033847.1.exon3;Parent=MsaT033847.1
Chr6 CDS 100562358 100562437 100562358 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100563568 100563655 100563568 ID=MsaT033847.1.exon2;Parent=MsaT033847.1
Chr6 CDS 100563568 100563655 100563568 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Chr6 exon 100563733 100563822 100563733 ID=MsaT033847.1.exon1;Parent=MsaT033847.1
Chr6 CDS 100563733 100563822 100563733 ID=cds.MsaT033847.1;Parent=MsaT033847.1
Gene Sequence

>MsaT033847.1

ATGAACTCGGAGACGCTCCAACGTGACCGTGGAACCAATGCAACTCACAACAACGCCGTCGTAACAGAGAGAAGGTTAACACGCAGCGAACTTCTCGCAAAGAAGAACGCAAATGAACAACTCATCAAAGCAGCTTATAGCATAAAGGATCACCTCGATTCTTTTCCCGATTATAACGGTCTCTCCGTGTGTTTAAAGTCAGGACATGGCACTAACCTTTCCTCTCCTGTTACGCAATATATTCAGAGACTTCTTAAGCTTAACATGGAAGGGCCATATGGATCTGAGTGGCAAGAGGAAGAAAAGGTGAAGCGTAGAGAAATGGTTGATCCTGAAGCACGCTATATATTTGTGCACGAGGTTACTAATGCAAATGCTGACGAGATGACAACAGTGTTGACTGAGGAAGATCCTTCAACTAGTCGTCAAGAAGATAGTGGTCCCTTGGTTGGATTTGTACATTACCGCTTTGTTTTGGAAGAAGAGGTACCAGTACTTTATGTGTATGAACTACAGCTCGAGCCTCGTGTCCAGGGGAAAGGATTGGGAAAGCTTCTAATGGAACTTATTGAGTTTATCGCCCAAAAGAACTGCATGGGTGCTGTCGTGCTAACTGTTCAAAGGGCGAACATATCAGCTATGAATTTTTACACTAGTAAACTAAGATATATCATATCAGCCACGTCACCTTCTAAAGTTGATCCAATGATGGAGAAGAGTTATGAAATTCTTTGCAGAATATTTAATGATGAAGCTAAAACTATTTTTGAGGACACGGCTTCTGGCGTTGATACTTTTCCTGCCGACCCCAACCAATCAACTGAGCATGAGGCTGAAATTCCTGACATGACTTCGGGCATTGATACTTTTCCTGCCGACCCCATCCAACCAACTGAGGACGAGGCTGAAATTCTTGACATGGCTTCTGGCATTGATACTTTTCCTGCCGAACCCATCCAACCAACCGAGGACGAGGCTGAAATTCCTGACACGGCTTCTGGCGTTGATACTTTTCCAGGTGACCCCGACGAACCAACTGACGACGAGGCTGAAATTCCTTCGGATGATGACGTTGATGCCGATGCCGAAAGGATTGAAACAACGGACATGAGGAAGTTAGCCAATAGGATGTATTTCGGAATTCCTGAATAG
Protein sequence

>MsaT033847.1

MNSETLQRDRGTNATHNNAVVTERRLTRSELLAKKNANEQLIKAAYSIKDHLDSFPDYNGLSVCLKSGHGTNLSSPVTQYIQRLLKLNMEGPYGSEWQEEEKVKRREMVDPEARYIFVHEVTNANADEMTTVLTEEDPSTSRQEDSGPLVGFVHYRFVLEEEVPVLYVYELQLEPRVQGKGLGKLLMELIEFIAQKNCMGAVVLTVQRANISAMNFYTSKLRYIISATSPSKVDPMMEKSYEILCRIFNDEAKTIFEDTASGVDTFPADPNQSTEHEAEIPDMTSGIDTFPADPIQPTEDEAEILDMASGIDTFPAEPIQPTEDEAEIPDTASGVDTFPGDPDEPTDDEAEIPSDDDVDADAERIETTDMRKLANRMYFGIPE*