AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG002482

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002482 MtrunA17_Chr1g0175201 95.904 293 9 1 1 290 1 293 0.0 573
MsaG002482 MtrunA17_Chr7g0258611 70.066 304 71 9 1 287 1 301 2.28e-135 385
MsaG002482 MtrunA17_Chr1g0213721 59.533 257 91 6 43 290 6 258 3.58e-100 294
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG002482 AT3G12130.1 51.163 301 82 9 1 290 1 247 1.28e-81 246
MsaG002482 AT5G06770.6 51.402 214 88 7 87 290 10 217 2.46e-58 186
MsaG002482 AT5G06770.6 71.698 53 15 0 20 72 4 56 8.21e-21 89.0
MsaG002482 AT5G06770.1 51.402 214 88 7 87 290 32 239 2.75e-58 187
MsaG002482 AT5G06770.1 66.667 78 20 2 1 72 1 78 2.61e-28 109
MsaG002482 AT5G06770.3 51.741 201 81 7 100 290 18 212 7.54e-55 177
MsaG002482 AT5G06770.2 51.741 201 81 7 100 290 18 212 7.54e-55 177
MsaG002482 AT5G06770.4 51.741 201 81 7 100 290 18 212 7.54e-55 177
MsaG002482 AT3G12130.2 63.924 158 49 4 139 290 20 175 2.19e-53 172
MsaG002482 AT5G06770.5 59.333 150 56 4 141 290 23 167 4.43e-51 166

Find 96 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTCAATGTTTCTAAGATT+TGG 0.218015 1:-42007823 None:intergenic
TCTGCTGAAGGCTGCAAATT+TGG 0.233846 1:+42007517 MsaT002482.1:CDS
TTGGTCTTGATGTTTCTTCC+AGG 0.287578 1:-42007970 None:intergenic
ATGTTTCTTCCAGGTGCGGC+TGG 0.289209 1:-42007961 None:intergenic
CCCATTCACCATGGGCAAAA+TGG 0.307326 1:-42007549 None:intergenic
GTTCAATGTTTCTAAGATTT+GGG 0.309393 1:-42007822 None:intergenic
GATCAGTGTAGAAGCTTCTT+TGG 0.311263 1:+42007708 MsaT002482.1:CDS
GGAGCACCCAGGGTGGATTT+AGG 0.312131 1:-42007925 None:intergenic
TAAGATTTGGGTCAGATTCA+TGG 0.329032 1:-42007810 None:intergenic
CAGGTTTAAGATTCATCATC+TGG 0.330164 1:-42007408 None:intergenic
AGGGTTGATTCTGCTGTTAA+TGG 0.335856 1:+42004489 MsaT002482.1:CDS
ACTGATCTTGGCAGTGGAAT+TGG 0.339065 1:-42007692 None:intergenic
GCTAAAGGATCCTGCACATT+TGG 0.348312 1:+42008009 MsaT002482.1:CDS
CCCTCGTTTGCGGGCATCCA+TGG 0.349169 1:-42004466 None:intergenic
CACTTCTCACATCATGTTCC+CGG 0.349238 1:+42007367 MsaT002482.1:CDS
GGTGGGACGGCAACATTTCT+AGG 0.354287 1:-42007439 None:intergenic
GGTCGAGTTGAGGCTCCTTC+TGG 0.361759 1:+42007646 MsaT002482.1:CDS
ATCAACCCTCCCTCGTTTGC+GGG 0.367443 1:-42004475 None:intergenic
TTGAAAATTTGACTCCTGTT+TGG 0.371380 1:-42007780 None:intergenic
TCTTTGGCTGGAGCTATCAT+TGG 0.389153 1:+42007724 MsaT002482.1:CDS
GTTGAGGCTCCTTCTGGTCT+AGG 0.393390 1:+42007652 MsaT002482.1:CDS
TCCACCCTGGGTGCTCCTGC+TGG 0.401990 1:+42007931 MsaT002482.1:CDS
AGCATTGCTGGCTGTCCATT+TGG 0.402746 1:+42007334 MsaT002482.1:intron
GGTCTAGGCGGTACTAGCTT+TGG 0.431440 1:+42007667 MsaT002482.1:CDS
AGAAGCTTCTACACTGATCT+TGG 0.443492 1:-42007704 None:intergenic
AGCAAAATTCTCACACAGCT+TGG 0.448378 1:-42007989 None:intergenic
GCCGCTGAATTGCGAAAGAT+AGG 0.451271 1:+42008057 MsaT002482.1:CDS
GGTGGTGGCCCAGCCGCACC+TGG 0.454343 1:+42007952 MsaT002482.1:CDS
CTGGGTGCTCCTGCTGGTGG+TGG 0.456820 1:+42007937 MsaT002482.1:CDS
GCAACAGAAATGGACTCAAC+TGG 0.458170 1:+42005518 MsaT002482.1:intron
CTTAGAAACATTGAACTTGA+GGG 0.465557 1:+42007829 MsaT002482.1:CDS
GGCATACGACCAACATTTGT+AGG 0.466912 1:-42007622 None:intergenic
ACAAATGTTGGTCGTATGCC+TGG 0.469504 1:+42007625 MsaT002482.1:CDS
GCGGCTGGGCCACCACCAGC+AGG 0.473223 1:-42007946 None:intergenic
TTCGCAATTCAGCGGCTCCA+TGG 0.475467 1:-42008050 None:intergenic
AGTGTAGAAGCTTCTTTGGC+TGG 0.476113 1:+42007712 MsaT002482.1:CDS
CCAACATTTGTAGGTGCCAT+TGG 0.476227 1:-42007613 None:intergenic
AAGCAGATATGTCGCCAAAC+AGG 0.477279 1:+42007766 MsaT002482.1:CDS
AATCAACCCTCCCTCGTTTG+CGG 0.479400 1:-42004476 None:intergenic
TGTTTCTTCCAGGTGCGGCT+GGG 0.483249 1:-42007960 None:intergenic
TGCCCCACCTAAATCCACCC+TGG 0.484995 1:+42007918 MsaT002482.1:CDS
TCATCAACTGATGGAGCAAA+AGG 0.487156 1:-42007583 None:intergenic
AAGTGACAACCCTCACCAAA+TGG 0.487932 1:-42007349 None:intergenic
TCGCAATTCAGCGGCTCCAT+GGG 0.491844 1:-42008049 None:intergenic
GCCCCACCTAAATCCACCCT+GGG 0.494162 1:+42007919 MsaT002482.1:CDS
TGCTGGCTGTCCATTTGGTG+AGG 0.513418 1:+42007339 MsaT002482.1:CDS
GGCTGGAGCTATCATTGGAA+AGG 0.517932 1:+42007729 MsaT002482.1:CDS
ACATTTCTAGGAGGTGCAGC+AGG 0.522238 1:-42007427 None:intergenic
GCTGGCTGTCCATTTGGTGA+GGG 0.526668 1:+42007340 MsaT002482.1:CDS
TCTTAGAAACATTGAACTTG+AGG 0.528176 1:+42007828 MsaT002482.1:CDS
ACATCTTTCTCCAAATGTGC+AGG 0.531941 1:-42008019 None:intergenic
ACCCTGGGTGCTCCTGCTGG+TGG 0.535033 1:+42007934 MsaT002482.1:CDS
GCTGGAGCTATCATTGGAAA+GGG 0.536163 1:+42007730 MsaT002482.1:CDS
CACCCAGGGTGGATTTAGGT+GGG 0.536478 1:-42007921 None:intergenic
ACCGAGTTCCCATTCACCAT+GGG 0.537718 1:-42007557 None:intergenic
GGCAACGGCATTATAACCAC+CGG 0.537881 1:-42007386 None:intergenic
ACCACCAGCAGGAGCACCCA+GGG 0.538705 1:-42007935 None:intergenic
GCACCCAGGGTGGATTTAGG+TGG 0.545220 1:-42007922 None:intergenic
GCCCATGGTGAATGGGAACT+CGG 0.546163 1:+42007556 MsaT002482.1:CDS
AACAAGTTTAATTCTGCTGA+AGG 0.547801 1:+42007505 MsaT002482.1:CDS
TCCTATCTTTCGCAATTCAG+CGG 0.550243 1:-42008058 None:intergenic
CCATTGTTAGAGACTGGTGG+TGG 0.553953 1:-42007457 None:intergenic
GCAGAACCATTGTTAGAGAC+TGG 0.559543 1:-42007463 None:intergenic
CTAGTACCGCCTAGACCAGA+AGG 0.560068 1:-42007661 None:intergenic
TGGATGCCCGCAAACGAGGG+AGG 0.563890 1:+42004469 MsaT002482.1:CDS
AAGATTCATCATCTGGGCAA+CGG 0.568550 1:-42007401 None:intergenic
GGACGGTGATCATCAACTGA+TGG 0.568940 1:-42007592 None:intergenic
CCAATGGCACCTACAAATGT+TGG 0.569357 1:+42007613 MsaT002482.1:CDS
TTCTACACTGATCTTGGCAG+TGG 0.569888 1:-42007698 None:intergenic
ACCATGGATGCCCGCAAACG+AGG 0.575371 1:+42004465 None:intergenic
CATTTGTAGGTGCCATTGGA+CGG 0.575412 1:-42007609 None:intergenic
GGATGCCCGCAAACGAGGGA+GGG 0.582958 1:+42004470 MsaT002482.1:CDS
CACCACCAGCAGGAGCACCC+AGG 0.583302 1:-42007936 None:intergenic
CCATGGATGCCCGCAAACGA+GGG 0.583791 1:+42004466 None:intergenic
GAAAGATGTCACTTTGCCCA+TGG 0.584192 1:+42008033 MsaT002482.1:CDS
CTTGATGTTTCTTCCAGGTG+CGG 0.585145 1:-42007965 None:intergenic
CCACCACCAGTCTCTAACAA+TGG 0.586111 1:+42007457 MsaT002482.1:CDS
GAAATGGACTCAACTGGTGT+AGG 0.590424 1:+42005524 MsaT002482.1:intron
AGGTTTAAGATTCATCATCT+GGG 0.591191 1:-42007407 None:intergenic
AATTAAACTTGTTACATATG+CGG 0.591258 1:-42007495 None:intergenic
TACCGAGTTCCCATTCACCA+TGG 0.592664 1:-42007558 None:intergenic
AGTTGATGATCACCGTCCAA+TGG 0.605823 1:+42007597 MsaT002482.1:CDS
GAAGGAGCCTCAACTCGACC+AGG 0.607588 1:-42007643 None:intergenic
GTTAGAGACTGGTGGTGGGA+CGG 0.609323 1:-42007452 None:intergenic
TCGTATGCCTGGTCGAGTTG+AGG 0.614018 1:+42007636 MsaT002482.1:CDS
GGAGCTATCATTGGAAAGGG+TGG 0.621933 1:+42007733 MsaT002482.1:CDS
ACCCAGGGTGGATTTAGGTG+GGG 0.640360 1:-42007920 None:intergenic
AATTGCACAAGCAAGTAACA+TGG 0.648235 1:+42007864 MsaT002482.1:CDS
TCCGTCAAGAAAACCAAACA+AGG 0.648477 1:+42004513 MsaT002482.1:CDS
GCAACGGCATTATAACCACC+GGG 0.654418 1:-42007385 None:intergenic
TTCTCACATCATGTTCCCGG+TGG 0.667160 1:+42007370 MsaT002482.1:CDS
ACCAGCAGGAGCACCCAGGG+TGG 0.680551 1:-42007932 None:intergenic
GAACCATTGTTAGAGACTGG+TGG 0.695821 1:-42007460 None:intergenic
GGGACGGCAACATTTCTAGG+AGG 0.703018 1:-42007436 None:intergenic
CATTGTTAGAGACTGGTGGT+GGG 0.703285 1:-42007456 None:intergenic
GAGGCTCCTTCTGGTCTAGG+CGG 0.707296 1:+42007655 MsaT002482.1:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr1 gene 42004468 42008086 42004468 ID=MsaG002482
Chr1 mRNA 42004468 42008086 42004468 ID=MsaT002482.1;Parent=MsaG002482
Chr1 exon 42004468 42004534 42004468 ID=MsaT002482.1.exon1;Parent=MsaT002482.1
Chr1 CDS 42004468 42004534 42004468 ID=cds.MsaT002482.1;Parent=MsaT002482.1
Chr1 exon 42005525 42005579 42005525 ID=MsaT002482.1.exon2;Parent=MsaT002482.1
Chr1 CDS 42005525 42005579 42005525 ID=cds.MsaT002482.1;Parent=MsaT002482.1
Chr1 exon 42007336 42008086 42007336 ID=MsaT002482.1.exon3;Parent=MsaT002482.1
Chr1 CDS 42007336 42008086 42007336 ID=cds.MsaT002482.1;Parent=MsaT002482.1
Gene Sequence

>MsaT002482.1

ATGGATGCCCGCAAACGAGGGAGGGTTGATTCTGCTGTTAATGGCTCCGTCAAGAAAACCAAACAAGAAATGGACTCAACTGGTGTAGGAAGCAAAACGAAGCCTTGTACCAAGTTTTTCAGCATTGCTGGCTGTCCATTTGGTGAGGGTTGTCACTTCTCACATCATGTTCCCGGTGGTTATAATGCCGTTGCCCAGATGATGAATCTTAAACCTGCTGCACCTCCTAGAAATGTTGCCGTCCCACCACCAGTCTCTAACAATGGTTCTGCTGTTAAAAGCCGCATATGTAACAAGTTTAATTCTGCTGAAGGCTGCAAATTTGGTGACAAGTGCCATTTTGCCCATGGTGAATGGGAACTCGGTAAACCTTTTGCTCCATCAGTTGATGATCACCGTCCAATGGCACCTACAAATGTTGGTCGTATGCCTGGTCGAGTTGAGGCTCCTTCTGGTCTAGGCGGTACTAGCTTTGGTGCCAATTCCACTGCCAAGATCAGTGTAGAAGCTTCTTTGGCTGGAGCTATCATTGGAAAGGGTGGTGTGCACTCGAAGCAGATATGTCGCCAAACAGGAGTCAAATTTTCAATTCGAGACCATGAATCTGACCCAAATCTTAGAAACATTGAACTTGAGGGAACATTTGATCAAATTGCACAAGCAAGTAACATGGTAAAAGATTTGCTTTTGACTCTATCAGTGTCTGCCCCACCTAAATCCACCCTGGGTGCTCCTGCTGGTGGTGGCCCAGCCGCACCTGGAAGAAACATCAAGACCAAGCTGTGTGAGAATTTTGCTAAAGGATCCTGCACATTTGGAGAAAGATGTCACTTTGCCCATGGAGCCGCTGAATTGCGAAAGATAGGAATCTAA
Protein sequence

>MsaT002482.1

MDARKRGRVDSAVNGSVKKTKQEMDSTGVGSKTKPCTKFFSIAGCPFGEGCHFSHHVPGGYNAVAQMMNLKPAAPPRNVAVPPPVSNNGSAVKSRICNKFNSAEGCKFGDKCHFAHGEWELGKPFAPSVDDHRPMAPTNVGRMPGRVEAPSGLGGTSFGANSTAKISVEASLAGAIIGKGGVHSKQICRQTGVKFSIRDHESDPNLRNIELEGTFDQIAQASNMVKDLLLTLSVSAPPKSTLGAPAGGGPAAPGRNIKTKLCENFAKGSCTFGERCHFAHGAAELRKIGI*