AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa ssp. caerulea / MsaG011035


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011035 MtrunA17_Chr2g0331871 98.071 311 1 2 1 306 1 311 0.0 620
MsaG011035 MtrunA17_Chr4g0004341 47.950 317 127 9 1 306 1 290 3.60e-77 237
MsaG011035 MtrunA17_Chr1g0185481 38.462 143 63 5 133 268 142 266 4.32e-18 82.4
MsaG011035 MtrunA17_Chr7g0259991 47.887 71 35 1 198 268 132 200 3.74e-15 72.8
MsaG011035 MtrunA17_Chr1g0210351 28.689 244 96 9 29 265 26 198 1.54e-13 69.3
MsaG011035 MtrunA17_Chr1g0205341 42.188 64 34 1 203 266 117 177 3.70e-12 64.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsaG011035 AT1G79960.1 36.025 322 145 10 1 295 1 288 5.85e-47 160
MsaG011035 AT5G04820.1 35.338 133 62 4 134 266 102 210 2.82e-14 72.0
MsaG011035 AT4G14860.1 45.312 64 28 2 204 265 109 167 1.65e-11 62.4

Find 50 sgRNAs with CRISPR-Local

Find sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGAGTCCTTACGACGATTTC+AGG 0.179517 2:+80594266 MsaT011035.1:CDS
AAGCAGGTTACCATAGAATT+TGG 0.233067 2:+80594541 MsaT011035.1:CDS
GAAAATTGATTGGGACTTCA+TGG 0.309098 2:+80594345 MsaT011035.1:CDS
TTTGCAGCCAGAGAGCATTT+TGG 0.332403 2:-80593735 None:intergenic
CAGGAACCACCAATACGTTT+TGG 0.387081 2:-80593977 None:intergenic
ACAATCAAAGGAAAATTGAT+TGG 0.389239 2:+80594335 MsaT011035.1:CDS
CTAAGAGGAACCAAATTCTA+TGG 0.390296 2:-80594551 None:intergenic
CTCACGCTGCACGGCTTCGC+CGG 0.422369 2:-80594478 None:intergenic
GTTAATCGAATTTGAGGCTG+TGG 0.438345 2:-80593713 None:intergenic
TATTGGTGGTTCCTGGTTGT+TGG 0.439269 2:+80593985 MsaT011035.1:CDS
TTAGGATTGGTAGGGAAGTC+AGG 0.440786 2:+80594506 MsaT011035.1:CDS
CAAAACGTATTGGTGGTTCC+TGG 0.454127 2:+80593978 MsaT011035.1:CDS
GAGTTGGTGGAATCAAAGTA+TGG 0.465659 2:+80594301 MsaT011035.1:CDS
CGTGCAGCGTGAGAACTGTT+AGG 0.465944 2:+80594488 MsaT011035.1:CDS
TTGATCTCATCACTGTTATG+AGG 0.467638 2:+80594437 MsaT011035.1:CDS
GAAGAATTCAGAGGCTGCTC+CGG 0.469764 2:+80594459 MsaT011035.1:CDS
CGATTAACCAAAATGCTCTC+TGG 0.470779 2:+80593728 MsaT011035.1:CDS
AACAGTGCAACACAATTCTC+AGG 0.479484 2:-80594232 None:intergenic
AGGTAACTCAGGATCATTGA+TGG 0.483746 2:+80594075 MsaT011035.1:CDS
ACACCACCTCAAGATCTTTG+TGG 0.490451 2:+80594028 MsaT011035.1:CDS
CAATCAAAGGAAAATTGATT+GGG 0.491479 2:+80594336 MsaT011035.1:CDS
TGAAATTCTCAAAGAGAAAA+CGG 0.493044 2:-80593862 None:intergenic
ATCAATGATCCTGAGTTACC+TGG 0.499280 2:-80594073 None:intergenic
AACAGCATCACCTTCAAAAG+AGG 0.511692 2:+80594168 MsaT011035.1:CDS
TGAGAACTGTTAGGATTGGT+AGG 0.512241 2:+80594497 MsaT011035.1:CDS
GCGATCAATGCAAGAGTTGG+TGG 0.513161 2:+80594288 MsaT011035.1:CDS
CTGAAATCGTCGTAAGGACT+CGG 0.524949 2:-80594265 None:intergenic
TTTGTTGAGGTAATCTTGAA+GGG 0.525082 2:-80593675 None:intergenic
CAGGCGATCAATGCAAGAGT+TGG 0.529425 2:+80594285 MsaT011035.1:CDS
AAATTCTATGGTAACCTGCT+TGG 0.538786 2:-80594539 None:intergenic
TTTGTTGTTAACGGCGTTTG+AGG 0.539359 2:-80593807 None:intergenic
GAGGAACCACCAAAACGTAT+TGG 0.549662 2:+80593968 MsaT011035.1:CDS
GCACGATTCTTCGTGAAACC+AGG 0.558059 2:+80594055 MsaT011035.1:CDS
TATGTTTCTGCCGTTATCCA+AGG 0.558329 2:-80593780 None:intergenic
TTAATCGAATTTGAGGCTGT+GGG 0.576513 2:-80593712 None:intergenic
AGCGTGAGAACTGTTAGGAT+TGG 0.583174 2:+80594493 MsaT011035.1:CDS
CTAACAGTTCTCACGCTGCA+CGG 0.587798 2:-80594487 None:intergenic
TTCGTGAAACCAGGTAACTC+AGG 0.588008 2:+80594064 MsaT011035.1:CDS
CAGGAAGAAGAAGACCAAGC+AGG 0.606262 2:+80594525 MsaT011035.1:CDS
TCTCGGTGACTCCAACAACC+AGG 0.608261 2:-80593996 None:intergenic
GTAAGATTGAAAACAATCAA+AGG 0.608557 2:+80594323 MsaT011035.1:CDS
GAACCACCAAAACGTATTGG+TGG 0.614019 2:+80593971 MsaT011035.1:CDS
GCTGAGCCACAAAGATCTTG+AGG 0.618030 2:-80594034 None:intergenic
TGTGATGATTGTGATCATCA+TGG 0.625055 2:-80594204 None:intergenic
GATCGCCTGAAATCGTCGTA+AGG 0.629682 2:-80594271 None:intergenic
GAGAACTGTTAGGATTGGTA+GGG 0.631326 2:+80594498 MsaT011035.1:CDS
GGTGGTGTTGTAATGAATCT+CGG 0.636568 2:-80594013 None:intergenic
AATTGATTGGGACTTCATGG+AGG 0.677814 2:+80594348 MsaT011035.1:CDS
TGTTATGAGGAAGAATTCAG+AGG 0.682074 2:+80594450 MsaT011035.1:CDS
GAGCCACAAAGATCTTGAGG+TGG 0.753269 2:-80594031 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
Chromosome Type Strat End Strand Name
Chr2 gene 80593653 80594573 80593653 ID=MsaG011035
Chr2 mRNA 80593653 80594573 80593653 ID=MsaT011035.1;Parent=MsaG011035
Chr2 exon 80593653 80594573 80593653 ID=MsaT011035.1.exon1;Parent=MsaT011035.1
Chr2 CDS 80593653 80594573 80593653 ID=cds.MsaT011035.1;Parent=MsaT011035.1
Gene Sequence

>MsaT011035.1

ATGCCTAAGAAGCTTCAAAAAACCCTTCAAGATTACCTCAACAAAATCAAAAACAAAAACCCACAGCCTCAAATTCGATTAACCAAAATGCTCTCTGGCTGCAAACATCCCAAAACACCATCTTTTTCCTTGGATAACGGCAGAAACATATCATCCTCAAACGCCGTTAACAACAAAATCAATGATGCTGCAACACTAGCTGACGTTGACCGTTTTCTCTTTGAGAATTTCAAGTCTCTATATTTCAAAGATGATGAAGAAACAGAACAAAACAACAACAACAAAAACAAAAGAATCTCGGATGAAAAAAACAACGAGGAACCACCAAAACGTATTGGTGGTTCCTGGTTGTTGGAGTCACCGAGATTCATTACAACACCACCTCAAGATCTTTGTGGCTCAGCACGATTCTTCGTGAAACCAGGTAACTCAGGATCATTGATGGAAGATGCACTGTCTCTAACAAACAGTGATGAAGCTGATTCGAGTAATTCGAATAATTCAAATTCATCATCAACAGCATCACCTTCAAAAGAGGTTATTGTAGTAAACCATGATGATCACAATCATCACACTCTTCCTGAGAATTGTGTTGCACTGTTATCATATTCTCCGAGTCCTTACGACGATTTCAGGCGATCAATGCAAGAGTTGGTGGAATCAAAGTATGGTAAGATTGAAAACAATCAAAGGAAAATTGATTGGGACTTCATGGAGGAGATTTTGTTTTGTTATCTTAATGTTAATGAGAAAAAATCTCATAAGTTTATATTAAGTGCTTTTGTTGATCTCATCACTGTTATGAGGAAGAATTCAGAGGCTGCTCCGGCGAAGCCGTGCAGCGTGAGAACTGTTAGGATTGGTAGGGAAGTCAGGAAGAAGAAGACCAAGCAGGTTACCATAGAATTTGGTTCCTCTTAG

Protein sequence

>MsaT011035.1

MPKKLQKTLQDYLNKIKNKNPQPQIRLTKMLSGCKHPKTPSFSLDNGRNISSSNAVNNKINDAATLADVDRFLFENFKSLYFKDDEETEQNNNNKNKRISDEKNNEEPPKRIGGSWLLESPRFITTPPQDLCGSARFFVKPGNSGSLMEDALSLTNSDEADSSNSNNSNSSSTASPSKEVIVVNHDDHNHHTLPENCVALLSYSPSPYDDFRRSMQELVESKYGKIENNQRKIDWDFMEEILFCYLNVNEKKSHKFILSAFVDLITVMRKNSEAAPAKPCSVRTVRIGREVRKKKTKQVTIEFGSS*