AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380017017.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017017.01.T01 MTR_3g099470 97.561 82 2 0 4 85 184 265 9.33e-52 167
MsG0380017017.01.T01 MTR_3g099470 97.561 82 2 0 4 85 184 265 4.74e-51 167
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380017017.01.T01 AT1G11870 76.829 82 19 0 4 85 151 232 7.07e-39 133
MsG0380017017.01.T01 AT1G11870 76.829 82 19 0 4 85 151 232 1.67e-38 132
MsG0380017017.01.T01 AT1G11870 76.829 82 19 0 4 85 151 232 1.68e-38 133
MsG0380017017.01.T01 AT1G11870 76.829 82 19 0 4 85 17 98 1.88e-38 131
MsG0380017017.01.T01 AT1G11870 76.829 82 19 0 4 85 149 230 5.49e-38 132
MsG0380017017.01.T01 AT1G11870 76.829 82 19 0 4 85 151 232 5.54e-38 132

Find 27 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGACAGGAAAACTAAATTT+AGG 0.239752 3:-90766602 None:intergenic
TCCCCTCCTATAGGAGCATC+TGG 0.416543 3:-90766415 None:intergenic
GGGAGGATTCTTCCACAATA+AGG 0.425570 3:+90766434 MsG0380017017.01.T01:CDS
AACCGTTACATTATGAATGC+AGG 0.433790 3:+90766292 MsG0380017018.01.T01:intron
ACTCATCCAGATGCTCCTAT+AGG 0.434401 3:+90766409 MsG0380017017.01.T01:CDS
GATCAAGTTCCTTTCCAAGT+TGG 0.436930 3:-90766634 None:intergenic
GAAGAATCCTCCCCTCCTAT+AGG 0.451861 3:-90766424 None:intergenic
GCATCTGGATGAGTCATGTT+TGG 0.471368 3:-90766400 None:intergenic
GAAGGAGGGACTTACTGCTT+TGG 0.472224 3:+90766324 MsG0380017017.01.T01:CDS
GTCAAGGATCATCTCCAACT+TGG 0.483492 3:+90766620 MsG0380017017.01.T01:CDS
GCTTAATGATGAGCTTCAAC+GGG 0.499991 3:+90766363 MsG0380017017.01.T01:CDS
AGCTTAATGATGAGCTTCAA+CGG 0.513437 3:+90766362 MsG0380017017.01.T01:CDS
GAATGCAGGGAAGAATTTGA+AGG 0.514570 3:+90766306 MsG0380017017.01.T01:CDS
AAATACCGTCTTCCTTATTG+TGG 0.516317 3:-90766446 None:intergenic
ACCGTTACATTATGAATGCA+GGG 0.536210 3:+90766293 MsG0380017018.01.T01:intron
TACTGCTTTGGAAGAAGACC+TGG 0.548466 3:+90766336 MsG0380017017.01.T01:CDS
AGTTGGAGATGATCCTTGAC+AGG 0.549831 3:-90766617 None:intergenic
CATCCAGATGCTCCTATAGG+AGG 0.557360 3:+90766412 MsG0380017017.01.T01:CDS
ATCCAGATGCTCCTATAGGA+GGG 0.560485 3:+90766413 MsG0380017017.01.T01:CDS
GCAGGGAAGAATTTGAAGGA+GGG 0.582239 3:+90766310 MsG0380017017.01.T01:CDS
GGATCATCTCCAACTTGGAA+AGG 0.583822 3:+90766625 MsG0380017017.01.T01:CDS
TCCAGATGCTCCTATAGGAG+GGG 0.593632 3:+90766414 MsG0380017017.01.T01:CDS
TGCAGGGAAGAATTTGAAGG+AGG 0.611002 3:+90766309 MsG0380017017.01.T01:CDS
TTCTTCCACAATAAGGAAGA+CGG 0.614769 3:+90766441 MsG0380017017.01.T01:CDS
AGATGCTCCTATAGGAGGGG+AGG 0.621334 3:+90766417 MsG0380017017.01.T01:CDS
GCTCATCATTAAGCTTCACC+AGG 0.637240 3:-90766354 None:intergenic
TAATGATGAGCTTCAACGGG+AGG 0.643259 3:+90766366 MsG0380017017.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAGTATTAATGATGTATTTT+GGG + Chr3:90766558-90766577 MsG0380017017.01.T01:intron 15.0%
!!! CAAGTATTAATGATGTATTT+TGG + Chr3:90766557-90766576 MsG0380017017.01.T01:intron 20.0%
! AAGAAAGAAATGAATGGAAT+TGG - Chr3:90766482-90766501 None:intergenic 25.0%
! TTGACAGGAAAACTAAATTT+AGG - Chr3:90766605-90766624 None:intergenic 25.0%
!!! TAAATTTAGTTTTCCTGTCA+AGG + Chr3:90766604-90766623 MsG0380017017.01.T01:CDS 25.0%
TCAGAGAAGAAAGAAATGAA+TGG - Chr3:90766488-90766507 None:intergenic 30.0%
!!! GATGTATTTTGGGATTTTGT+AGG + Chr3:90766568-90766587 MsG0380017017.01.T01:intron 30.0%
!!! TATTTTGGGATTTTGTAGGT+TGG + Chr3:90766572-90766591 MsG0380017017.01.T01:intron 30.0%
AAATACCGTCTTCCTTATTG+TGG - Chr3:90766449-90766468 None:intergenic 35.0%
AGCTTAATGATGAGCTTCAA+CGG + Chr3:90766362-90766381 MsG0380017017.01.T01:CDS 35.0%
TCTTTCTTCTCTGAGTGAAA+AGG + Chr3:90766494-90766513 MsG0380017017.01.T01:intron 35.0%
TTCTTCCACAATAAGGAAGA+CGG + Chr3:90766441-90766460 MsG0380017017.01.T01:CDS 35.0%
GAATGCAGGGAAGAATTTGA+AGG + Chr3:90766306-90766325 MsG0380017017.01.T01:CDS 40.0%
GATCAAGTTCCTTTCCAAGT+TGG - Chr3:90766637-90766656 None:intergenic 40.0%
GCTTAATGATGAGCTTCAAC+GGG + Chr3:90766363-90766382 MsG0380017017.01.T01:CDS 40.0%
TGAGTGAAAAGGTTGCATGT+TGG + Chr3:90766505-90766524 MsG0380017017.01.T01:intron 40.0%
ACTCATCCAGATGCTCCTAT+AGG + Chr3:90766409-90766428 MsG0380017017.01.T01:CDS 45.0%
AGTTGGAGATGATCCTTGAC+AGG - Chr3:90766620-90766639 None:intergenic 45.0%
ATCCAGATGCTCCTATAGGA+GGG + Chr3:90766413-90766432 MsG0380017017.01.T01:CDS 45.0%
GCAGGGAAGAATTTGAAGGA+GGG + Chr3:90766310-90766329 MsG0380017017.01.T01:CDS 45.0%
GCATCTGGATGAGTCATGTT+TGG - Chr3:90766403-90766422 None:intergenic 45.0%
GCTCATCATTAAGCTTCACC+AGG - Chr3:90766357-90766376 None:intergenic 45.0%
GGATCATCTCCAACTTGGAA+AGG + Chr3:90766625-90766644 MsG0380017017.01.T01:CDS 45.0%
GGGAGGATTCTTCCACAATA+AGG + Chr3:90766434-90766453 MsG0380017017.01.T01:CDS 45.0%
GTCAAGGATCATCTCCAACT+TGG + Chr3:90766620-90766639 MsG0380017017.01.T01:CDS 45.0%
TAATGATGAGCTTCAACGGG+AGG + Chr3:90766366-90766385 MsG0380017017.01.T01:CDS 45.0%
TGCAGGGAAGAATTTGAAGG+AGG + Chr3:90766309-90766328 MsG0380017017.01.T01:CDS 45.0%
!! TACTGCTTTGGAAGAAGACC+TGG + Chr3:90766336-90766355 MsG0380017017.01.T01:CDS 45.0%
!! TGATTTTGATGCTGCTGCAG+AGG + Chr3:90766661-90766680 MsG0380017017.01.T01:CDS 45.0%
CATCCAGATGCTCCTATAGG+AGG + Chr3:90766412-90766431 MsG0380017017.01.T01:CDS 50.0%
GAAGAATCCTCCCCTCCTAT+AGG - Chr3:90766427-90766446 None:intergenic 50.0%
GAAGGAGGGACTTACTGCTT+TGG + Chr3:90766324-90766343 MsG0380017017.01.T01:CDS 50.0%
TCCAGATGCTCCTATAGGAG+GGG + Chr3:90766414-90766433 MsG0380017017.01.T01:CDS 50.0%
!! GTTGCATGTTGGTCTTGCTC+AGG + Chr3:90766516-90766535 MsG0380017017.01.T01:intron 50.0%
AGATGCTCCTATAGGAGGGG+AGG + Chr3:90766417-90766436 MsG0380017017.01.T01:CDS 55.0%
!! TCCCCTCCTATAGGAGCATC+TGG - Chr3:90766418-90766437 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr3 gene 90766304 90766688 90766304 ID=MsG0380017017.01;Name=MsG0380017017.01
Chr3 mRNA 90766304 90766688 90766304 ID=MsG0380017017.01.T01;Parent=MsG0380017017.01;Name=MsG0380017017.01.T01;_AED=0.50;_eAED=0.52;_QI=0|1|0|1|1|1|2|0|85
Chr3 exon 90766304 90766462 90766304 ID=MsG0380017017.01.T01:exon:15641;Parent=MsG0380017017.01.T01
Chr3 exon 90766590 90766688 90766590 ID=MsG0380017017.01.T01:exon:15642;Parent=MsG0380017017.01.T01
Chr3 CDS 90766304 90766462 90766304 ID=MsG0380017017.01.T01:cds;Parent=MsG0380017017.01.T01
Chr3 CDS 90766590 90766688 90766590 ID=MsG0380017017.01.T01:cds;Parent=MsG0380017017.01.T01
Gene Sequence

>MsG0380017017.01.T01

ATGAATGCAGGGAAGAATTTGAAGGAGGGACTTACTGCTTTGGAAGAAGACCTGGTGAAGCTTAATGATGAGCTTCAACGGGAGGCGCAGTGTATACCAAACATGACTCATCCAGATGCTCCTATAGGAGGGGAGGATTCTTCCACAATAAGGAAGACGGTTGGTAGCTCTCCTAAATTTAGTTTTCCTGTCAAGGATCATCTCCAACTTGGAAAGGAACTTGATCTTTTTGATTTTGATGCTGCTGCAGAGGTATAG

Protein sequence

>MsG0380017017.01.T01

MNAGKNLKEGLTALEEDLVKLNDELQREAQCIPNMTHPDAPIGGEDSSTIRKTVGSSPKFSFPVKDHLQLGKELDLFDFDAAAEV*