AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780040155.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780040155.01.T01 MTR_7g085420 100.000 34 0 0 28 61 1 34 4.43e-16 72.4
MsG0780040155.01.T01 MTR_7g085420 100.000 34 0 0 28 61 1 34 6.58e-16 72.8
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 30 sgRNAs with CRISPR-Local

Find 39 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTGATGGCTTGTCTGGTTTC+AGG 0.083001 7:-73787182 MsG0780040155.01.T01:CDS
GTAACTTGTTCTTCTCTTGT+GGG 0.327268 7:+73787388 None:intergenic
TTTCTTCTTCTATCTATAAT+GGG 0.337882 7:-73787578 MsG0780040155.01.T01:five_prime_UTR
TTGTGTTGGATATATCTTAC+AGG 0.338812 7:-73787155 MsG0780040155.01.T01:intron
CGCTTGAAGCTTCTCTTCAA+TGG 0.357051 7:-73787440 MsG0780040155.01.T01:CDS
TGATGGCTTGTCTGGTTTCA+GGG 0.383664 7:-73787181 MsG0780040155.01.T01:CDS
TGTAACTTGTTCTTCTCTTG+TGG 0.395733 7:+73787387 None:intergenic
TTCATCATGAACACCTTCAC+TGG 0.398644 7:+73787275 None:intergenic
TTCGATGGTGATGGCTTGTC+TGG 0.422059 7:-73787189 MsG0780040155.01.T01:CDS
CTCCATAAACTCTAAACAAA+TGG 0.426039 7:+73786842 None:intergenic
AACACTTCCCTTTGCTTCTG+AGG 0.456712 7:+73787316 None:intergenic
GTGAACTGTGCCATACCCTT+TGG 0.471048 7:+73787473 None:intergenic
TGGTTTCAGGGGTCTTGTGT+TGG 0.497610 7:-73787169 MsG0780040155.01.T01:CDS
GGCCAGTCAATGTTGTATGC+TGG 0.505235 7:-73786872 MsG0780040155.01.T01:CDS
TTCCAGCATACAACATTGAC+TGG 0.512985 7:+73786870 None:intergenic
AAGACTAAAACCAAAGGGTA+TGG 0.516353 7:-73787483 MsG0780040155.01.T01:CDS
GATGGCTTGTCTGGTTTCAG+GGG 0.524722 7:-73787180 MsG0780040155.01.T01:CDS
CTTCATACCTCAGAAGCAAA+GGG 0.531192 7:-73787323 MsG0780040155.01.T01:CDS
AGAAACTGTGTCATCTCTCA+TGG 0.541184 7:-73787417 MsG0780040155.01.T01:CDS
TCTTCATACCTCAGAAGCAA+AGG 0.544774 7:-73787324 MsG0780040155.01.T01:CDS
ACAAGTACAAATATCTCTGT+AGG 0.547892 7:-73787538 MsG0780040155.01.T01:CDS
CAAGAGAAGAACAAGTTACA+AGG 0.551735 7:-73787384 MsG0780040155.01.T01:CDS
TGAATATGATTCTGTTGATG+AGG 0.582241 7:-73787238 MsG0780040155.01.T01:CDS
GCTGAGGCACGTCCCAGTGA+AGG 0.590374 7:-73787288 MsG0780040155.01.T01:CDS
ATGGCACAGTTCACTGCACA+AGG 0.629424 7:-73787464 MsG0780040155.01.T01:CDS
GATGATGTATTCGATGGTGA+TGG 0.632191 7:-73787198 MsG0780040155.01.T01:CDS
GATGATGATGATGTATTCGA+TGG 0.634533 7:-73787204 MsG0780040155.01.T01:CDS
AGGGAAGTGTTGTAATGCTG+AGG 0.635804 7:-73787304 MsG0780040155.01.T01:CDS
TCATCATGAACACCTTCACT+GGG 0.662574 7:+73787276 None:intergenic
TGAGGTATGAAGAAGATGCA+TGG 0.700753 7:+73787334 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAGCAAAAATTGAAATTTA+AGG + Chr7:73786893-73786912 None:intergenic 15.0%
!! TTTATGAAATTATATAAGCT+TGG + Chr7:73787440-73787459 None:intergenic 15.0%
!! TTTCTTCTTCTATCTATAAT+GGG - Chr7:73786920-73786939 MsG0780040155.01.T01:intron 20.0%
!!! ATTTTTAAGACTAAAACCAA+AGG - Chr7:73787009-73787028 MsG0780040155.01.T01:intron 20.0%
!!! TTTTCTTCTTCTATCTATAA+TGG - Chr7:73786919-73786938 MsG0780040155.01.T01:intron 20.0%
!!! TTTTTAAGACTAAAACCAAA+GGG - Chr7:73787010-73787029 MsG0780040155.01.T01:intron 20.0%
!!! AAACAAAATTGATAACGAGT+TGG - Chr7:73787465-73787484 MsG0780040155.01.T01:CDS 25.0%
ACAAGTACAAATATCTCTGT+AGG - Chr7:73786960-73786979 MsG0780040155.01.T01:intron 30.0%
TGAATATGATTCTGTTGATG+AGG - Chr7:73787260-73787279 MsG0780040155.01.T01:CDS 30.0%
TTGTGTTGGATATATCTTAC+AGG - Chr7:73787343-73787362 MsG0780040155.01.T01:CDS 30.0%
AAGACTAAAACCAAAGGGTA+TGG - Chr7:73787015-73787034 MsG0780040155.01.T01:intron 35.0%
CAAGAGAAGAACAAGTTACA+AGG - Chr7:73787114-73787133 MsG0780040155.01.T01:intron 35.0%
TCAGCAGAAGTCTTGAATAT+TGG + Chr7:73787566-73787585 None:intergenic 35.0%
! GATGATGATGATGTATTCGA+TGG - Chr7:73787294-73787313 MsG0780040155.01.T01:CDS 35.0%
!! GTAACTTGTTCTTCTCTTGT+GGG + Chr7:73787113-73787132 None:intergenic 35.0%
!! TGTAACTTGTTCTTCTCTTG+TGG + Chr7:73787114-73787133 None:intergenic 35.0%
AGAAACTGTGTCATCTCTCA+TGG - Chr7:73787081-73787100 MsG0780040155.01.T01:intron 40.0%
CTTCATACCTCAGAAGCAAA+GGG - Chr7:73787175-73787194 MsG0780040155.01.T01:CDS 40.0%
GATGATGTATTCGATGGTGA+TGG - Chr7:73787300-73787319 MsG0780040155.01.T01:CDS 40.0%
TCATCATGAACACCTTCACT+GGG + Chr7:73787225-73787244 None:intergenic 40.0%
TCTGCTGAGTTGTTTGCTTA+TGG - Chr7:73787578-73787597 MsG0780040155.01.T01:five_prime_UTR 40.0%
TCTTCATACCTCAGAAGCAA+AGG - Chr7:73787174-73787193 MsG0780040155.01.T01:CDS 40.0%
TGAGGTATGAAGAAGATGCA+TGG + Chr7:73787167-73787186 None:intergenic 40.0%
TTCATCATGAACACCTTCAC+TGG + Chr7:73787226-73787245 None:intergenic 40.0%
TTCCAGCATACAACATTGAC+TGG + Chr7:73787631-73787650 None:intergenic 40.0%
AACACTTCCCTTTGCTTCTG+AGG + Chr7:73787185-73787204 None:intergenic 45.0%
CGCTTGAAGCTTCTCTTCAA+TGG - Chr7:73787058-73787077 MsG0780040155.01.T01:intron 45.0%
! TGATGGCTTGTCTGGTTTCA+GGG - Chr7:73787317-73787336 MsG0780040155.01.T01:CDS 45.0%
!! AGGGAAGTGTTGTAATGCTG+AGG - Chr7:73787194-73787213 MsG0780040155.01.T01:CDS 45.0%
ATGGCACAGTTCACTGCACA+AGG - Chr7:73787034-73787053 MsG0780040155.01.T01:intron 50.0%
GACTGCTATCATCATGCTCC+AGG - Chr7:73787605-73787624 MsG0780040155.01.T01:five_prime_UTR 50.0%
GGCCAGTCAATGTTGTATGC+TGG - Chr7:73787626-73787645 MsG0780040155.01.T01:five_prime_UTR 50.0%
GTGAACTGTGCCATACCCTT+TGG + Chr7:73787028-73787047 None:intergenic 50.0%
! GATGGCTTGTCTGGTTTCAG+GGG - Chr7:73787318-73787337 MsG0780040155.01.T01:CDS 50.0%
! GCATACAACATTGACTGGCC+TGG + Chr7:73787626-73787645 None:intergenic 50.0%
! GTGATGGCTTGTCTGGTTTC+AGG - Chr7:73787316-73787335 MsG0780040155.01.T01:CDS 50.0%
! TGGTTTCAGGGGTCTTGTGT+TGG - Chr7:73787329-73787348 MsG0780040155.01.T01:CDS 50.0%
!! TTCGATGGTGATGGCTTGTC+TGG - Chr7:73787309-73787328 MsG0780040155.01.T01:CDS 50.0%
GCTGAGGCACGTCCCAGTGA+AGG - Chr7:73787210-73787229 MsG0780040155.01.T01:CDS 65.0%
Chromosome Type Strat End Strand Name
Chr7 gene 73786853 73787667 73786853 ID=MsG0780040155.01;Name=MsG0780040155.01
Chr7 mRNA 73786853 73787667 73786853 ID=MsG0780040155.01.T01;Parent=MsG0780040155.01;Name=MsG0780040155.01.T01;_AED=0.34;_eAED=0.34;_QI=100|0.83|0.85|1|0.5|0.57|7|0|150
Chr7 exon 73786853 73786893 73786853 ID=MsG0780040155.01.T01:exon:439;Parent=MsG0780040155.01.T01
Chr7 exon 73787156 73787667 73787156 ID=MsG0780040155.01.T01:exon:438;Parent=MsG0780040155.01.T01
Chr7 five_prime_UTR 73787568 73787667 73787568 ID=MsG0780040155.01.T01:five_prime_utr;Parent=MsG0780040155.01.T01
Chr7 CDS 73787156 73787567 73787156 ID=MsG0780040155.01.T01:cds;Parent=MsG0780040155.01.T01
Chr7 CDS 73786853 73786893 73786853 ID=MsG0780040155.01.T01:cds;Parent=MsG0780040155.01.T01
Gene Sequence

>MsG0780040155.01.T01

ATGATCAACAAGTACAAATATCTCTGTAGGAATCAAAGTTTCAAAACAAAGTTACAATTTTTAAGACTAAAACCAAAGGGTATGGCACAGTTCACTGCACAAGGTCGCTTGAAGCTTCTCTTCAATGGAGAAACTGTGTCATCTCTCATGGTTCAGACCCACAAGAGAAGAACAAGTTACAAGGTTCTTCTTCTTTTGCTTCTAGATTTCACCATGCATCTTCTTCATACCTCAGAAGCAAAGGGAAGTGTTGTAATGCTGAGGCACGTCCCAGTGAAGGTGTTCATGATGAATATGCATATGTTTTTGAATATGATTCTGTTGATGAGGATGATGATGATGATGATGATGATGTATTCGATGGTGATGGCTTGTCTGGTTTCAGGGGTCTTGTGTTGGATATATCTTACAGGCCAGTCAATGTTGTATGCTGGAAACGTGCCATTTGTTTAG

Protein sequence

>MsG0780040155.01.T01

MINKYKYLCRNQSFKTKLQFLRLKPKGMAQFTAQGRLKLLFNGETVSSLMVQTHKRRTSYKVLLLLLLDFTMHLLHTSEAKGSVVMLRHVPVKVFMMNMHMFLNMILLMRMMMMMMMMYSMVMACLVSGVLCWIYLTGQSMLYAGNVPFV*