AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480021999.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021999.01.T01 MTR_4g080350 98.701 77 1 0 6 82 265 341 5.86e-48 155
MsG0480021999.01.T01 MTR_2g083920 65.789 76 25 1 4 79 168 242 2.00e-15 68.6
MsG0480021999.01.T01 MTR_2g083920 65.789 76 25 1 4 79 261 335 3.98e-15 68.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480021999.01.T01 AT2G42750 64.000 75 26 1 4 78 267 340 5.59e-14 65.5

Find 34 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AACAATCCATAATTGTAATT+TGG 0.087736 4:-66955625 MsG0480021999.01.T01:three_prime_UTR
GATATGTTATAGGGAGAATA+AGG 0.197178 4:+66955718 None:intergenic
ATTTACCCAAATTACAATTA+TGG 0.212028 4:+66955619 None:intergenic
ACAATCCATAATTGTAATTT+GGG 0.267467 4:-66955624 MsG0480021999.01.T01:three_prime_UTR
ATTCAATGACATGCTATATA+TGG 0.294688 4:+66955669 None:intergenic
CTGCAGCTGCTGCTAGAAAA+TGG 0.315567 4:-66955826 MsG0480021999.01.T01:CDS
GGACAGAGAGGATATGTTAT+AGG 0.342543 4:+66955708 None:intergenic
ATGATAAAACAAATTCATAC+TGG 0.346560 4:-66956120 MsG0480021999.01.T01:CDS
GACAGAGAGGATATGTTATA+GGG 0.372647 4:+66955709 None:intergenic
TTGGTGGAGGAGGTTGCCTC+TGG 0.390847 4:+66955752 None:intergenic
CCAAGAGACTACGAAAATTC+AGG 0.392251 4:-66956079 MsG0480021999.01.T01:intron
TCACTAGTCCTTGGTGGAGG+AGG 0.467131 4:+66955742 None:intergenic
AACAATTATGAGTGTCGTGC+AGG 0.488623 4:-66956179 None:intergenic
TCTGGAAGTTTAACTGTGGA+AGG 0.518280 4:+66955770 None:intergenic
TATGGATGAATTAATTACAT+TGG 0.523638 4:+66955687 None:intergenic
GAATAAGGGTCACTAGTCCT+TGG 0.548570 4:+66955733 None:intergenic
ATATGTTATAGGGAGAATAA+GGG 0.562973 4:+66955719 None:intergenic
TTTATAGCAGTATATACAAA+GGG 0.568887 4:-66955579 MsG0480021999.01.T01:three_prime_UTR
TAAGGGTCACTAGTCCTTGG+TGG 0.575476 4:+66955736 None:intergenic
GAAAATGGAGGGAATACTCA+AGG 0.578572 4:-66955811 MsG0480021999.01.T01:CDS
TGATAAAACAAATTCATACT+GGG 0.578815 4:-66956119 MsG0480021999.01.T01:CDS
GGGTCACTAGTCCTTGGTGG+AGG 0.597344 4:+66955739 None:intergenic
ATGGAGGGAATACTCAAGGA+AGG 0.597715 4:-66955807 MsG0480021999.01.T01:CDS
TCGAGAATGATGAAGCAGAA+AGG 0.598097 4:-66956145 MsG0480021999.01.T01:CDS
ATTTATAGCAGTATATACAA+AGG 0.610343 4:-66955580 MsG0480021999.01.T01:three_prime_UTR
AGCTGCTGCTAGAAAATGGA+GGG 0.615130 4:-66955822 MsG0480021999.01.T01:CDS
ATTAATTACATTGGACAGAG+AGG 0.619569 4:+66955696 None:intergenic
TTCCACAGTTAAACTTCCAG+AGG 0.625012 4:-66955768 MsG0480021999.01.T01:CDS
AGGGAATACTCAAGGAAGGG+TGG 0.636023 4:-66955803 MsG0480021999.01.T01:CDS
CAGCTGCTGCTAGAAAATGG+AGG 0.647077 4:-66955823 MsG0480021999.01.T01:CDS
TGGAGGGAATACTCAAGGAA+GGG 0.660724 4:-66955806 MsG0480021999.01.T01:CDS
TGCCTCTGGAAGTTTAACTG+TGG 0.667787 4:+66955766 None:intergenic
AGAGGCAACCTCCTCCACCA+AGG 0.679710 4:-66955750 MsG0480021999.01.T01:CDS
GTGTCGTGCAGGAACAAGCG+AGG 0.684926 4:-66956168 MsG0480021999.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAATTATCCTTATTAACTAT+TGG + Chr4:66956061-66956080 None:intergenic 15.0%
!! AATAGTTAATAAGGATAATT+TGG - Chr4:66956060-66956079 MsG0480021999.01.T01:intron 15.0%
!! AAACTAACCAATAGTTAATA+AGG - Chr4:66956051-66956070 MsG0480021999.01.T01:intron 20.0%
!! AACAATCCATAATTGTAATT+TGG - Chr4:66955763-66955782 MsG0480021999.01.T01:CDS 20.0%
!! AATGATTAAAAGAAAGAGAA+TGG + Chr4:66956094-66956113 None:intergenic 20.0%
!! ACAATCCATAATTGTAATTT+GGG - Chr4:66955764-66955783 MsG0480021999.01.T01:CDS 20.0%
!! ATGATAAAACAAATTCATAC+TGG - Chr4:66955268-66955287 MsG0480021999.01.T01:intron 20.0%
!! ATTTACCCAAATTACAATTA+TGG + Chr4:66955772-66955791 None:intergenic 20.0%
!! ATTTATAGCAGTATATACAA+AGG - Chr4:66955808-66955827 MsG0480021999.01.T01:CDS 20.0%
!! TATGGATGAATTAATTACAT+TGG + Chr4:66955704-66955723 None:intergenic 20.0%
!! TATTGACAAAAGAAAAATCT+TGG + Chr4:66955402-66955421 None:intergenic 20.0%
!! TGATAAAACAAATTCATACT+GGG - Chr4:66955269-66955288 MsG0480021999.01.T01:intron 20.0%
!! TTTATAGCAGTATATACAAA+GGG - Chr4:66955809-66955828 MsG0480021999.01.T01:CDS 20.0%
!!! TAGTTTTAAAAGTAATGCTT+TGG + Chr4:66956037-66956056 None:intergenic 20.0%
! ATATGTTATAGGGAGAATAA+GGG + Chr4:66955672-66955691 None:intergenic 25.0%
! ATCTTGGTTGATCAATATTA+TGG + Chr4:66955386-66955405 None:intergenic 25.0%
! ATTCAATGACATGCTATATA+TGG + Chr4:66955722-66955741 None:intergenic 25.0%
! CATGATTATTTGTTTGTTTG+TGG - Chr4:66955434-66955453 MsG0480021999.01.T01:intron 25.0%
! GAATACGAAAATACAAAAGA+AGG - Chr4:66955336-66955355 MsG0480021999.01.T01:intron 25.0%
!! AAATGATGATAATTTTGCAG+AGG - Chr4:66955512-66955531 MsG0480021999.01.T01:intron 25.0%
!! ACATTTTCATTTACACATCA+AGG + Chr4:66955871-66955890 None:intergenic 25.0%
!! CATTTTCAAAGACAATTTAG+TGG + Chr4:66955497-66955516 None:intergenic 25.0%
!! CATTTTCATTTACACATCAA+GGG + Chr4:66955870-66955889 None:intergenic 25.0%
ATTAATTACATTGGACAGAG+AGG + Chr4:66955695-66955714 None:intergenic 30.0%
GATATGTTATAGGGAGAATA+AGG + Chr4:66955673-66955692 None:intergenic 30.0%
TCAAAGACAATTTAGTGGAA+TGG + Chr4:66955492-66955511 None:intergenic 30.0%
! TTTTGTCAATATGCTTCAGT+AGG - Chr4:66955411-66955430 MsG0480021999.01.T01:intron 30.0%
!! AAGTGACACTCATTTTGAAA+CGG + Chr4:66955908-66955927 None:intergenic 30.0%
AGACTACGAAAATTCAGGTA+TGG - Chr4:66955314-66955333 MsG0480021999.01.T01:intron 35.0%
GACAGAGAGGATATGTTATA+GGG + Chr4:66955682-66955701 None:intergenic 35.0%
! GTAGTGTGCAGAGTATTAAT+TGG + Chr4:66956012-66956031 None:intergenic 35.0%
! TGATGATAATTTTGCAGAGG+AGG - Chr4:66955515-66955534 MsG0480021999.01.T01:intron 35.0%
! TGTGCAGAGTATTAATTGGA+GGG + Chr4:66956008-66956027 None:intergenic 35.0%
!!! TTTTGAAACGGATGGAGTAA+TGG + Chr4:66955896-66955915 None:intergenic 35.0%
CCAAGAGACTACGAAAATTC+AGG - Chr4:66955309-66955328 MsG0480021999.01.T01:intron 40.0%
GAAAATGGAGGGAATACTCA+AGG - Chr4:66955577-66955596 MsG0480021999.01.T01:three_prime_UTR 40.0%
GGACAGAGAGGATATGTTAT+AGG + Chr4:66955683-66955702 None:intergenic 40.0%
TCGAGAATGATGAAGCAGAA+AGG - Chr4:66955243-66955262 MsG0480021999.01.T01:intron 40.0%
TCTGGAAGTTTAACTGTGGA+AGG + Chr4:66955621-66955640 None:intergenic 40.0%
TTCCACAGTTAAACTTCCAG+AGG - Chr4:66955620-66955639 MsG0480021999.01.T01:three_prime_UTR 40.0%
! CCTGAATTTTCGTAGTCTCT+TGG + Chr4:66955312-66955331 None:intergenic 40.0%
! GTGTGCAGAGTATTAATTGG+AGG + Chr4:66956009-66956028 None:intergenic 40.0%
!! GTGGCAACTACTTTTGTGTA+AGG - Chr4:66955453-66955472 MsG0480021999.01.T01:intron 40.0%
!!! GACACTCATTTTGAAACGGA+TGG + Chr4:66955904-66955923 None:intergenic 40.0%
AGCTGCTGCTAGAAAATGGA+GGG - Chr4:66955566-66955585 MsG0480021999.01.T01:three_prime_UTR 45.0%
ATGGAGGGAATACTCAAGGA+AGG - Chr4:66955581-66955600 MsG0480021999.01.T01:three_prime_UTR 45.0%
GAATAAGGGTCACTAGTCCT+TGG + Chr4:66955658-66955677 None:intergenic 45.0%
TGGAGGGAATACTCAAGGAA+GGG - Chr4:66955582-66955601 MsG0480021999.01.T01:three_prime_UTR 45.0%
! TGCCTCTGGAAGTTTAACTG+TGG + Chr4:66955625-66955644 None:intergenic 45.0%
AGGGAATACTCAAGGAAGGG+TGG - Chr4:66955585-66955604 MsG0480021999.01.T01:three_prime_UTR 50.0%
CAGCTGCTGCTAGAAAATGG+AGG - Chr4:66955565-66955584 MsG0480021999.01.T01:three_prime_UTR 50.0%
CTGCAGCTGCTGCTAGAAAA+TGG - Chr4:66955562-66955581 MsG0480021999.01.T01:three_prime_UTR 50.0%
TAAGGGTCACTAGTCCTTGG+TGG + Chr4:66955655-66955674 None:intergenic 50.0%
TCACTAGTCCTTGGTGGAGG+AGG + Chr4:66955649-66955668 None:intergenic 55.0%
AGAGGCAACCTCCTCCACCA+AGG - Chr4:66955638-66955657 MsG0480021999.01.T01:three_prime_UTR 60.0%
GGGTCACTAGTCCTTGGTGG+AGG + Chr4:66955652-66955671 None:intergenic 60.0%
GTGTCGTGCAGGAACAAGCG+AGG - Chr4:66955220-66955239 MsG0480021999.01.T01:three_prime_UTR 60.0%
TTGGTGGAGGAGGTTGCCTC+TGG + Chr4:66955639-66955658 None:intergenic 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 66955216 66956194 66955216 ID=MsG0480021999.01;Name=MsG0480021999.01
Chr4 mRNA 66955216 66956194 66955216 ID=MsG0480021999.01.T01;Parent=MsG0480021999.01;Name=MsG0480021999.01.T01;_AED=0.50;_eAED=0.51;_QI=0|1|0.66|1|0.5|0.33|3|261|82
Chr4 exon 66955216 66955253 66955216 ID=MsG0480021999.01.T01:exon:7439;Parent=MsG0480021999.01.T01
Chr4 exon 66955522 66955878 66955522 ID=MsG0480021999.01.T01:exon:7438;Parent=MsG0480021999.01.T01
Chr4 exon 66956080 66956194 66956080 ID=MsG0480021999.01.T01:exon:7437;Parent=MsG0480021999.01.T01
Chr4 CDS 66956080 66956194 66956080 ID=MsG0480021999.01.T01:cds;Parent=MsG0480021999.01.T01
Chr4 CDS 66955745 66955878 66955745 ID=MsG0480021999.01.T01:cds;Parent=MsG0480021999.01.T01
Chr4 three_prime_UTR 66955522 66955744 66955522 ID=MsG0480021999.01.T01:three_prime_utr;Parent=MsG0480021999.01.T01
Chr4 three_prime_UTR 66955216 66955253 66955216 ID=MsG0480021999.01.T01:three_prime_utr;Parent=MsG0480021999.01.T01
Gene Sequence

>MsG0480021999.01.T01

ATGAGTGTCGTGCAGGAACAAGCGAGGTCGAGAATGATGAAGCAGAAAGGTTATGATAAAACAAATTCATACTGGGACAATCTTCGCAGAAAACCAAGAGACTACGAAAATTCAGAGGAGGAAGTAAAAGAAAGAGCAAAAAGAGCTGCAGCTGCTGCTAGAAAATGGAGGGAATACTCAAGGAAGGGTGGTGCTGTTAAGCCTTCCACAGTTAAACTTCCAGAGGCAACCTCCTCCACCAAGGACTAG

Protein sequence

>MsG0480021999.01.T01

MSVVQEQARSRMMKQKGYDKTNSYWDNLRRKPRDYENSEEEVKERAKRAAAAARKWREYSRKGGAVKPSTVKLPEATSSTKD*