AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480018323.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480018323.01.T01 MTR_4g009960 93.151 146 10 0 1 146 1474 1619 2.81e-85 273
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 31 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCCACTCATTTCCCTTATTT+TGG 0.191149 4:+3364196 None:intergenic
TCTACTTGAGAAGCACTTCT+TGG 0.269825 4:+3364128 None:intergenic
AACACAGTTCGACCAAAATA+AGG 0.290171 4:-3364208 MsG0480018323.01.T01:CDS
CCTTGCTATCTCTGACTTCT+CGG 0.294867 4:+3364061 None:intergenic
AGTGCTTCTCAAGTAGAAAA+TGG 0.366802 4:-3364122 MsG0480018323.01.T01:CDS
CCAGCCGTCAATTTGTGCTT+CGG 0.423507 4:-3363746 MsG0480018323.01.T01:CDS
CAATTCAGCGACTCCATTTG+TGG 0.432158 4:+3363774 None:intergenic
GATTTGTAGTTGTCACAAAC+AGG 0.435823 4:-3363815 MsG0480018323.01.T01:CDS
CTGCTCTTCACTGTCATCGC+TGG 0.444835 4:+3363857 None:intergenic
ATAAGGGAAATGAGTGGATC+AGG 0.449824 4:-3364191 MsG0480018323.01.T01:CDS
ACACAGTTCGACCAAAATAA+GGG 0.478278 4:-3364207 MsG0480018323.01.T01:CDS
GAAGAGCAGGACAATTTAGA+TGG 0.490228 4:-3363843 MsG0480018323.01.T01:CDS
GTCACAAACAGGAGAAAAGC+AGG 0.533358 4:-3363804 MsG0480018323.01.T01:CDS
CAGCGATGACAGTGAAGAGC+AGG 0.541437 4:-3363856 MsG0480018323.01.T01:CDS
GCACTTCTTGGAACAAACTC+AGG 0.551151 4:+3364140 None:intergenic
CAGGACAATTTAGATGGTGA+AGG 0.556051 4:-3363837 MsG0480018323.01.T01:CDS
CCGAGAAGTCAGAGATAGCA+AGG 0.561618 4:-3364061 MsG0480018323.01.T01:CDS
CGAACCGAAGCACAAATTGA+CGG 0.568612 4:+3363742 None:intergenic
CCGAAGCACAAATTGACGGC+TGG 0.579050 4:+3363746 None:intergenic
TCATCAAAATGCTGATGCTG+TGG 0.607803 4:-3364006 MsG0480018323.01.T01:CDS
GATGAGCCTAAAGTTAGTGA+AGG 0.613402 4:-3363984 MsG0480018323.01.T01:CDS
GGAACAAACTCAGGAGCATG+TGG 0.623868 4:+3364149 None:intergenic
ACCAAAATAAGGGAAATGAG+TGG 0.661708 4:-3364197 MsG0480018323.01.T01:CDS
AGGGAAATGAGTGGATCAGG+TGG 0.683861 4:-3364188 MsG0480018323.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GCTGTCATAAAAATAATGTA+CGG - Chr4:3364034-3364053 MsG0480018323.01.T01:CDS 25.0%
AAAAATAATGTACGGTACTG+AGG - Chr4:3364042-3364061 MsG0480018323.01.T01:CDS 30.0%
! ACTTTTCCTTCACTAACTTT+AGG + Chr4:3363971-3363990 None:intergenic 30.0%
! GCATGTGGATTCATAATTTT+CGG + Chr4:3363785-3363804 None:intergenic 30.0%
AACACAGTTCGACCAAAATA+AGG - Chr4:3363738-3363757 MsG0480018323.01.T01:CDS 35.0%
ACACAGTTCGACCAAAATAA+GGG - Chr4:3363739-3363758 MsG0480018323.01.T01:CDS 35.0%
ACCAAAATAAGGGAAATGAG+TGG - Chr4:3363749-3363768 MsG0480018323.01.T01:CDS 35.0%
AGTGCTTCTCAAGTAGAAAA+TGG - Chr4:3363824-3363843 MsG0480018323.01.T01:CDS 35.0%
GATTTGTAGTTGTCACAAAC+AGG - Chr4:3364131-3364150 MsG0480018323.01.T01:CDS 35.0%
! GGATTCAGAAAGACAGTTTT+TGG + Chr4:3363867-3363886 None:intergenic 35.0%
!! TCCACTCATTTCCCTTATTT+TGG + Chr4:3363753-3363772 None:intergenic 35.0%
!! TTCAGAAAGACAGTTTTTGG+AGG + Chr4:3363864-3363883 None:intergenic 35.0%
AGCAGGCAAAAAACCACAAA+TGG - Chr4:3364159-3364178 MsG0480018323.01.T01:CDS 40.0%
ATAAGGGAAATGAGTGGATC+AGG - Chr4:3363755-3363774 MsG0480018323.01.T01:CDS 40.0%
CAGGACAATTTAGATGGTGA+AGG - Chr4:3364109-3364128 MsG0480018323.01.T01:CDS 40.0%
GAAGAGCAGGACAATTTAGA+TGG - Chr4:3364103-3364122 MsG0480018323.01.T01:CDS 40.0%
GATGAGCCTAAAGTTAGTGA+AGG - Chr4:3363962-3363981 MsG0480018323.01.T01:CDS 40.0%
TCATCAAAATGCTGATGCTG+TGG - Chr4:3363940-3363959 MsG0480018323.01.T01:CDS 40.0%
!! TCTACTTGAGAAGCACTTCT+TGG + Chr4:3363821-3363840 None:intergenic 40.0%
CAATTCAGCGACTCCATTTG+TGG + Chr4:3364175-3364194 None:intergenic 45.0%
CGAACCGAAGCACAAATTGA+CGG + Chr4:3364207-3364226 None:intergenic 45.0%
GCACTTCTTGGAACAAACTC+AGG + Chr4:3363809-3363828 None:intergenic 45.0%
GTCACAAACAGGAGAAAAGC+AGG - Chr4:3364142-3364161 MsG0480018323.01.T01:CDS 45.0%
! CCTTGCTATCTCTGACTTCT+CGG + Chr4:3363888-3363907 None:intergenic 45.0%
AGGGAAATGAGTGGATCAGG+TGG - Chr4:3363758-3363777 MsG0480018323.01.T01:CDS 50.0%
CCAGCCGTCAATTTGTGCTT+CGG - Chr4:3364200-3364219 MsG0480018323.01.T01:CDS 50.0%
CCGAGAAGTCAGAGATAGCA+AGG - Chr4:3363885-3363904 MsG0480018323.01.T01:CDS 50.0%
! GGAACAAACTCAGGAGCATG+TGG + Chr4:3363800-3363819 None:intergenic 50.0%
CAGCGATGACAGTGAAGAGC+AGG - Chr4:3364090-3364109 MsG0480018323.01.T01:CDS 55.0%
CCGAAGCACAAATTGACGGC+TGG + Chr4:3364203-3364222 None:intergenic 55.0%
CTGCTCTTCACTGTCATCGC+TGG + Chr4:3364092-3364111 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr4 gene 3363734 3364234 3363734 ID=MsG0480018323.01;Name=MsG0480018323.01
Chr4 mRNA 3363734 3364234 3363734 ID=MsG0480018323.01.T01;Parent=MsG0480018323.01;Name=MsG0480018323.01.T01;_AED=0.49;_eAED=0.49;_QI=0|-1|0|1|-1|1|1|0|166
Chr4 exon 3363734 3364234 3363734 ID=MsG0480018323.01.T01:exon:931;Parent=MsG0480018323.01.T01
Chr4 CDS 3363734 3364234 3363734 ID=MsG0480018323.01.T01:cds;Parent=MsG0480018323.01.T01
Gene Sequence

>MsG0480018323.01.T01

ATGAAACACAGTTCGACCAAAATAAGGGAAATGAGTGGATCAGGTGGTCCGAAAATTATGAATCCACATGCTCCTGAGTTTGTTCCAAGAAGTGCTTCTCAAGTAGAAAATGGTGAAAAGAACAGTGCCTCCAAAAACTGTCTTTCTGAATCCGAGAAGTCAGAGATAGCAAGGCAGATATTGCTGAGTTTTCTAGTGAAGTCTGTTCATCAAAATGCTGATGCTGTGGATGAGCCTAAAGTTAGTGAAGGAAAAGTTGAGAACTTTGAAAACTCTTCTGATGAAGTAGCTAAAGACAGCGCTGTCATAAAAATAATGTACGGTACTGAGGAAAAGAATAAGACAGTAGTTAATTCCAGCGATGACAGTGAAGAGCAGGACAATTTAGATGGTGAAGGATTTGTAGTTGTCACAAACAGGAGAAAAGCAGGCAAAAAACCACAAATGGAGTCGCTGAATTGTACAACCAGCCGTCAATTTGTGCTTCGGTTCGTTGATTAG

Protein sequence

>MsG0480018323.01.T01

MKHSSTKIREMSGSGGPKIMNPHAPEFVPRSASQVENGEKNSASKNCLSESEKSEIARQILLSFLVKSVHQNADAVDEPKVSEGKVENFENSSDEVAKDSAVIKIMYGTEEKNKTVVNSSDDSEEQDNLDGEGFVVVTNRRKAGKKPQMESLNCTTSRQFVLRFVD*