AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680031301.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031301.01.T01 MTR_6g027810 91.176 68 6 0 1 68 1 68 3.63e-33 110
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680031301.01.T01 AT1G54410 51.948 77 28 2 1 76 1 69 6.94e-11 54.3

Find 17 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CACCTTTGTGCTTATCATCA+TGG 0.347190 6:+17679931 None:intergenic
AAGATCAATGACAAGATCTA+TGG 0.445041 6:-17679855 MsG0680031301.01.T01:CDS
AAAGAAGGATAAGAAGAAGA+AGG 0.460441 6:-17679784 MsG0680031301.01.T01:CDS
GCAGGAATCATCAACAAGAT+TGG 0.467463 6:-17680014 MsG0680031301.01.T01:CDS
ATCTATGGTGGTGAAGGTGA+AGG 0.580210 6:-17679840 MsG0680031301.01.T01:CDS
ATTGGAGAGGCTCTTCATGT+AGG 0.594022 6:-17679996 MsG0680031301.01.T01:CDS
GAGGCTCTTCATGTAGGAGG+AGG 0.594348 6:-17679990 MsG0680031301.01.T01:CDS
GACAAGATCTATGGTGGTGA+AGG 0.597193 6:-17679846 MsG0680031301.01.T01:CDS
GGAGAGGCTCTTCATGTAGG+AGG 0.607476 6:-17679993 MsG0680031301.01.T01:CDS
CACAAAAGTGAACACAAGGA+AGG 0.629648 6:-17679888 MsG0680031301.01.T01:CDS
ATCAATGACAAGATCTATGG+TGG 0.635435 6:-17679852 MsG0680031301.01.T01:CDS
GATAAGAAGAAGAAGGAACA+TGG 0.650367 6:-17679777 MsG0680031301.01.T01:CDS
TAAGCACAAAAGTGAACACA+AGG 0.663189 6:-17679892 MsG0680031301.01.T01:CDS
AATCATCAACAAGATTGGAG+AGG 0.688291 6:-17680009 MsG0680031301.01.T01:CDS
AGCCATGATGATAAGCACAA+AGG 0.698703 6:-17679933 MsG0680031301.01.T01:CDS
GGTGAAGGTCATGAACACAA+AGG 0.734951 6:-17679825 MsG0680031301.01.T01:CDS
AAGAAAGAAGATGAACACAA+CGG 0.763203 6:-17679963 MsG0680031301.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! GAAGAAAGATAAGAAAAAGA+AGG - Chr6:17679958-17679977 MsG0680031301.01.T01:CDS 25.0%
AAAGAAGGATAAGAAGAAGA+AGG - Chr6:17679973-17679992 MsG0680031301.01.T01:CDS 30.0%
AAGAAAGAAGATGAACACAA+CGG - Chr6:17679794-17679813 MsG0680031301.01.T01:CDS 30.0%
AAGATCAATGACAAGATCTA+TGG - Chr6:17679902-17679921 MsG0680031301.01.T01:CDS 30.0%
AATCATCAACAAGATTGGAG+AGG - Chr6:17679748-17679767 MsG0680031301.01.T01:CDS 35.0%
ATCAATGACAAGATCTATGG+TGG - Chr6:17679905-17679924 MsG0680031301.01.T01:CDS 35.0%
GATAAGAAGAAGAAGGAACA+TGG - Chr6:17679980-17679999 MsG0680031301.01.T01:CDS 35.0%
TAAGCACAAAAGTGAACACA+AGG - Chr6:17679865-17679884 MsG0680031301.01.T01:CDS 35.0%
AGCCATGATGATAAGCACAA+AGG - Chr6:17679824-17679843 MsG0680031301.01.T01:CDS 40.0%
CACAAAAGTGAACACAAGGA+AGG - Chr6:17679869-17679888 MsG0680031301.01.T01:CDS 40.0%
CACCTTTGTGCTTATCATCA+TGG + Chr6:17679829-17679848 None:intergenic 40.0%
GCAGGAATCATCAACAAGAT+TGG - Chr6:17679743-17679762 MsG0680031301.01.T01:CDS 40.0%
ATTGGAGAGGCTCTTCATGT+AGG - Chr6:17679761-17679780 MsG0680031301.01.T01:CDS 45.0%
GGTGAAGGTCATGAACACAA+AGG - Chr6:17679932-17679951 MsG0680031301.01.T01:CDS 45.0%
! ATCTATGGTGGTGAAGGTGA+AGG - Chr6:17679917-17679936 MsG0680031301.01.T01:CDS 45.0%
! GACAAGATCTATGGTGGTGA+AGG - Chr6:17679911-17679930 MsG0680031301.01.T01:CDS 45.0%
GAGGCTCTTCATGTAGGAGG+AGG - Chr6:17679767-17679786 MsG0680031301.01.T01:CDS 55.0%
GGAGAGGCTCTTCATGTAGG+AGG - Chr6:17679764-17679783 MsG0680031301.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 17679740 17680039 17679740 ID=MsG0680031301.01;Name=MsG0680031301.01
Chr6 mRNA 17679740 17680039 17679740 ID=MsG0680031301.01.T01;Parent=MsG0680031301.01;Name=MsG0680031301.01.T01;_AED=0.25;_eAED=0.25;_QI=0|-1|0|1|-1|1|1|0|99
Chr6 exon 17679740 17680039 17679740 ID=MsG0680031301.01.T01:exon:1630;Parent=MsG0680031301.01.T01
Chr6 CDS 17679740 17680039 17679740 ID=MsG0680031301.01.T01:cds;Parent=MsG0680031301.01.T01
Gene Sequence

>MsG0680031301.01.T01

ATGGCAGGAATCATCAACAAGATTGGAGAGGCTCTTCATGTAGGAGGAGGACACAAGAAAGAAGATGAACACAACGGTGAGAAAAGCCATGATGATAAGCACAAAGGTGAGAAAATTCATGATGATAAGCACAAAAGTGAACACAAGGAAGGTATAGTTGACAAGATCAATGACAAGATCTATGGTGGTGAAGGTGAAGGTCATGAACACAAAGGTGAGAAGAAAGATAAGAAAAAGAAGGATAAGAAGAAGAAGGAACATGGTCATGATCAAGATAGCAGCAGCAGCGACAGCGATTAG

Protein sequence

>MsG0680031301.01.T01

MAGIINKIGEALHVGGGHKKEDEHNGEKSHDDKHKGEKIHDDKHKSEHKEGIVDKINDKIYGGEGEGHEHKGEKKDKKKKDKKKKEHGHDQDSSSSDSD*