AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0480023990.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023990.01.T01 MTR_8g106680 96.350 137 4 1 1 136 452 588 8.95e-86 268
MsG0480023990.01.T01 MTR_6g080430 68.148 135 39 3 6 137 456 589 1.03e-52 178
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0480023990.01.T01 AT1G42550 54.074 135 55 6 4 136 461 590 4.51e-32 119

Find 45 sgRNAs with CRISPR-Local

Find 43 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGTTGTAAAGGTGGAATTTC+AGG 0.189977 4:-92105885 None:intergenic
ACATCTGCATTGCTAGCTTT+GGG 0.242611 4:-92106061 None:intergenic
GACATCTGCATTGCTAGCTT+TGG 0.273912 4:-92106062 None:intergenic
TGGGTTTGACTTTCAGAAAT+TGG 0.313931 4:+92106121 MsG0480023990.01.T01:CDS
CTTGGCTTCCATGAATCCTT+TGG 0.326206 4:+92106013 MsG0480023990.01.T01:CDS
TCGGATTCTCCTCCATCTTC+CGG 0.357183 4:-92105927 None:intergenic
TTCTGACCTCGGTAAAGGCT+TGG 0.373813 4:+92105959 MsG0480023990.01.T01:CDS
TCTGACCTCGGTAAAGGCTT+GGG 0.399031 4:+92105960 MsG0480023990.01.T01:CDS
AACAAGAGATGGCGGATACT+TGG 0.406870 4:+92105995 MsG0480023990.01.T01:CDS
AACAACATCCAAAGGATTCA+TGG 0.412903 4:-92106021 None:intergenic
AGAGGAAGAGACGGAATCAT+TGG 0.413020 4:+92105779 MsG0480023990.01.T01:CDS
TTTCAGAAATTGGCTGGCAT+TGG 0.439764 4:+92106131 MsG0480023990.01.T01:CDS
TCCTCCATCTTCCGGAGAAT+CGG 0.440582 4:-92105919 None:intergenic
CTGAAAGTCAAACCCACTTA+CGG 0.452511 4:-92106114 None:intergenic
ATTCCACCTTTACAACTTGA+AGG 0.467961 4:+92105891 MsG0480023990.01.T01:CDS
TTTGACTTTCAGAAATTGGC+TGG 0.474799 4:+92106125 MsG0480023990.01.T01:CDS
TATCTTTCTGACCTCGGTAA+AGG 0.481608 4:+92105954 MsG0480023990.01.T01:CDS
TAATAATTCAATGAAAATAG+AGG 0.486967 4:+92105761 None:intergenic
TGAAGGGCATGCCGATTCTC+CGG 0.490624 4:+92105908 MsG0480023990.01.T01:CDS
GAATCCTTTGGATGTTGTTG+TGG 0.502472 4:+92106025 MsG0480023990.01.T01:CDS
TCATGCGATGCCAACACAAA+AGG 0.503833 4:-92106089 None:intergenic
CATCTGCATTGCTAGCTTTG+GGG 0.507161 4:-92106060 None:intergenic
TTCCACCTTTACAACTTGAA+GGG 0.526364 4:+92105892 MsG0480023990.01.T01:CDS
CAGATGAAGAAACTGTGACT+AGG 0.532322 4:+92105805 MsG0480023990.01.T01:CDS
AGATGAAGAAACTGTGACTA+GGG 0.533523 4:+92105806 MsG0480023990.01.T01:CDS
CATGCCGATTCTCCGGAAGA+TGG 0.536713 4:+92105915 MsG0480023990.01.T01:CDS
GCATCGCATGAATCCGTAAG+TGG 0.540823 4:+92106101 MsG0480023990.01.T01:CDS
CGGTAAAGGCTTGGGTTGTG+TGG 0.554157 4:+92105968 MsG0480023990.01.T01:CDS
CTAGCCACAACAACATCCAA+AGG 0.562371 4:-92106029 None:intergenic
GCATGCCCTTCAAGTTGTAA+AGG 0.562567 4:-92105897 None:intergenic
AATGAAAATAGAGGAAGAGA+CGG 0.582509 4:+92105770 None:intergenic
GGAGTTTCTTCAGATGCTTG+AGG 0.589691 4:+92105827 MsG0480023990.01.T01:CDS
TGTGTGGTTCAAACAAGAGA+TGG 0.599945 4:+92105984 MsG0480023990.01.T01:CDS
TGCCCTTCAAGTTGTAAAGG+TGG 0.600821 4:-92105894 None:intergenic
GTTTCTTCAGATGCTTGAGG+AGG 0.606539 4:+92105830 MsG0480023990.01.T01:CDS
GAGGTCAGAAAGATATACTT+CGG 0.619421 4:-92105946 None:intergenic
GAAGTATATCTTTCTGACCT+CGG 0.627389 4:+92105948 MsG0480023990.01.T01:CDS
GTAAAGGTGGAATTTCAGGT+TGG 0.628299 4:-92105881 None:intergenic
CATCGCATGAATCCGTAAGT+GGG 0.628618 4:+92106102 MsG0480023990.01.T01:CDS
GGCATTGGTCTTGATGAACT+CGG 0.632439 4:+92106146 MsG0480023990.01.T01:CDS
GCCGATTCTCCGGAAGATGG+AGG 0.639156 4:+92105918 MsG0480023990.01.T01:CDS
GAGGAGGATCAAGACAGCAA+AGG 0.657946 4:+92105846 MsG0480023990.01.T01:CDS
TTCATCTATCGGCATCAAGG+AGG 0.688397 4:-92106182 None:intergenic
GTGGTTCAAACAAGAGATGG+CGG 0.692152 4:+92105987 MsG0480023990.01.T01:CDS
CACAACCCAAGCCTTTACCG+AGG 0.745080 4:-92105965 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AACAACATCCAAAGGATTCA+TGG - Chr4:92106024-92106043 None:intergenic 35.0%
AGATGAAGAAACTGTGACTA+GGG + Chr4:92105806-92105825 MsG0480023990.01.T01:CDS 35.0%
AGTTGTAAAGGTGGAATTTC+AGG - Chr4:92105888-92105907 None:intergenic 35.0%
ATTCCACCTTTACAACTTGA+AGG + Chr4:92105891-92105910 MsG0480023990.01.T01:CDS 35.0%
GAAGTATATCTTTCTGACCT+CGG + Chr4:92105948-92105967 MsG0480023990.01.T01:CDS 35.0%
GAGGTCAGAAAGATATACTT+CGG - Chr4:92105949-92105968 None:intergenic 35.0%
TTCCACCTTTACAACTTGAA+GGG + Chr4:92105892-92105911 MsG0480023990.01.T01:CDS 35.0%
! TGGGTTTGACTTTCAGAAAT+TGG + Chr4:92106121-92106140 MsG0480023990.01.T01:CDS 35.0%
! TTTGACTTTCAGAAATTGGC+TGG + Chr4:92106125-92106144 MsG0480023990.01.T01:CDS 35.0%
CAGATGAAGAAACTGTGACT+AGG + Chr4:92105805-92105824 MsG0480023990.01.T01:CDS 40.0%
CTGAAAGTCAAACCCACTTA+CGG - Chr4:92106117-92106136 None:intergenic 40.0%
GAATCCTTTGGATGTTGTTG+TGG + Chr4:92106025-92106044 MsG0480023990.01.T01:CDS 40.0%
TATCTTTCTGACCTCGGTAA+AGG + Chr4:92105954-92105973 MsG0480023990.01.T01:CDS 40.0%
TGTGTGGTTCAAACAAGAGA+TGG + Chr4:92105984-92106003 MsG0480023990.01.T01:CDS 40.0%
TTTCAGAAATTGGCTGGCAT+TGG + Chr4:92106131-92106150 MsG0480023990.01.T01:CDS 40.0%
! GATGTCAAAGCCTTTTGTGT+TGG + Chr4:92106079-92106098 MsG0480023990.01.T01:CDS 40.0%
! GTAAAGGTGGAATTTCAGGT+TGG - Chr4:92105884-92105903 None:intergenic 40.0%
!! ACATCTGCATTGCTAGCTTT+GGG - Chr4:92106064-92106083 None:intergenic 40.0%
AGAGGAAGAGACGGAATCAT+TGG + Chr4:92105779-92105798 MsG0480023990.01.T01:CDS 45.0%
CATCGCATGAATCCGTAAGT+GGG + Chr4:92106102-92106121 MsG0480023990.01.T01:CDS 45.0%
CTAGCCACAACAACATCCAA+AGG - Chr4:92106032-92106051 None:intergenic 45.0%
CTTGGCTTCCATGAATCCTT+TGG + Chr4:92106013-92106032 MsG0480023990.01.T01:CDS 45.0%
GGAGTTTCTTCAGATGCTTG+AGG + Chr4:92105827-92105846 MsG0480023990.01.T01:CDS 45.0%
GTGGTTCAAACAAGAGATGG+CGG + Chr4:92105987-92106006 MsG0480023990.01.T01:CDS 45.0%
GTTTCTTCAGATGCTTGAGG+AGG + Chr4:92105830-92105849 MsG0480023990.01.T01:CDS 45.0%
TCATGCGATGCCAACACAAA+AGG - Chr4:92106092-92106111 None:intergenic 45.0%
! GACATCTGCATTGCTAGCTT+TGG - Chr4:92106065-92106084 None:intergenic 45.0%
!! AACAAGAGATGGCGGATACT+TGG + Chr4:92105995-92106014 MsG0480023990.01.T01:CDS 45.0%
!! CATCTGCATTGCTAGCTTTG+GGG - Chr4:92106063-92106082 None:intergenic 45.0%
!! GCATGCCCTTCAAGTTGTAA+AGG - Chr4:92105900-92105919 None:intergenic 45.0%
!! GGCATTGGTCTTGATGAACT+CGG + Chr4:92106146-92106165 MsG0480023990.01.T01:CDS 45.0%
!! TGCCCTTCAAGTTGTAAAGG+TGG - Chr4:92105897-92105916 None:intergenic 45.0%
GAGGAGGATCAAGACAGCAA+AGG + Chr4:92105846-92105865 MsG0480023990.01.T01:CDS 50.0%
GCATCGCATGAATCCGTAAG+TGG + Chr4:92106101-92106120 MsG0480023990.01.T01:CDS 50.0%
TCCTCCATCTTCCGGAGAAT+CGG - Chr4:92105922-92105941 None:intergenic 50.0%
TCGGATTCTCCTCCATCTTC+CGG - Chr4:92105930-92105949 None:intergenic 50.0%
TCTGACCTCGGTAAAGGCTT+GGG + Chr4:92105960-92105979 MsG0480023990.01.T01:CDS 50.0%
TTCTGACCTCGGTAAAGGCT+TGG + Chr4:92105959-92105978 MsG0480023990.01.T01:CDS 50.0%
CACAACCCAAGCCTTTACCG+AGG - Chr4:92105968-92105987 None:intergenic 55.0%
! CGGTAAAGGCTTGGGTTGTG+TGG + Chr4:92105968-92105987 MsG0480023990.01.T01:CDS 55.0%
!! CATGCCGATTCTCCGGAAGA+TGG + Chr4:92105915-92105934 MsG0480023990.01.T01:CDS 55.0%
!! TGAAGGGCATGCCGATTCTC+CGG + Chr4:92105908-92105927 MsG0480023990.01.T01:CDS 55.0%
! GCCGATTCTCCGGAAGATGG+AGG + Chr4:92105918-92105937 MsG0480023990.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr4 gene 92105771 92106190 92105771 ID=MsG0480023990.01;Name=MsG0480023990.01
Chr4 mRNA 92105771 92106190 92105771 ID=MsG0480023990.01.T01;Parent=MsG0480023990.01;Name=MsG0480023990.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|139
Chr4 exon 92105771 92106190 92105771 ID=MsG0480023990.01.T01:exon:62842;Parent=MsG0480023990.01.T01
Chr4 CDS 92105771 92106190 92105771 ID=MsG0480023990.01.T01:cds;Parent=MsG0480023990.01.T01
Gene Sequence

>MsG0480023990.01.T01

ATGAAAATAGAGGAAGAGACGGAATCATTGGATGCAGATGAAGAAACTGTGACTAGGGAGTTTCTTCAGATGCTTGAGGAGGATCAAGACAGCAAAGGATACTTATTCGACCAACCTGAAATTCCACCTTTACAACTTGAAGGGCATGCCGATTCTCCGGAAGATGGAGGAGAATCCGAAGTATATCTTTCTGACCTCGGTAAAGGCTTGGGTTGTGTGGTTCAAACAAGAGATGGCGGATACTTGGCTTCCATGAATCCTTTGGATGTTGTTGTGGCTAGAAAAGATACCCCAAAGCTAGCAATGCAGATGTCAAAGCCTTTTGTGTTGGCATCGCATGAATCCGTAAGTGGGTTTGACTTTCAGAAATTGGCTGGCATTGGTCTTGATGAACTCGGCTCTCTAATTTATCCTCCTTGA

Protein sequence

>MsG0480023990.01.T01

MKIEEETESLDADEETVTREFLQMLEEDQDSKGYLFDQPEIPPLQLEGHADSPEDGGESEVYLSDLGKGLGCVVQTRDGGYLASMNPLDVVVARKDTPKLAMQMSKPFVLASHESVSGFDFQKLAGIGLDELGSLIYPP*