AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380016459.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380016459.01.T01 MTR_3g089065 98.551 69 1 0 1 69 1 69 1.82e-43 139
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 26 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTATCCAGGACCCTGGGCC+AGG 0.300757 3:+83835074 MsG0380016459.01.T01:CDS
GCACCCCTGGCCCAGGGTCC+TGG 0.321318 3:-83835079 None:intergenic
CTCCATTGTTTCCAACTTCA+AGG 0.326814 3:+83834901 MsG0380016459.01.T01:CDS
AGCTAAATTGTTTGCACCCC+TGG 0.338522 3:-83835092 None:intergenic
ACAAAGTAGCAACATGGCTT+TGG 0.394098 3:+83834836 None:intergenic
GTTTCCAACTTCAAGGGAAA+AGG 0.418825 3:+83834908 MsG0380016459.01.T01:CDS
GTATCCAGGACCCTGGGCCA+GGG 0.437134 3:+83835075 MsG0380016459.01.T01:CDS
CAGGGTCCTGGATACGCCAC+TGG 0.443660 3:-83835067 None:intergenic
ATTGTTTGCACCCCTGGCCC+AGG 0.458734 3:-83835086 None:intergenic
CAGTGGCGTATCCAGGACCC+TGG 0.476066 3:+83835068 MsG0380016459.01.T01:CDS
TGGAGGAAGACACTGAGGTC+TGG 0.484266 3:-83834883 None:intergenic
TTGTTTGCACCCCTGGCCCA+GGG 0.498363 3:-83835085 None:intergenic
ACTTTCCCAGTGGCGTATCC+AGG 0.501040 3:+83835061 MsG0380016459.01.T01:CDS
TATCCAGGACCCTGGGCCAG+GGG 0.508765 3:+83835076 MsG0380016459.01.T01:CDS
TTTCTGTAGGCAACACCAGA+TGG 0.513750 3:-83834993 None:intergenic
TCCCTTGAAGTTGGAAACAA+TGG 0.517273 3:-83834903 None:intergenic
TCCATTGTTTCCAACTTCAA+GGG 0.526913 3:+83834902 MsG0380016459.01.T01:CDS
TCAACACTATCATTCCCATC+TGG 0.532444 3:+83834978 MsG0380016459.01.T01:CDS
GCTCGTGAAGCTGTAAATGA+AGG 0.575661 3:+83835035 MsG0380016459.01.T01:CDS
AAGACACTGAGGTCTGGCTG+TGG 0.576209 3:-83834877 None:intergenic
TTCTGTAGGCAACACCAGAT+GGG 0.579739 3:-83834992 None:intergenic
AGTGGCGTATCCAGGACCCT+GGG 0.590618 3:+83835069 MsG0380016459.01.T01:CDS
CTTGAAGTTGGAAACAATGG+AGG 0.602873 3:-83834900 None:intergenic
AGGGTCCTGGATACGCCACT+GGG 0.622036 3:-83835066 None:intergenic
AACAATGGAGGAAGACACTG+AGG 0.723169 3:-83834888 None:intergenic
ATGAAGGTACACTTTCCCAG+TGG 0.763457 3:+83835051 MsG0380016459.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAAACGAGATTTTCTGT+AGG - Chr3:83835009-83835028 None:intergenic 25.0%
TCCATTGTTTCCAACTTCAA+GGG + Chr3:83834902-83834921 MsG0380016459.01.T01:CDS 35.0%
CTCCATTGTTTCCAACTTCA+AGG + Chr3:83834901-83834920 MsG0380016459.01.T01:CDS 40.0%
CTTGAAGTTGGAAACAATGG+AGG - Chr3:83834903-83834922 None:intergenic 40.0%
GTTTCCAACTTCAAGGGAAA+AGG + Chr3:83834908-83834927 MsG0380016459.01.T01:CDS 40.0%
TCAACACTATCATTCCCATC+TGG + Chr3:83834978-83834997 MsG0380016459.01.T01:CDS 40.0%
TCCCTTGAAGTTGGAAACAA+TGG - Chr3:83834906-83834925 None:intergenic 40.0%
! ACAACCTTTTCCCTTGAAGT+TGG - Chr3:83834915-83834934 None:intergenic 40.0%
AACAATGGAGGAAGACACTG+AGG - Chr3:83834891-83834910 None:intergenic 45.0%
GCTCGTGAAGCTGTAAATGA+AGG + Chr3:83835035-83835054 MsG0380016459.01.T01:CDS 45.0%
TTCTGTAGGCAACACCAGAT+GGG - Chr3:83834995-83835014 None:intergenic 45.0%
TTTCTGTAGGCAACACCAGA+TGG - Chr3:83834996-83835015 None:intergenic 45.0%
! ATGAAGGTACACTTTCCCAG+TGG + Chr3:83835051-83835070 MsG0380016459.01.T01:CDS 45.0%
! GTTTTCTCAGCTCAAAGAGC+AGG + Chr3:83834933-83834952 MsG0380016459.01.T01:CDS 45.0%
AAGACACTGAGGTCTGGCTG+TGG - Chr3:83834880-83834899 None:intergenic 55.0%
ACTTTCCCAGTGGCGTATCC+AGG + Chr3:83835061-83835080 MsG0380016459.01.T01:CDS 55.0%
TGGAGGAAGACACTGAGGTC+TGG - Chr3:83834886-83834905 None:intergenic 55.0%
AGGGTCCTGGATACGCCACT+GGG - Chr3:83835069-83835088 None:intergenic 60.0%
AGTGGCGTATCCAGGACCCT+GGG + Chr3:83835069-83835088 MsG0380016459.01.T01:CDS 60.0%
ATTGTTTGCACCCCTGGCCC+AGG - Chr3:83835089-83835108 None:intergenic 60.0%
TTGTTTGCACCCCTGGCCCA+GGG - Chr3:83835088-83835107 None:intergenic 60.0%
CAGGGTCCTGGATACGCCAC+TGG - Chr3:83835070-83835089 None:intergenic 65.0%
CAGTGGCGTATCCAGGACCC+TGG + Chr3:83835068-83835087 MsG0380016459.01.T01:CDS 65.0%
GTATCCAGGACCCTGGGCCA+GGG + Chr3:83835075-83835094 MsG0380016459.01.T01:CDS 65.0%
TATCCAGGACCCTGGGCCAG+GGG + Chr3:83835076-83835095 MsG0380016459.01.T01:CDS 65.0%
CGTATCCAGGACCCTGGGCC+AGG + Chr3:83835074-83835093 MsG0380016459.01.T01:CDS 70.0%
! GCACCCCTGGCCCAGGGTCC+TGG - Chr3:83835082-83835101 None:intergenic 80.0%
Chromosome Type Strat End Strand Name
Chr3 gene 83834849 83835112 83834849 ID=MsG0380016459.01;Name=MsG0380016459.01
Chr3 mRNA 83834849 83835112 83834849 ID=MsG0380016459.01.T01;Parent=MsG0380016459.01;Name=MsG0380016459.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|87
Chr3 exon 83834849 83835112 83834849 ID=MsG0380016459.01.T01:exon:11386;Parent=MsG0380016459.01.T01
Chr3 CDS 83834849 83835112 83834849 ID=MsG0380016459.01.T01:cds;Parent=MsG0380016459.01.T01
Gene Sequence

>MsG0380016459.01.T01

ATGGCTTTGGAGAATTGTTTAAGAGTATCCACAGCCAGACCTCAGTGTCTTCCTCCATTGTTTCCAACTTCAAGGGAAAAGGTTGTTTTCTCAGCTCAAAGAGCAGGTTTCAAGAAATCTGTGCTGAACTCAACACTATCATTCCCATCTGGTGTTGCCTACAGAAAATCTCGTTTTATTTGCAATGCTCGTGAAGCTGTAAATGAAGGTACACTTTCCCAGTGGCGTATCCAGGACCCTGGGCCAGGGGTGCAAACAATTTAG

Protein sequence

>MsG0380016459.01.T01

MALENCLRVSTARPQCLPPLFPTSREKVVFSAQRAGFKKSVLNSTLSFPSGVAYRKSRFICNAREAVNEGTLSQWRIQDPGPGVQTI*