AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0780039861.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039861.01.T01 MTR_7g080550 98.919 185 2 0 1 185 1 185 1.86e-135 376
MsG0780039861.01.T01 MTR_8g081530 69.714 175 46 2 14 185 4 174 5.22e-74 220
MsG0780039861.01.T02 MTR_7g080550 98.895 181 2 0 1 181 5 185 1.36e-132 369
MsG0780039861.01.T02 MTR_8g081530 69.714 175 46 2 10 181 4 174 5.34e-74 220
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0780039861.01.T01 AT5G16250 68.449 187 53 3 1 185 1 183 4.16e-81 239
MsG0780039861.01.T01 AT3G02640 67.380 187 57 3 1 185 1 185 5.90e-78 231
MsG0780039861.01.T01 AT5G36800 61.017 177 56 4 18 185 44 216 2.86e-67 205
MsG0780039861.01.T01 AT5G36710 61.017 177 56 4 18 185 44 216 2.86e-67 205
MsG0780039861.01.T01 AT5G36800 61.017 177 56 4 18 185 9 181 4.21e-67 203
MsG0780039861.01.T01 AT5G36710 61.017 177 56 4 18 185 9 181 4.21e-67 203
MsG0780039861.01.T02 AT5G16250 69.061 181 52 2 3 181 5 183 1.48e-80 237
MsG0780039861.01.T02 AT3G02640 67.956 181 55 2 3 181 6 185 1.40e-77 229
MsG0780039861.01.T02 AT5G36800 61.017 177 56 4 14 181 44 216 2.60e-67 205
MsG0780039861.01.T02 AT5G36710 61.017 177 56 4 14 181 44 216 2.60e-67 205
MsG0780039861.01.T02 AT5G36800 61.017 177 56 4 14 181 9 181 5.60e-67 202
MsG0780039861.01.T02 AT5G36710 61.017 177 56 4 14 181 9 181 5.60e-67 202

Find 43 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCCATGTCTTCACCATTGC+TGG 0.213239 7:-69821111 MsG0780039861.01.T01:CDS
TACTTGTAGGACTGTTGTTT+TGG 0.257403 7:-69820809 MsG0780039861.01.T01:CDS
TTCTGCAACTATGTCCTCTT+AGG 0.263638 7:-69821210 MsG0780039861.01.T01:CDS
GGATTGGCCATGGCCTTTCC+AGG 0.339796 7:-69820752 MsG0780039861.01.T01:CDS
AGAGGACATAGTTGCAGAAA+AGG 0.386856 7:+69821214 None:intergenic
ACCATTGCTGGAGCTGTCTC+AGG 0.396308 7:-69821099 MsG0780039861.01.T01:CDS
TGCAGAAAAGGAAGAGTTTG+TGG 0.401747 7:+69821226 None:intergenic
GTCTCAGGCTGTGCTGCTGT+TGG 0.404513 7:-69821084 MsG0780039861.01.T01:CDS
AAGTATTATGCTTGTGTTGA+AGG 0.407930 7:-69820838 MsG0780039861.01.T01:CDS
CCGTTGGTATTCCGCTCATA+TGG 0.409176 7:-69821055 MsG0780039861.01.T01:CDS
GTTCTAACGGCTATATTTCA+AGG 0.409514 7:-69821024 MsG0780039861.01.T01:CDS
GTGAGTTGCAGTCTTATGTA+AGG 0.427295 7:-69820957 MsG0780039861.01.T01:CDS
TCAACAAGATGAAGATTTGA+AGG 0.442954 7:-69820773 MsG0780039861.01.T01:CDS
TGAAGACATGGAGAAGGATA+AGG 0.461871 7:+69821121 None:intergenic
TGTCACCAATTCTTCAAACC+TGG 0.477395 7:+69820734 None:intergenic
AAGATGAAGATTTGAAGGAT+TGG 0.477591 7:-69820768 MsG0780039861.01.T01:CDS
AACGGCTATATTTCAAGGGT+CGG 0.489003 7:-69821019 MsG0780039861.01.T01:CDS
AGCTTGAAGCTGCACCTAAG+AGG 0.489271 7:+69821196 None:intergenic
TGACGAGGTGTGATTGTAGC+TGG 0.504266 7:+69821258 None:intergenic
AGGAAGAAGCCGCAGACGGA+AGG 0.533462 7:+69821141 None:intergenic
TTGAAGGTGGGAATACTTGT+AGG 0.538479 7:-69820822 MsG0780039861.01.T01:CDS
CGCTTAGTCCCTTCCGTCTG+CGG 0.538763 7:-69821150 MsG0780039861.01.T01:CDS
CTCCAGCAATGGTGAAGACA+TGG 0.539403 7:+69821109 None:intergenic
CTGCTGTTGGTGCTAACCGT+TGG 0.557004 7:-69821071 MsG0780039861.01.T01:CDS
TATGGTTGCTACTGTTCTAA+CGG 0.558977 7:-69821037 MsG0780039861.01.T01:CDS
ATTATGCTTGTGTTGAAGGT+GGG 0.566434 7:-69820834 MsG0780039861.01.T01:CDS
CCAATTCTTCAAACCTGGAA+AGG 0.571102 7:+69820739 None:intergenic
TATTATGCTTGTGTTGAAGG+TGG 0.573085 7:-69820835 MsG0780039861.01.T01:CDS
TTCTAACGGCTATATTTCAA+GGG 0.574590 7:-69821023 MsG0780039861.01.T01:CDS
GGAAGAAGCCGCAGACGGAA+GGG 0.584820 7:+69821142 None:intergenic
GCCTGAGACAGCTCCAGCAA+TGG 0.585887 7:+69821098 None:intergenic
CTTCAAACCTGGAAAGGCCA+TGG 0.588475 7:+69820745 None:intergenic
GAGTCAAAACAACCCACTCA+AGG 0.600902 7:+69820875 None:intergenic
CGCAGACGGAAGGGACTAAG+CGG 0.602315 7:+69821151 None:intergenic
CTAAGCGGAGCGAAAGAGTG+AGG 0.610580 7:+69821166 None:intergenic
AAGATTTGAAGGATTGGCCA+TGG 0.611621 7:-69820762 MsG0780039861.01.T01:CDS
TGAGTTGCAGTCTTATGTAA+GGG 0.621403 7:-69820956 MsG0780039861.01.T01:CDS
CAATGGTGAAGACATGGAGA+AGG 0.622789 7:+69821115 None:intergenic
TTGTGGATGTTGTAGTGACG+AGG 0.630615 7:+69821243 None:intergenic
GATAAGGAAGAAGCCGCAGA+CGG 0.647152 7:+69821137 None:intergenic
AACAGTAGCAACCATATGAG+CGG 0.648596 7:+69821044 None:intergenic
CCATATGAGCGGAATACCAA+CGG 0.651812 7:+69821055 None:intergenic
CGAGGTGTGATTGTAGCTGG+AGG 0.714233 7:+69821261 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGATGAAGATTTGAAGGAT+TGG - Chr7:69821261-69821280 MsG0780039861.01.T01:CDS 30.0%
AAGTATTATGCTTGTGTTGA+AGG - Chr7:69821191-69821210 MsG0780039861.01.T01:CDS 30.0%
TCAACAAGATGAAGATTTGA+AGG - Chr7:69821256-69821275 MsG0780039861.01.T01:CDS 30.0%
TTCTAACGGCTATATTTCAA+GGG - Chr7:69821006-69821025 MsG0780039861.01.T01:CDS 30.0%
!!! TCTGTGATTTTGAAACTTTC+TGG - Chr7:69821107-69821126 MsG0780039861.01.T01:CDS 30.0%
!!! TTTCTGTTCTTGTTTTTACG+AGG - Chr7:69821033-69821052 MsG0780039861.01.T01:CDS 30.0%
ATTATGCTTGTGTTGAAGGT+GGG - Chr7:69821195-69821214 MsG0780039861.01.T01:CDS 35.0%
GTTCTAACGGCTATATTTCA+AGG - Chr7:69821005-69821024 MsG0780039861.01.T01:CDS 35.0%
TATGGTTGCTACTGTTCTAA+CGG - Chr7:69820992-69821011 MsG0780039861.01.T01:CDS 35.0%
TATTATGCTTGTGTTGAAGG+TGG - Chr7:69821194-69821213 MsG0780039861.01.T01:CDS 35.0%
! TGAGTTGCAGTCTTATGTAA+GGG - Chr7:69821073-69821092 MsG0780039861.01.T01:CDS 35.0%
! TTTGATCTTTTGCCTTGAGT+GGG - Chr7:69821142-69821161 MsG0780039861.01.T01:CDS 35.0%
! TTTTGATCTTTTGCCTTGAG+TGG - Chr7:69821141-69821160 MsG0780039861.01.T01:CDS 35.0%
!! TACTTGTAGGACTGTTGTTT+TGG - Chr7:69821220-69821239 MsG0780039861.01.T01:CDS 35.0%
!!! ACTTGTAGGACTGTTGTTTT+GGG - Chr7:69821221-69821240 MsG0780039861.01.T01:CDS 35.0%
!!! GTGATTTTGAAACTTTCTGG+TGG - Chr7:69821110-69821129 MsG0780039861.01.T01:CDS 35.0%
AACAGTAGCAACCATATGAG+CGG + Chr7:69820988-69821007 None:intergenic 40.0%
AACGGCTATATTTCAAGGGT+CGG - Chr7:69821010-69821029 MsG0780039861.01.T01:CDS 40.0%
AGAGGACATAGTTGCAGAAA+AGG + Chr7:69820818-69820837 None:intergenic 40.0%
TGAAGACATGGAGAAGGATA+AGG + Chr7:69820911-69820930 None:intergenic 40.0%
TGCAGAAAAGGAAGAGTTTG+TGG + Chr7:69820806-69820825 None:intergenic 40.0%
TTCTGCAACTATGTCCTCTT+AGG - Chr7:69820819-69820838 MsG0780039861.01.T01:CDS 40.0%
TTGAAGGTGGGAATACTTGT+AGG - Chr7:69821207-69821226 MsG0780039861.01.T01:CDS 40.0%
! GTGAGTTGCAGTCTTATGTA+AGG - Chr7:69821072-69821091 MsG0780039861.01.T01:CDS 40.0%
!! AAGATTTGAAGGATTGGCCA+TGG - Chr7:69821267-69821286 MsG0780039861.01.T01:CDS 40.0%
!!! TGTTGTTTTGGGAAGTGCTA+AGG - Chr7:69821232-69821251 MsG0780039861.01.T01:CDS 40.0%
CAATGGTGAAGACATGGAGA+AGG + Chr7:69820917-69820936 None:intergenic 45.0%
CCATATGAGCGGAATACCAA+CGG + Chr7:69820977-69820996 None:intergenic 45.0%
GAGTCAAAACAACCCACTCA+AGG + Chr7:69821157-69821176 None:intergenic 45.0%
TTGTGGATGTTGTAGTGACG+AGG + Chr7:69820789-69820808 None:intergenic 45.0%
! ACGAGGACGAGTGATTTTCT+TGG - Chr7:69821050-69821069 MsG0780039861.01.T01:CDS 45.0%
!!! TGAGTGGGTTGTTTTGACTC+TGG - Chr7:69821157-69821176 MsG0780039861.01.T01:CDS 45.0%
AGCTTGAAGCTGCACCTAAG+AGG + Chr7:69820836-69820855 None:intergenic 50.0%
CCGTTGGTATTCCGCTCATA+TGG - Chr7:69820974-69820993 MsG0780039861.01.T01:CDS 50.0%
CTCCAGCAATGGTGAAGACA+TGG + Chr7:69820923-69820942 None:intergenic 50.0%
CTCCATGTCTTCACCATTGC+TGG - Chr7:69820918-69820937 MsG0780039861.01.T01:CDS 50.0%
GATAAGGAAGAAGCCGCAGA+CGG + Chr7:69820895-69820914 None:intergenic 50.0%
TGACGAGGTGTGATTGTAGC+TGG + Chr7:69820774-69820793 None:intergenic 50.0%
ACCATTGCTGGAGCTGTCTC+AGG - Chr7:69820930-69820949 MsG0780039861.01.T01:CDS 55.0%
CGAGGTGTGATTGTAGCTGG+AGG + Chr7:69820771-69820790 None:intergenic 55.0%
CTAAGCGGAGCGAAAGAGTG+AGG + Chr7:69820866-69820885 None:intergenic 55.0%
!! CTGCTGTTGGTGCTAACCGT+TGG - Chr7:69820958-69820977 MsG0780039861.01.T01:CDS 55.0%
AGGAAGAAGCCGCAGACGGA+AGG + Chr7:69820891-69820910 None:intergenic 60.0%
CGCAGACGGAAGGGACTAAG+CGG + Chr7:69820881-69820900 None:intergenic 60.0%
CGCTTAGTCCCTTCCGTCTG+CGG - Chr7:69820879-69820898 MsG0780039861.01.T01:CDS 60.0%
GCCTGAGACAGCTCCAGCAA+TGG + Chr7:69820934-69820953 None:intergenic 60.0%
GGAAGAAGCCGCAGACGGAA+GGG + Chr7:69820890-69820909 None:intergenic 60.0%
! GTCTCAGGCTGTGCTGCTGT+TGG - Chr7:69820945-69820964 MsG0780039861.01.T01:CDS 60.0%
!! GGATTGGCCATGGCCTTTCC+AGG - Chr7:69821277-69821296 MsG0780039861.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr7 gene 69820747 69821304 69820747 ID=MsG0780039861.01;Name=MsG0780039861.01
Chr7 mRNA 69820747 69821304 69820747 ID=MsG0780039861.01.T01;Parent=MsG0780039861.01;Name=MsG0780039861.01.T01;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|1|1|0|185
Chr7 exon 69820747 69821304 69820747 ID=MsG0780039861.01.T01:exon:12852;Parent=MsG0780039861.01.T01
Chr7 CDS 69820747 69821304 69820747 ID=MsG0780039861.01.T01:cds;Parent=MsG0780039861.01.T01
Chr7 mRNA 69820747 69821292 69820747 ID=MsG0780039861.01.T02;Parent=MsG0780039861.01;Name=MsG0780039861.01.T02;_AED=0.26;_eAED=0.26;_QI=0|-1|0|1|-1|0|1|0|181
Chr7 exon 69820747 69821292 69820747 ID=MsG0780039861.01.T02:exon:12853;Parent=MsG0780039861.01.T02
Chr7 CDS 69820747 69821292 69820747 ID=MsG0780039861.01.T02:cds;Parent=MsG0780039861.01.T02
Gene Sequence

>MsG0780039861.01.T01

ATGGGTCTCTCAATGAACAATCCTCCAGCTACAATCACACCTCGTCACTACAACATCCACAAACTCTTCCTTTTCTGCAACTATGTCCTCTTAGGTGCAGCTTCAAGCTGTATCTTCCTCACTCTTTCGCTCCGCTTAGTCCCTTCCGTCTGCGGCTTCTTCCTTATCCTTCTCCATGTCTTCACCATTGCTGGAGCTGTCTCAGGCTGTGCTGCTGTTGGTGCTAACCGTTGGTATTCCGCTCATATGGTTGCTACTGTTCTAACGGCTATATTTCAAGGGTCGGTTTCTGTTCTTGTTTTTACGAGGACGAGTGATTTTCTTGGTGAGTTGCAGTCTTATGTAAGGGAAGAAGATGCTTCTGTGATTTTGAAACTTTCTGGTGGACTTGCTATTTTGATCTTTTGCCTTGAGTGGGTTGTTTTGACTCTGGCGTTTTTCTTGAAGTATTATGCTTGTGTTGAAGGTGGGAATACTTGTAGGACTGTTGTTTTGGGAAGTGCTAAGGTTCAACAAGATGAAGATTTGAAGGATTGGCCATGGCCTTTCCAGGTTTGA

>MsG0780039861.01.T02

ATGAACAATCCTCCAGCTACAATCACACCTCGTCACTACAACATCCACAAACTCTTCCTTTTCTGCAACTATGTCCTCTTAGGTGCAGCTTCAAGCTGTATCTTCCTCACTCTTTCGCTCCGCTTAGTCCCTTCCGTCTGCGGCTTCTTCCTTATCCTTCTCCATGTCTTCACCATTGCTGGAGCTGTCTCAGGCTGTGCTGCTGTTGGTGCTAACCGTTGGTATTCCGCTCATATGGTTGCTACTGTTCTAACGGCTATATTTCAAGGGTCGGTTTCTGTTCTTGTTTTTACGAGGACGAGTGATTTTCTTGGTGAGTTGCAGTCTTATGTAAGGGAAGAAGATGCTTCTGTGATTTTGAAACTTTCTGGTGGACTTGCTATTTTGATCTTTTGCCTTGAGTGGGTTGTTTTGACTCTGGCGTTTTTCTTGAAGTATTATGCTTGTGTTGAAGGTGGGAATACTTGTAGGACTGTTGTTTTGGGAAGTGCTAAGGTTCAACAAGATGAAGATTTGAAGGATTGGCCATGGCCTTTCCAGGTTTGA

Protein sequence

>MsG0780039861.01.T01

MGLSMNNPPATITPRHYNIHKLFLFCNYVLLGAASSCIFLTLSLRLVPSVCGFFLILLHVFTIAGAVSGCAAVGANRWYSAHMVATVLTAIFQGSVSVLVFTRTSDFLGELQSYVREEDASVILKLSGGLAILIFCLEWVVLTLAFFLKYYACVEGGNTCRTVVLGSAKVQQDEDLKDWPWPFQV*

>MsG0780039861.01.T02

MNNPPATITPRHYNIHKLFLFCNYVLLGAASSCIFLTLSLRLVPSVCGFFLILLHVFTIAGAVSGCAAVGANRWYSAHMVATVLTAIFQGSVSVLVFTRTSDFLGELQSYVREEDASVILKLSGGLAILIFCLEWVVLTLAFFLKYYACVEGGNTCRTVVLGSAKVQQDEDLKDWPWPFQV*