AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0380012780.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012780.01.T01 MTR_3g030860 93.333 105 7 0 1 105 1 105 3.68e-57 172
MsG0380012780.01.T01 MTR_3g030850 80.000 105 20 1 1 104 1 105 1.08e-51 158
MsG0380012780.01.T01 MTR_4g037505 67.593 108 32 3 1 105 1 108 7.68e-39 125
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0380012780.01.T01 AT1G51400 54.206 107 44 3 1 104 1 105 1.27e-27 97.4
MsG0380012780.01.T01 AT3G21055 53.271 107 44 4 1 105 1 103 1.59e-23 87.0
MsG0380012780.01.T01 AT3G21055 53.271 107 44 4 1 105 41 143 2.71e-23 87.8

Find 32 sgRNAs with CRISPR-Local

Find 36 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GCTGCTGTTTGCTCTGTTGC+TGG 0.185357 3:-24443121 MsG0380012780.01.T01:CDS
GCCTCTGGGGTGCCTCTTCT+TGG 0.187436 3:+24443076 None:intergenic
CTGCTGTTTGCTCTGTTGCT+GGG 0.300217 3:-24443120 MsG0380012780.01.T01:CDS
ATTGCTACCCTCCTTGTCAT+TGG 0.354454 3:+24443177 None:intergenic
GTTGGGTTAGTGACACAAAC+AGG 0.359822 3:+24443037 None:intergenic
CTCTGTTGCTGGGGTTGCAA+TGG 0.391387 3:-24443110 MsG0380012780.01.T01:CDS
TACTGATGACCGGTTGGTTA+TGG 0.419612 3:+24443267 None:intergenic
ACCATGACATCCTCAATAGT+TGG 0.463538 3:-24443298 MsG0380012780.01.T01:CDS
GCTAGGATTTGTCGCTATTG+AGG 0.474783 3:-24443013 None:intergenic
GTTTCCCTGCCATAACCAAC+CGG 0.496175 3:-24443276 MsG0380012780.01.T01:CDS
TGCTGTTTGCTCTGTTGCTG+GGG 0.508878 3:-24443119 MsG0380012780.01.T01:CDS
GATGACCGGTTGGTTATGGC+AGG 0.509879 3:+24443271 None:intergenic
TAGCGACAAATCCTAGCAGT+TGG 0.523285 3:+24443019 None:intergenic
GCTGTGTTGCTACTGATGAC+CGG 0.536765 3:+24443257 None:intergenic
AGCGACAAATCCTAGCAGTT+GGG 0.546386 3:+24443020 None:intergenic
AGTGCTGTAAGAGCAGTTGA+AGG 0.554404 3:-24443220 MsG0380012780.01.T01:CDS
GTGTCACTAACCCAACTGCT+AGG 0.567214 3:-24443030 MsG0380012780.01.T01:CDS
AATGACAAGGAGGGTAGCAA+TGG 0.572603 3:-24443175 MsG0380012780.01.T01:CDS
ACCAACTATTGAGGATGTCA+TGG 0.574051 3:+24443297 None:intergenic
GTGCTGTAAGAGCAGTTGAA+GGG 0.585017 3:-24443219 MsG0380012780.01.T01:CDS
TGTTGCTACTGATGACCGGT+TGG 0.591177 3:+24443261 None:intergenic
GGCAGGGAAACCAACTATTG+AGG 0.593922 3:+24443288 None:intergenic
ACAAGGAGGGTAGCAATGGA+AGG 0.594273 3:-24443171 MsG0380012780.01.T01:CDS
TGCTGTAAGAGCAGTTGAAG+GGG 0.596756 3:-24443218 MsG0380012780.01.T01:CDS
AGCAGTTGAAGGGGAAAAGA+CGG 0.619574 3:-24443209 MsG0380012780.01.T01:CDS
GCAGATGATGAACCAAGAAG+AGG 0.660121 3:-24443088 MsG0380012780.01.T01:CDS
ATGACCGGTTGGTTATGGCA+GGG 0.676181 3:+24443272 None:intergenic
TTGGGTTAGTGACACAAACA+GGG 0.691418 3:+24443038 None:intergenic
CAGTTGTACCAATGACAAGG+AGG 0.694597 3:-24443185 MsG0380012780.01.T01:CDS
AGTTGTACCAATGACAAGGA+GGG 0.697533 3:-24443184 MsG0380012780.01.T01:CDS
ACCAAGAAGAGGCACCCCAG+AGG 0.700077 3:-24443077 MsG0380012780.01.T01:CDS
GGTCAGTTGTACCAATGACA+AGG 0.701301 3:-24443188 MsG0380012780.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ACCAACTATTGAGGATGTCA+TGG + Chr3:24443031-24443050 None:intergenic 40.0%
ACCATGACATCCTCAATAGT+TGG - Chr3:24443027-24443046 MsG0380012780.01.T01:CDS 40.0%
AGTTGTACCAATGACAAGGA+GGG - Chr3:24443141-24443160 MsG0380012780.01.T01:CDS 40.0%
!! TTGGGTTAGTGACACAAACA+GGG + Chr3:24443290-24443309 None:intergenic 40.0%
!!! AACAGGGCCATACTTTTTCT+TGG + Chr3:24443274-24443293 None:intergenic 40.0%
!!! ATACTTTTTCTTGGCCTCTG+GGG + Chr3:24443265-24443284 None:intergenic 40.0%
!!! CATACTTTTTCTTGGCCTCT+GGG + Chr3:24443266-24443285 None:intergenic 40.0%
AATGACAAGGAGGGTAGCAA+TGG - Chr3:24443150-24443169 MsG0380012780.01.T01:CDS 45.0%
AGCAGTTGAAGGGGAAAAGA+CGG - Chr3:24443116-24443135 MsG0380012780.01.T01:CDS 45.0%
AGCGACAAATCCTAGCAGTT+GGG + Chr3:24443308-24443327 None:intergenic 45.0%
AGTGCTGTAAGAGCAGTTGA+AGG - Chr3:24443105-24443124 MsG0380012780.01.T01:CDS 45.0%
ATTGCTACCCTCCTTGTCAT+TGG + Chr3:24443151-24443170 None:intergenic 45.0%
CAGTTGTACCAATGACAAGG+AGG - Chr3:24443140-24443159 MsG0380012780.01.T01:CDS 45.0%
CCAGAGGCCAAGAAAAAGTA+TGG - Chr3:24443264-24443283 MsG0380012780.01.T01:CDS 45.0%
GCAGATGATGAACCAAGAAG+AGG - Chr3:24443237-24443256 MsG0380012780.01.T01:CDS 45.0%
GGTCAGTTGTACCAATGACA+AGG - Chr3:24443137-24443156 MsG0380012780.01.T01:CDS 45.0%
GTGCTGTAAGAGCAGTTGAA+GGG - Chr3:24443106-24443125 MsG0380012780.01.T01:CDS 45.0%
TAGCGACAAATCCTAGCAGT+TGG + Chr3:24443309-24443328 None:intergenic 45.0%
TGCTGTAAGAGCAGTTGAAG+GGG - Chr3:24443107-24443126 MsG0380012780.01.T01:CDS 45.0%
! TACTGATGACCGGTTGGTTA+TGG + Chr3:24443061-24443080 None:intergenic 45.0%
!! GTTGGGTTAGTGACACAAAC+AGG + Chr3:24443291-24443310 None:intergenic 45.0%
!!! CCATACTTTTTCTTGGCCTC+TGG + Chr3:24443267-24443286 None:intergenic 45.0%
ACAAGGAGGGTAGCAATGGA+AGG - Chr3:24443154-24443173 MsG0380012780.01.T01:CDS 50.0%
GGCAGGGAAACCAACTATTG+AGG + Chr3:24443040-24443059 None:intergenic 50.0%
GTTTCCCTGCCATAACCAAC+CGG - Chr3:24443049-24443068 MsG0380012780.01.T01:CDS 50.0%
TGTTGCTACTGATGACCGGT+TGG + Chr3:24443067-24443086 None:intergenic 50.0%
! ATGACCGGTTGGTTATGGCA+GGG + Chr3:24443056-24443075 None:intergenic 50.0%
! CTGCTGTTTGCTCTGTTGCT+GGG - Chr3:24443205-24443224 MsG0380012780.01.T01:CDS 50.0%
! GCTGTGTTGCTACTGATGAC+CGG + Chr3:24443071-24443090 None:intergenic 50.0%
! GTGTCACTAACCCAACTGCT+AGG - Chr3:24443295-24443314 MsG0380012780.01.T01:CDS 50.0%
! TGCTGTTTGCTCTGTTGCTG+GGG - Chr3:24443206-24443225 MsG0380012780.01.T01:CDS 50.0%
CTCTGTTGCTGGGGTTGCAA+TGG - Chr3:24443215-24443234 MsG0380012780.01.T01:CDS 55.0%
! GATGACCGGTTGGTTATGGC+AGG + Chr3:24443057-24443076 None:intergenic 55.0%
! GCTGCTGTTTGCTCTGTTGC+TGG - Chr3:24443204-24443223 MsG0380012780.01.T01:CDS 55.0%
!! ACCAAGAAGAGGCACCCCAG+AGG - Chr3:24443248-24443267 MsG0380012780.01.T01:CDS 60.0%
!! GCCTCTGGGGTGCCTCTTCT+TGG + Chr3:24443252-24443271 None:intergenic 65.0%
Chromosome Type Strat End Strand Name
Chr3 gene 24443015 24443332 24443015 ID=MsG0380012780.01;Name=MsG0380012780.01
Chr3 mRNA 24443015 24443332 24443015 ID=MsG0380012780.01.T01;Parent=MsG0380012780.01;Name=MsG0380012780.01.T01;_AED=0.50;_eAED=0.50;_QI=0|-1|0|1|-1|1|1|0|105
Chr3 exon 24443015 24443332 24443015 ID=MsG0380012780.01.T01:exon:8842;Parent=MsG0380012780.01.T01
Chr3 CDS 24443015 24443332 24443015 ID=MsG0380012780.01.T01:cds;Parent=MsG0380012780.01.T01
Gene Sequence

>MsG0380012780.01.T01

ATGACATCAATCACCATGACATCCTCAATAGTTGGTTTCCCTGCCATAACCAACCGGTCATCAGTAGCAACACAGCGAAGATTTGTTGTCAGTGCTGTAAGAGCAGTTGAAGGGGAAAAGACGGTCAGTTGTACCAATGACAAGGAGGGTAGCAATGGAAGGAGAGATTTGATGTTTGCTGCAGCAGCAGCTGCTGTTTGCTCTGTTGCTGGGGTTGCAATGGCAGATGATGAACCAAGAAGAGGCACCCCAGAGGCCAAGAAAAAGTATGGCCCTGTTTGTGTCACTAACCCAACTGCTAGGATTTGTCGCTATTGA

Protein sequence

>MsG0380012780.01.T01

MTSITMTSSIVGFPAITNRSSVATQRRFVVSAVRAVEGEKTVSCTNDKEGSNGRRDLMFAAAAAAVCSVAGVAMADDEPRRGTPEAKKKYGPVCVTNPTARICRY*