AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280006445.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006445.01.T01 MTR_2g008520 90.141 142 13 1 1 141 32 173 1.75e-85 248
MsG0280006445.01.T01 MTR_2g008540 90.141 142 13 1 1 141 32 173 1.75e-85 248
MsG0280006445.01.T01 MTR_4g094275 54.362 149 48 3 4 137 34 177 3.22e-47 150
MsG0280006445.01.T01 MTR_8g081620 31.126 151 73 6 8 133 47 191 1.33e-15 70.5
MsG0280006445.01.T01 MTR_5g012530 38.182 110 59 2 16 117 4 112 4.15e-13 65.5
MsG0280006445.01.T01 MTR_3g061170 39.560 91 52 3 24 113 59 147 5.54e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280006445.01.T01 AT4G13830 32.593 135 64 5 18 129 60 190 3.24e-15 69.3
MsG0280006445.01.T01 AT4G13830 33.333 120 68 5 18 128 60 176 1.36e-12 62.4
MsG0280006445.01.T01 AT4G13830 40.741 81 44 3 18 97 60 137 3.06e-12 60.8

Find 19 sgRNAs with CRISPR-Local

Find 23 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GTTGTTATCATGATCATCTT+TGG 0.289373 2:+2073959 None:intergenic
ATATGACTTTGAGTTGAGTT+TGG 0.317132 2:-2074099 MsG0280006445.01.T01:CDS
TCATATTCTTCTTTAAGCTT+TGG 0.352441 2:+2074116 None:intergenic
TATGACTTTGAGTTGAGTTT+GGG 0.385866 2:-2074098 MsG0280006445.01.T01:CDS
TGGGTTTGAGAAGAAGTAGA+TGG 0.412239 2:-2074079 MsG0280006445.01.T01:CDS
AGGTCTCATGCACGTGAGAC+TGG 0.437735 2:-2074029 MsG0280006445.01.T01:CDS
AAATGGTTGAATTGAATAGA+AGG 0.441993 2:-2074049 MsG0280006445.01.T01:CDS
AAACGATCATGACACAAATC+AGG 0.478058 2:+2074203 None:intergenic
AAGTAGATGGATGGAACAAA+TGG 0.493801 2:-2074066 MsG0280006445.01.T01:CDS
TGTTTCAATTCATAATAAGC+TGG 0.501633 2:-2074327 MsG0280006445.01.T01:CDS
AGACTGGATCATCATCATCA+TGG 0.502880 2:-2074013 MsG0280006445.01.T01:CDS
TCATGATCGTTTGAAGAAAG+AGG 0.509035 2:-2074192 MsG0280006445.01.T01:CDS
GACTGGATCATCATCATCAT+GGG 0.524266 2:-2074012 MsG0280006445.01.T01:CDS
CATCATGGGGTAGTAGAATG+AGG 0.533214 2:-2073998 MsG0280006445.01.T01:CDS
TTTGAGAAGAAGTAGATGGA+TGG 0.542145 2:-2074075 MsG0280006445.01.T01:CDS
ATCATGGGGTAGTAGAATGA+GGG 0.611732 2:-2073997 MsG0280006445.01.T01:CDS
AAAGAGAGCATATAGAACAA+TGG 0.635339 2:-2074240 MsG0280006445.01.T01:CDS
ACTGGATCATCATCATCATG+GGG 0.713529 2:-2074011 MsG0280006445.01.T01:CDS
TGAAGAAAGAGGAATCAACG+AGG 0.790002 2:-2074181 MsG0280006445.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATGAATTGAAACATTTTTTG+TGG + Chr2:2073984-2074003 None:intergenic 20.0%
! AAATGGTTGAATTGAATAGA+AGG - Chr2:2074269-2074288 MsG0280006445.01.T01:CDS 25.0%
! TCATATTCTTCTTTAAGCTT+TGG + Chr2:2074205-2074224 None:intergenic 25.0%
! TGTTTCAATTCATAATAAGC+TGG - Chr2:2073991-2074010 MsG0280006445.01.T01:CDS 25.0%
!! ATCTTTGGTTACATTGTTTT+TGG + Chr2:2074347-2074366 None:intergenic 25.0%
GTTGTTATCATGATCATCTT+TGG + Chr2:2074362-2074381 None:intergenic 30.0%
! AAAGAGAGCATATAGAACAA+TGG - Chr2:2074078-2074097 MsG0280006445.01.T01:CDS 30.0%
!! ATATGACTTTGAGTTGAGTT+TGG - Chr2:2074219-2074238 MsG0280006445.01.T01:CDS 30.0%
!! TATGACTTTGAGTTGAGTTT+GGG - Chr2:2074220-2074239 MsG0280006445.01.T01:CDS 30.0%
AAACGATCATGACACAAATC+AGG + Chr2:2074118-2074137 None:intergenic 35.0%
AAGTAGATGGATGGAACAAA+TGG - Chr2:2074252-2074271 MsG0280006445.01.T01:CDS 35.0%
TCATGATCGTTTGAAGAAAG+AGG - Chr2:2074126-2074145 MsG0280006445.01.T01:CDS 35.0%
TTTGAGAAGAAGTAGATGGA+TGG - Chr2:2074243-2074262 MsG0280006445.01.T01:CDS 35.0%
! TCATCCATTGTTGCACTTTT+TGG + Chr2:2074055-2074074 None:intergenic 35.0%
ACTGGATCATCATCATCATG+GGG - Chr2:2074307-2074326 MsG0280006445.01.T01:CDS 40.0%
AGACTGGATCATCATCATCA+TGG - Chr2:2074305-2074324 MsG0280006445.01.T01:CDS 40.0%
ATCATGGGGTAGTAGAATGA+GGG - Chr2:2074321-2074340 MsG0280006445.01.T01:CDS 40.0%
GACTGGATCATCATCATCAT+GGG - Chr2:2074306-2074325 MsG0280006445.01.T01:CDS 40.0%
TGAAGAAAGAGGAATCAACG+AGG - Chr2:2074137-2074156 MsG0280006445.01.T01:CDS 40.0%
TGGGTTTGAGAAGAAGTAGA+TGG - Chr2:2074239-2074258 MsG0280006445.01.T01:CDS 40.0%
! GAGTCCAAAAAGTGCAACAA+TGG - Chr2:2074048-2074067 MsG0280006445.01.T01:CDS 40.0%
CATCATGGGGTAGTAGAATG+AGG - Chr2:2074320-2074339 MsG0280006445.01.T01:CDS 45.0%
AGGTCTCATGCACGTGAGAC+TGG - Chr2:2074289-2074308 MsG0280006445.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr2 gene 2073956 2074384 2073956 ID=MsG0280006445.01;Name=MsG0280006445.01
Chr2 mRNA 2073956 2074384 2073956 ID=MsG0280006445.01.T01;Parent=MsG0280006445.01;Name=MsG0280006445.01.T01;_AED=0.45;_eAED=0.45;_QI=0|-1|0|1|-1|1|1|0|142
Chr2 exon 2073956 2074384 2073956 ID=MsG0280006445.01.T01:exon:1328;Parent=MsG0280006445.01.T01
Chr2 CDS 2073956 2074384 2073956 ID=MsG0280006445.01.T01:cds;Parent=MsG0280006445.01.T01
Gene Sequence

>MsG0280006445.01.T01

ATGCAGTTTTGTGTTTCATGCAGAGCCACAAAAAATGTTTCAATTCATAATAAGCTGGATGATGATGACAACTTGTACAAAATACTATGTTTGAGTCCAAAAAGTGCAACAATGGATGACATAAAGAGAGCATATAGAACAATGGCTCTTCAGTATCATCCTGATTTGTGTCATGATCGTTTGAAGAAAGAGGAATCAACGAGGATGTTTGTACAACTCAATGCAGCTTATGAGACTTTGTCAAATCCAAAGCTTAAAGAAGAATATGACTTTGAGTTGAGTTTGGGTTTGAGAAGAAGTAGATGGATGGAACAAATGGTTGAATTGAATAGAAGGTCTCATGCACGTGAGACTGGATCATCATCATCATGGGGTAGTAGAATGAGGGCCAAAAACAATGTAACCAAAGATGATCATGATAACAACTAG
Protein sequence

>MsG0280006445.01.T01

MQFCVSCRATKNVSIHNKLDDDDNLYKILCLSPKSATMDDIKRAYRTMALQYHPDLCHDRLKKEESTRMFVQLNAAYETLSNPKLKEEYDFELSLGLRRSRWMEQMVELNRRSHARETGSSSSWGSRMRAKNNVTKDDHDNN*