AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0180005445.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005445.01.T01 MTR_1g100633 77.941 204 8 2 21 187 451 654 3.83e-93 288
MsG0180005445.01.T01 MTR_1g100633 77.941 204 8 2 21 187 451 654 9.31e-93 288
MsG0180005445.01.T01 MTR_1g100633 77.941 204 8 2 21 187 451 654 9.72e-93 287
MsG0180005445.01.T01 MTR_8g097350 31.188 202 101 3 21 184 511 712 3.30e-19 85.1
MsG0180005445.01.T01 MTR_8g097350 31.188 202 101 3 21 184 508 709 3.45e-19 84.7
MsG0180005445.01.T01 MTR_0415s0020 39.552 134 72 2 60 184 48 181 3.52e-18 80.9
MsG0180005445.01.T01 MTR_5g010520 31.220 205 103 3 21 187 503 707 1.95e-17 79.7
MsG0180005445.01.T01 MTR_5g010520 31.220 205 103 3 21 187 503 707 2.41e-17 79.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0180005445.01.T01 AT1G63300 36.224 196 87 3 27 184 492 687 7.28e-22 92.8
MsG0180005445.01.T01 AT5G41140 35.204 196 89 3 27 184 502 697 1.73e-19 85.9
MsG0180005445.01.T01 AT5G41140 35.204 196 89 3 27 184 502 697 1.78e-19 85.9
MsG0180005445.01.T01 AT5G52280 34.031 191 86 4 20 172 447 635 5.01e-15 72.8

Find 21 sgRNAs with CRISPR-Local

Find 30 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAGCTCTTGATTGCATTTC+TGG 0.028652 1:-91956402 None:intergenic
CTTGATTTCAAGTTCCTTGA+TGG 0.250153 1:-91956094 None:intergenic
AATTCTCAATTTCACTATTC+TGG 0.284871 1:-91955833 None:intergenic
TTATTGTGTCTCGTCTTCTC+AGG 0.366356 1:-91956229 None:intergenic
TATCGCATCTGAGCAGCTTC+AGG 0.385097 1:+91956255 MsG0180005445.01.T01:CDS
GCGGAACCACAACAGGCTTA+TGG 0.395493 1:+91956369 MsG0180005445.01.T01:CDS
TTTCTTCTAGTCTCTTCACT+TGG 0.412470 1:-91956029 None:intergenic
ATGAATTGCGGAACCACAAC+AGG 0.437283 1:+91956362 MsG0180005445.01.T01:CDS
ATCGTCATTGGTCTCCATCA+AGG 0.466927 1:+91956080 MsG0180005445.01.T01:CDS
TTCTTCTAGTCTCTTCACTT+GGG 0.467384 1:-91956028 None:intergenic
AGAAGAAAAGATAGAGATGC+AGG 0.477881 1:+91956044 MsG0180005445.01.T01:CDS
TTTCTTCCATAAGCCTGTTG+TGG 0.519288 1:-91956375 None:intergenic
AGATCAACATGAATTGAAAG+TGG 0.519867 1:+91956435 MsG0180005445.01.T01:CDS
AGAAATGCAATCAAGAGCTC+AGG 0.533105 1:+91956404 MsG0180005445.01.T01:CDS
TATTGTGTCTCGTCTTCTCA+GGG 0.553679 1:-91956228 None:intergenic
CATGTTACAAAATGAACACT+CGG 0.582030 1:+91955975 MsG0180005445.01.T01:CDS
CGCATCTGAGCAGCTTCAGG+AGG 0.596198 1:+91956258 MsG0180005445.01.T01:CDS
TCGAAGAAGCTGATGAATTG+CGG 0.607639 1:+91956350 MsG0180005445.01.T01:CDS
TCTTCTTAAGAATGAAAATG+TGG 0.611817 1:+91955912 MsG0180005445.01.T01:CDS
GCTTATAAAAGAGCTCACAG+TGG 0.747992 1:+91955882 MsG0180005445.01.T01:CDS
GAGAATTGTTATAAGCAACG+AGG 0.770356 1:+91955849 MsG0180005445.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AATTCTCAATTTCACTATTC+TGG - Chr1:91955836-91955855 None:intergenic 25.0%
! TCTTCTTAAGAATGAAAATG+TGG + Chr1:91955912-91955931 MsG0180005445.01.T01:CDS 25.0%
AGATCAACATGAATTGAAAG+TGG + Chr1:91956435-91956454 MsG0180005445.01.T01:CDS 30.0%
ATAATTTGAAGATGAACTCC+AGG + Chr1:91956152-91956171 MsG0180005445.01.T01:intron 30.0%
CATGTTACAAAATGAACACT+CGG + Chr1:91955975-91955994 MsG0180005445.01.T01:CDS 30.0%
CTTGAAATCAAGTAAGTCTT+TGG + Chr1:91956105-91956124 MsG0180005445.01.T01:intron 30.0%
! AGATGAATTTTCATCGTCAT+TGG + Chr1:91956068-91956087 MsG0180005445.01.T01:CDS 30.0%
AGAAGAAAAGATAGAGATGC+AGG + Chr1:91956044-91956063 MsG0180005445.01.T01:CDS 35.0%
GAGAATTGTTATAAGCAACG+AGG + Chr1:91955849-91955868 MsG0180005445.01.T01:CDS 35.0%
TGCAAAATGAAAAACTGAGC+AGG + Chr1:91956178-91956197 MsG0180005445.01.T01:intron 35.0%
TTCTTCTAGTCTCTTCACTT+GGG - Chr1:91956031-91956050 None:intergenic 35.0%
TTTCTTCTAGTCTCTTCACT+TGG - Chr1:91956032-91956051 None:intergenic 35.0%
! GTTTTTCATTTTGCATAGCC+TGG - Chr1:91956173-91956192 None:intergenic 35.0%
!! CTTGATTTCAAGTTCCTTGA+TGG - Chr1:91956097-91956116 None:intergenic 35.0%
AAAAACTGAGCAGGAAGAAC+GGG + Chr1:91956187-91956206 MsG0180005445.01.T01:intron 40.0%
AGAAATGCAATCAAGAGCTC+AGG + Chr1:91956404-91956423 MsG0180005445.01.T01:CDS 40.0%
GAAAAACTGAGCAGGAAGAA+CGG + Chr1:91956186-91956205 MsG0180005445.01.T01:intron 40.0%
GCTTATAAAAGAGCTCACAG+TGG + Chr1:91955882-91955901 MsG0180005445.01.T01:CDS 40.0%
GGAGAAAGAACTGAGAATAC+AGG + Chr1:91956126-91956145 MsG0180005445.01.T01:intron 40.0%
TATTGTGTCTCGTCTTCTCA+GGG - Chr1:91956231-91956250 None:intergenic 40.0%
TCGAAGAAGCTGATGAATTG+CGG + Chr1:91956350-91956369 MsG0180005445.01.T01:CDS 40.0%
TGAGCTCTTGATTGCATTTC+TGG - Chr1:91956405-91956424 None:intergenic 40.0%
TTATTGTGTCTCGTCTTCTC+AGG - Chr1:91956232-91956251 None:intergenic 40.0%
TTTCTTCCATAAGCCTGTTG+TGG - Chr1:91956378-91956397 None:intergenic 40.0%
ATGAATTGCGGAACCACAAC+AGG + Chr1:91956362-91956381 MsG0180005445.01.T01:CDS 45.0%
! ATCGTCATTGGTCTCCATCA+AGG + Chr1:91956080-91956099 MsG0180005445.01.T01:CDS 45.0%
CAGGGACTCTTCTGCTTGAA+TGG - Chr1:91956213-91956232 None:intergenic 50.0%
TATCGCATCTGAGCAGCTTC+AGG + Chr1:91956255-91956274 MsG0180005445.01.T01:CDS 50.0%
GCGGAACCACAACAGGCTTA+TGG + Chr1:91956369-91956388 MsG0180005445.01.T01:CDS 55.0%
CGCATCTGAGCAGCTTCAGG+AGG + Chr1:91956258-91956277 MsG0180005445.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr1 gene 91955808 91956477 91955808 ID=MsG0180005445.01;Name=MsG0180005445.01
Chr1 mRNA 91955808 91956477 91955808 ID=MsG0180005445.01.T01;Parent=MsG0180005445.01;Name=MsG0180005445.01.T01;_AED=0.48;_eAED=0.48;_QI=0|0|0|1|1|1|2|0|187
Chr1 exon 91955808 91956115 91955808 ID=MsG0180005445.01.T01:exon:15879;Parent=MsG0180005445.01.T01
Chr1 exon 91956222 91956477 91956222 ID=MsG0180005445.01.T01:exon:15880;Parent=MsG0180005445.01.T01
Chr1 CDS 91955808 91956115 91955808 ID=MsG0180005445.01.T01:cds;Parent=MsG0180005445.01.T01
Chr1 CDS 91956222 91956477 91956222 ID=MsG0180005445.01.T01:cds;Parent=MsG0180005445.01.T01
Gene Sequence

>MsG0180005445.01.T01

ATGTTTTGCGGCAGAAGATTGCAGACCAGAATAGTGAAATTGAGAATTGTTATAAGCAACGAGGAGCTAAGCGAGCTTATAAAAGAGCTCACAGTGGAGTATGATCTTCTTAAGAATGAAAATGTGGATATCTCTCTGAGATTAAAGCAAGATGAAGCTCAACATATCATGTTACAAAATGAACACTCGGCTTCTTTAGTTACAATACAACAACTTGAATCCCAAGTGAAGAGACTAGAAGAAAAGATAGAGATGCAGGAAGATGAATTTTCATCGTCATTGGTCTCCATCAAGGAACTTGAAATCAAAAGAGTCCCTGAGAAGACGAGACACAATAATGCTATCGCATCTGAGCAGCTTCAGGAGGAATATAAATTGCTTTCTGTTGAAATGTCATGCAAAGTTGAAGAGAATGAAAAGATGATAACGAAAGCAATCGAAGAAGCTGATGAATTGCGGAACCACAACAGGCTTATGGAAGAAATGCTCCAGAAATGCAATCAAGAGCTCAGGCAAATATCAGATCAACATGAATTGAAAGTGGAAGAGCTCTTGAAACAATAA

Protein sequence

>MsG0180005445.01.T01

MFCGRRLQTRIVKLRIVISNEELSELIKELTVEYDLLKNENVDISLRLKQDEAQHIMLQNEHSASLVTIQQLESQVKRLEEKIEMQEDEFSSSLVSIKELEIKRVPEKTRHNNAIASEQLQEEYKLLSVEMSCKVEENEKMITKAIEEADELRNHNRLMEEMLQKCNQELRQISDQHELKVEELLKQ*