AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0105070


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0105070 MtrunA17_Chr1g0159821 96.250 80 3 0 1 80 1 80 2.88e-50 154
Msa0105070 MtrunA17_Chr3g0124811 51.389 72 35 0 8 79 10 81 1.32e-20 84.0
Msa0105070 MtrunA17_Chr8g0384741 48.571 70 36 0 8 77 61 130 2.90e-19 80.1
Msa0105070 MtrunA17_Chr1g0159811 52.174 69 33 0 8 76 8 76 3.79e-17 73.9
Msa0105070 MtrunA17_Chr8g0372381 48.387 62 32 0 15 76 8 69 7.23e-13 62.0
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa0105070 AT1G44170.1 56.522 69 30 0 8 76 4 72 1.36e-18 78.6
Msa0105070 AT1G44170.2 56.522 69 30 0 8 76 4 72 1.36e-18 78.6
Msa0105070 AT4G34240.2 48.529 68 35 0 11 78 70 137 9.68e-17 73.2
Msa0105070 AT4G34240.4 48.529 68 35 0 11 78 55 122 1.24e-16 73.2
Msa0105070 AT4G34240.1 48.529 68 35 0 11 78 70 137 1.25e-16 73.2

Find 7 sgRNAs with CRISPR-Local

Find 10 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCAGTTGAAGGCACTTC+TGG 0.189731 1_3:-13344488 Msa0105070:CDS
TTGAGAATAACGTTTGATTC+TGG 0.302281 1_3:-13344538 Msa0105070:CDS
ATGGAAAGTTTCTCAGTTGA+AGG 0.449116 1_3:-13344497 Msa0105070:CDS
ATGAGAAATTGAGTACCTCT+TGG 0.488000 1_3:+13344386 None:intergenic
ATTGAGTACCTCTTGGATGA+AGG 0.488247 1_3:+13344393 None:intergenic
GTAAGACTCGAAGCTACGAA+TGG 0.580175 1_3:-13344516 Msa0105070:CDS
AGCTGAATCCTTCATCCAAG+AGG 0.631889 1_3:-13344401 Msa0105070:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! CAACAAAAAAGTGTTTGATT+TGG - chr1_3:13344401-13344420 Msa0105070:CDS 25.0%
!!! TTTTTTGTTGAGTTTAGAGG+AGG + chr1_3:13344391-13344410 None:intergenic 30.0%
!!! CACTTTTTTGTTGAGTTTAG+AGG + chr1_3:13344394-13344413 None:intergenic 30.0%
TTGAGAATAACGTTTGATTC+TGG - chr1_3:13344450-13344469 Msa0105070:CDS 30.0%
ATGGAAAGTTTCTCAGTTGA+AGG - chr1_3:13344491-13344510 Msa0105070:CDS 35.0%
ATGAGAAATTGAGTACCTCT+TGG + chr1_3:13344605-13344624 None:intergenic 35.0%
ATTGAGTACCTCTTGGATGA+AGG + chr1_3:13344598-13344617 None:intergenic 40.0%
GTAAGACTCGAAGCTACGAA+TGG - chr1_3:13344472-13344491 Msa0105070:CDS 45.0%
!! TTCTCAGTTGAAGGCACTTC+TGG - chr1_3:13344500-13344519 Msa0105070:CDS 45.0%
AGCTGAATCCTTCATCCAAG+AGG - chr1_3:13344587-13344606 Msa0105070:CDS 45.0%
Chromosome Type Strat End Strand Name
chr1_3 gene 13344384 13344626 13344384 ID=Msa0105070;Name=Msa0105070
chr1_3 mRNA 13344384 13344626 13344384 ID=Msa0105070-mRNA-1;Parent=Msa0105070;Name=Msa0105070-mRNA-1;_AED=0.47;_eAED=0.47;_QI=0|-1|0|1|-1|1|1|0|80
chr1_3 exon 13344384 13344626 13344384 ID=Msa0105070-mRNA-1:exon:5274;Parent=Msa0105070-mRNA-1
chr1_3 CDS 13344384 13344626 13344384 ID=Msa0105070-mRNA-1:cds;Parent=Msa0105070-mRNA-1
Gene Sequence

>Msa0105070

ATGGCCTCCTCTAAACTCAACAAAAAAGTGTTTGATTTGGAAGAAGCTTCAACAACAGTTAAAGATTTGAGAATAACGTTTGATTCTGGTAAGACTCGAAGCTACGAATGGAAAGTTTCTCAGTTGAAGGCACTTCTGGAATTAACTGATAAGCATGAGCAAGAGATTGTTGAAGCTCTTTACTCTGACTTATCAAAATCTGAAGCTGAATCCTTCATCCAAGAGGTACTCAATTTCTCATAG

Protein sequence

>Msa0105070

MASSKLNKKVFDLEEASTTVKDLRITFDSGKTRSYEWKVSQLKALLELTDKHEQEIVEALYSDLSKSEAESFIQEVLNFS*