AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1394110


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1394110 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1394110 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1394110 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1394110 MtrunA17_Chr4g0016861 100.000 35 0 0 1 35 1 35 9.96e-19 70.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1394110 ATCG00600.1 97.222 36 1 0 1 36 1 36 2.23e-18 69.3

Find 14 sgRNAs with CRISPR-Local

Find 20 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATGATTGAAGTTTCTCTATT+TGG 0.115333 tig0021785:-55434 Msa1394110:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 tig0021785:-55538 Msa1394110:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 tig0021785:+55392 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 tig0021785:+55444 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 tig0021785:-55398 Msa1394110:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 tig0021785:-55422 Msa1394110:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 tig0021785:-55402 Msa1394110:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 tig0021785:+55452 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 tig0021785:+55526 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 tig0021785:+55543 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 tig0021785:-55522 Msa1394110:intron
ATATCGACGTGGTGATCAGT+TGG 0.572503 tig0021785:-55351 Msa1394110:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 tig0021785:-55384 Msa1394110:CDS
GCATATTTACAATATCGACG+TGG 0.789819 tig0021785:-55362 Msa1394110:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG + tig0021785:55450-55469 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG - tig0021785:55457-55476 Msa1394110:five_prime_UTR 25.0%
AATTGGCAATTGACATGATA+AGG + tig0021785:55351-55370 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG - tig0021785:55392-55411 Msa1394110:CDS 30.0%
GGTAATATCTATCCTTCAAT+AGG + tig0021785:55407-55426 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG + tig0021785:55430-55449 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG + tig0021785:55431-55450 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG + tig0021785:55442-55461 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG - tig0021785:55489-55508 Msa1394110:intron 30.0%
AATAATCCAGCCAAAGTAAT+AGG + tig0021785:55502-55521 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG - tig0021785:55507-55526 Msa1394110:intron 30.0%
TCATGTCAATTGCCAATTCT+TGG - tig0021785:55353-55372 Msa1394110:CDS 35.0%
GAATCTCAATGACCAAGAAT+TGG + tig0021785:55368-55387 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG - tig0021785:55369-55388 Msa1394110:CDS 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG + tig0021785:55428-55447 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG + tig0021785:55429-55448 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG - tig0021785:55469-55488 Msa1394110:five_prime_UTR 35.0%
CTAATTCCTATTACTTTGGC+TGG - tig0021785:55493-55512 Msa1394110:intron 35.0%
GCATATTTACAATATCGACG+TGG - tig0021785:55529-55548 Msa1394110:five_prime_UTR 35.0%
ATATCGACGTGGTGATCAGT+TGG - tig0021785:55540-55559 Msa1394110:five_prime_UTR 45.0%
Chromosome Type Strat End Strand Name
tig0021785 gene 55346 55567 55346 ID=Msa1394110;Name=Msa1394110
tig0021785 mRNA 55346 55567 55346 ID=Msa1394110-mRNA-1;Parent=Msa1394110;Name=Msa1394110-mRNA-1;_AED=0.41;_eAED=0.66;_QI=83|0|0|1|0|0|2|0|37
tig0021785 exon 55523 55567 55523 ID=Msa1394110-mRNA-1:exon:14264;Parent=Msa1394110-mRNA-1
tig0021785 exon 55346 55494 55346 ID=Msa1394110-mRNA-1:exon:14263;Parent=Msa1394110-mRNA-1
tig0021785 five_prime_UTR 55523 55567 55523 ID=Msa1394110-mRNA-1:five_prime_utr;Parent=Msa1394110-mRNA-1
tig0021785 five_prime_UTR 55457 55494 55457 ID=Msa1394110-mRNA-1:five_prime_utr;Parent=Msa1394110-mRNA-1
tig0021785 CDS 55346 55456 55346 ID=Msa1394110-mRNA-1:cds;Parent=Msa1394110-mRNA-1
Gene Sequence

>Msa1394110

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1394110

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI