AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa1394270


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Msa1394270 MtrunA17_Chr8g0355631 100.000 37 0 0 1 37 35 71 2.22e-20 74.7
Msa1394270 MtrunA17_Chr4g0015761 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1394270 MtrunA17_CPg0492811 100.000 37 0 0 1 37 35 71 2.56e-20 74.7
Msa1394270 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
Msa1394270 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:+99556 Msa1394270:CDS
TCATGTCAATTGCCAATTCT+TGG 0.245809 tig0021785:+99452 Msa1394270:five_prime_UTR
AATAATCCAGCCAAAGTAAT+AGG 0.315680 tig0021785:-99598 None:intergenic
AAACTTCAATCATTTGAGTT+TGG 0.328054 tig0021785:-99546 None:intergenic
CTAATTCCTATTACTTTGGC+TGG 0.352028 tig0021785:+99592 Msa1394270:CDS
TCTCTATTTGGAATCGTGTT+AGG 0.358426 tig0021785:+99568 Msa1394270:CDS
AGGTCTAATTCCTATTACTT+TGG 0.388074 tig0021785:+99588 Msa1394270:CDS
ATCATTTGAGTTTGGTTGAA+AGG 0.406278 tig0021785:-99538 None:intergenic
GAATCTCAATGACCAAGAAT+TGG 0.414372 tig0021785:-99464 None:intergenic
AATTGGCAATTGACATGATA+AGG 0.448909 tig0021785:-99447 None:intergenic
TTCTTGGTCATTGAGATTCA+CGG 0.471290 tig0021785:+99468 Msa1394270:five_prime_UTR
ATATCGACGTGGTGATCAGT+TGG 0.572503 tig0021785:+99639 Msa1394270:CDS
TTTGGCTGGATTATTTGTAA+CGG 0.592623 tig0021785:+99606 Msa1394270:CDS
GCATATTTACAATATCGACG+TGG 0.789819 tig0021785:+99628 Msa1394270:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAACTTCAATCATTTGAGTT+TGG - tig0021785:99549-99568 None:intergenic 25.0%
! ATGATTGAAGTTTCTCTATT+TGG + tig0021785:99556-99575 Msa1394270:CDS 25.0%
AATTGGCAATTGACATGATA+AGG - tig0021785:99450-99469 None:intergenic 30.0%
TCAATACAGATTCCTATTGA+AGG + tig0021785:99491-99510 Msa1394270:intron 30.0%
GGTAATATCTATCCTTCAAT+AGG - tig0021785:99506-99525 None:intergenic 30.0%
TGGTTGAAAGGAAAAAAAGT+GGG - tig0021785:99529-99548 None:intergenic 30.0%
TTGGTTGAAAGGAAAAAAAG+TGG - tig0021785:99530-99549 None:intergenic 30.0%
! ATCATTTGAGTTTGGTTGAA+AGG - tig0021785:99541-99560 None:intergenic 30.0%
AGGTCTAATTCCTATTACTT+TGG + tig0021785:99588-99607 Msa1394270:CDS 30.0%
AATAATCCAGCCAAAGTAAT+AGG - tig0021785:99601-99620 None:intergenic 30.0%
TTTGGCTGGATTATTTGTAA+CGG + tig0021785:99606-99625 Msa1394270:CDS 30.0%
TCATGTCAATTGCCAATTCT+TGG + tig0021785:99452-99471 Msa1394270:five_prime_UTR 35.0%
GAATCTCAATGACCAAGAAT+TGG - tig0021785:99467-99486 None:intergenic 35.0%
TTCTTGGTCATTGAGATTCA+CGG + tig0021785:99468-99487 Msa1394270:five_prime_UTR 35.0%
GTTGAAAGGAAAAAAAGTGG+GGG - tig0021785:99527-99546 None:intergenic 35.0%
GGTTGAAAGGAAAAAAAGTG+GGG - tig0021785:99528-99547 None:intergenic 35.0%
! TCTCTATTTGGAATCGTGTT+AGG + tig0021785:99568-99587 Msa1394270:CDS 35.0%
CTAATTCCTATTACTTTGGC+TGG + tig0021785:99592-99611 Msa1394270:CDS 35.0%
GCATATTTACAATATCGACG+TGG + tig0021785:99628-99647 Msa1394270:CDS 35.0%
ATATCGACGTGGTGATCAGT+TGG + tig0021785:99639-99658 Msa1394270:CDS 45.0%
Chromosome Type Strat End Strand Name
tig0021785 gene 99445 99666 99445 ID=Msa1394270;Name=Msa1394270
tig0021785 mRNA 99445 99666 99445 ID=Msa1394270-mRNA-1;Parent=Msa1394270;Name=Msa1394270-mRNA-1;_AED=0.42;_eAED=0.67;_QI=83|0|0|1|0|0|2|0|37
tig0021785 exon 99445 99489 99445 ID=Msa1394270-mRNA-1:exon:14261;Parent=Msa1394270-mRNA-1
tig0021785 exon 99518 99666 99518 ID=Msa1394270-mRNA-1:exon:14262;Parent=Msa1394270-mRNA-1
tig0021785 five_prime_UTR 99445 99489 99445 ID=Msa1394270-mRNA-1:five_prime_utr;Parent=Msa1394270-mRNA-1
tig0021785 five_prime_UTR 99518 99555 99518 ID=Msa1394270-mRNA-1:five_prime_utr;Parent=Msa1394270-mRNA-1
tig0021785 CDS 99556 99666 99556 ID=Msa1394270-mRNA-1:cds;Parent=Msa1394270-mRNA-1
Gene Sequence

>Msa1394270

ATGATTGAAGTTTCTCTATTTGGAATCGTGTTAGGTCTAATTCCTATTACTTTGGCTGGATTATTTGTAACGGCATATTTACAATATCGACGTGGTGATCAGTTGGATATT

Protein sequence

>Msa1394270

MIEVSLFGIVLGLIPITLAGLFVTAYLQYRRGDQLDI