AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene08445

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08445.t1 MTR_8g080380 93.548 93 6 0 1 93 92 184 4.03e-61 184
MS.gene08445.t1 MTR_3g085510 77.419 93 21 0 1 93 1 93 5.77e-50 152
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene08445.t1 AT4G40042 78.481 79 17 0 1 79 1 79 1.68e-42 134
MS.gene08445.t1 AT2G22425 73.118 93 24 1 1 93 1 92 3.63e-42 133
MS.gene08445.t1 AT2G22425 73.118 93 24 1 1 93 1 92 3.63e-42 133

Find 27 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCACAGATGGTTCTGGCTT+TGG 0.242295 4.3:-16453826 None:intergenic
GCATTTGCTGTGATTGCATT+TGG 0.297854 4.3:+16453655 MS.gene08445:CDS
GCCCCATTCACAGATGGTTC+TGG 0.371797 4.3:-16453832 None:intergenic
CATATGTGAGGATCATTGTT+TGG 0.377646 4.3:-16453702 None:intergenic
GTGGTTGAAGAAGGGCCAAT+TGG 0.421141 4.3:-16453761 None:intergenic
AGCCAGAACCATCTGTGAAT+GGG 0.421365 4.3:+16453830 MS.gene08445:CDS
GTTTGCTTGATTAGATGGAT+TGG 0.432453 4.3:+16453587 None:intergenic
TCAACCACCATCCTCTTAAG+TGG 0.461213 4.3:+16453776 MS.gene08445:CDS
AAGAGGATGGTGGTTGAAGA+AGG 0.473842 4.3:-16453770 None:intergenic
CATTAGTCACTATTCCCAAT+TGG 0.473943 4.3:+16453746 MS.gene08445:CDS
CTCGGGTCCAACCACTTAAG+AGG 0.481325 4.3:-16453787 None:intergenic
TGGTTGAAGAAGGGCCAATT+GGG 0.491266 4.3:-16453760 None:intergenic
AAGCCAGAACCATCTGTGAA+TGG 0.493580 4.3:+16453829 MS.gene08445:CDS
TTTGCTTGATTAGATGGATT+GGG 0.508127 4.3:+16453588 None:intergenic
GCTGTGATTGCATTTGGAGC+TGG 0.523448 4.3:+16453661 MS.gene08445:CDS
TTTGTAGCCCCATTCACAGA+TGG 0.525901 4.3:-16453838 None:intergenic
ACAATGATCCTCACATATGC+TGG 0.532761 4.3:+16453706 MS.gene08445:CDS
CCACCATCCTCTTAAGTGGT+TGG 0.557168 4.3:+16453780 MS.gene08445:CDS
ATTTGGAGCTGGATATCTCA+CGG 0.563264 4.3:+16453672 MS.gene08445:CDS
CTTGATTAGATGGATTGGGA+AGG 0.597000 4.3:+16453592 None:intergenic
AGAGGATGGTGGTTGAAGAA+GGG 0.597108 4.3:-16453769 None:intergenic
GGTCCAACCACTTAAGAGGA+TGG 0.613558 4.3:-16453783 None:intergenic
GCCAGAACCATCTGTGAATG+GGG 0.616607 4.3:+16453831 MS.gene08445:CDS
ATGATCCTCACATATGCTGG+TGG 0.628209 4.3:+16453709 MS.gene08445:CDS
CAACTCCACCAGCATATGTG+AGG 0.672885 4.3:-16453714 None:intergenic
CCAACCACTTAAGAGGATGG+TGG 0.689439 4.3:-16453780 None:intergenic
ATTGGGAATAGTGACTAATG+TGG 0.776405 4.3:-16453743 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATTGGGAATAGTGACTAATG+TGG - chr4.3:16453746-16453765 None:intergenic 35.0%
CATATGTGAGGATCATTGTT+TGG - chr4.3:16453705-16453724 None:intergenic 35.0%
CATTAGTCACTATTCCCAAT+TGG + chr4.3:16453746-16453765 MS.gene08445:CDS 35.0%
ACAATGATCCTCACATATGC+TGG + chr4.3:16453706-16453725 MS.gene08445:CDS 40.0%
! ATTTGGAGCTGGATATCTCA+CGG + chr4.3:16453672-16453691 MS.gene08445:CDS 40.0%
!! GCATTTGCTGTGATTGCATT+TGG + chr4.3:16453655-16453674 MS.gene08445:CDS 40.0%
!!! TTCTGGCTTTGGATGCTTTT+CGG - chr4.3:16453818-16453837 None:intergenic 40.0%
AAGCCAGAACCATCTGTGAA+TGG + chr4.3:16453829-16453848 MS.gene08445:CDS 45.0%
AGCCAGAACCATCTGTGAAT+GGG + chr4.3:16453830-16453849 MS.gene08445:CDS 45.0%
ATGATCCTCACATATGCTGG+TGG + chr4.3:16453709-16453728 MS.gene08445:CDS 45.0%
TCAACCACCATCCTCTTAAG+TGG + chr4.3:16453776-16453795 MS.gene08445:CDS 45.0%
TGGTTGAAGAAGGGCCAATT+GGG - chr4.3:16453763-16453782 None:intergenic 45.0%
TTTGTAGCCCCATTCACAGA+TGG - chr4.3:16453841-16453860 None:intergenic 45.0%
! AAGAGGATGGTGGTTGAAGA+AGG - chr4.3:16453773-16453792 None:intergenic 45.0%
! AGAGGATGGTGGTTGAAGAA+GGG - chr4.3:16453772-16453791 None:intergenic 45.0%
!! TTCACAGATGGTTCTGGCTT+TGG - chr4.3:16453829-16453848 None:intergenic 45.0%
CAACTCCACCAGCATATGTG+AGG - chr4.3:16453717-16453736 None:intergenic 50.0%
CCAACCACTTAAGAGGATGG+TGG - chr4.3:16453783-16453802 None:intergenic 50.0%
CCACCATCCTCTTAAGTGGT+TGG + chr4.3:16453780-16453799 MS.gene08445:CDS 50.0%
GCCAGAACCATCTGTGAATG+GGG + chr4.3:16453831-16453850 MS.gene08445:CDS 50.0%
GGTCCAACCACTTAAGAGGA+TGG - chr4.3:16453786-16453805 None:intergenic 50.0%
GTGGTTGAAGAAGGGCCAAT+TGG - chr4.3:16453764-16453783 None:intergenic 50.0%
! GCTGTGATTGCATTTGGAGC+TGG + chr4.3:16453661-16453680 MS.gene08445:CDS 50.0%
CTCGGGTCCAACCACTTAAG+AGG - chr4.3:16453790-16453809 None:intergenic 55.0%
GCCCCATTCACAGATGGTTC+TGG - chr4.3:16453835-16453854 None:intergenic 55.0%
! GATGCTTTTCGGCTTCGCTC+GGG - chr4.3:16453807-16453826 None:intergenic 55.0%
! GGATGCTTTTCGGCTTCGCT+CGG - chr4.3:16453808-16453827 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr4.3 gene 16453601 16453882 16453601 ID=MS.gene08445
chr4.3 mRNA 16453601 16453882 16453601 ID=MS.gene08445.t1;Parent=MS.gene08445
chr4.3 exon 16453601 16453882 16453601 ID=MS.gene08445.t1.exon1;Parent=MS.gene08445.t1
chr4.3 CDS 16453601 16453882 16453601 ID=cds.MS.gene08445.t1;Parent=MS.gene08445.t1
Gene Sequence

>MS.gene08445

ATGGATTGGGAAGGACAAAAGCTAGCAGAGCAACTGATGCAGATACTGCTGCTTGCATTTGCTGTGATTGCATTTGGAGCTGGATATCTCACGGCTTCTTTCCAAACAATGATCCTCACATATGCTGGTGGAGTTGTTCTCACCACATTAGTCACTATTCCCAATTGGCCCTTCTTCAACCACCATCCTCTTAAGTGGTTGGACCCGAGCGAAGCCGAAAAGCATCCAAAGCCAGAACCATCTGTGAATGGGGCTACAAAGAAGAAATCCATTAAAAAGTAG
Protein sequence

>MS.gene08445.t1

MDWEGQKLAEQLMQILLLAFAVIAFGAGYLTASFQTMILTYAGGVVLTTLVTIPNWPFFNHHPLKWLDPSEAEKHPKPEPSVNGATKKKSIKK