AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene069899

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069899.t1 MTR_6g460470 96.842 95 3 0 3 97 198 292 1.70e-63 194
MS.gene069899.t1 MTR_6g011380 57.303 89 38 0 3 91 196 284 2.01e-36 124
MS.gene069899.t1 MTR_4g107720 57.471 87 37 0 3 89 196 282 2.88e-35 121
MS.gene069899.t1 MTR_4g107730 59.770 87 35 0 3 89 194 280 4.56e-35 120
MS.gene069899.t1 MTR_4g107810 56.322 87 38 0 3 89 196 282 9.98e-35 120
MS.gene069899.t1 MTR_4g107760 56.322 87 38 0 3 89 196 282 9.98e-35 120
MS.gene069899.t1 MTR_8g469160 52.222 90 43 0 3 92 196 285 1.25e-34 120
MS.gene069899.t1 MTR_4g107810 56.322 87 38 0 3 89 256 342 4.98e-34 119
MS.gene069899.t1 MTR_4g107700 56.790 81 35 0 9 89 6 86 4.31e-33 110
MS.gene069899.t1 MTR_4g107830 55.172 87 39 0 3 89 211 297 3.68e-32 114
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene069899.t1 AT5G51570 85.263 95 13 1 3 96 198 292 3.12e-54 170
MS.gene069899.t1 AT3G01290 58.427 89 37 0 3 91 196 284 2.84e-36 124
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT1G69840 57.303 89 38 0 3 91 196 284 4.71e-36 123
MS.gene069899.t1 AT5G62740 54.945 91 41 0 3 93 196 286 1.07e-35 122

Find 16 sgRNAs with CRISPR-Local

Find 21 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTGGCCATGTTAGGGATAT+TGG 0.321495 2.1:+4295686 MS.gene069899:CDS
CTCATGGACCTGGCCATGTT+AGG 0.353338 2.1:+4295678 MS.gene069899:CDS
TCATGGACCTGGCCATGTTA+GGG 0.460907 2.1:+4295679 MS.gene069899:CDS
TATTCTTTGAATTGTTTCCA+AGG 0.488072 2.1:-4295640 None:intergenic
TTTGACACAATCAGAGACCT+TGG 0.519786 2.1:+4295623 MS.gene069899:CDS
AACTTCAGCAAAGGAAGTGA+TGG 0.519872 2.1:+4295577 MS.gene069899:CDS
CCAATATCCCTAACATGGCC+AGG 0.522093 2.1:-4295686 None:intergenic
TCAAATTCGCAACGGTGTGA+TGG 0.532025 2.1:+4295712 MS.gene069899:CDS
CAGCGACAAGCTATCACAGA+TGG 0.616981 2.1:+4295512 MS.gene069899:CDS
CAATTCTCTAACAAGGTGGA+AGG 0.619045 2.1:+4295554 MS.gene069899:CDS
TATCTTGCAATTCTCTAACA+AGG 0.634296 2.1:+4295547 MS.gene069899:CDS
GATCACCAATATCCCTAACA+TGG 0.643726 2.1:-4295691 None:intergenic
GGTGGAAGGAACTTCAGCAA+AGG 0.646544 2.1:+4295568 MS.gene069899:CDS
CTTGCAATTCTCTAACAAGG+TGG 0.663716 2.1:+4295550 MS.gene069899:CDS
ATTGGTGATCAAATTCGCAA+CGG 0.676665 2.1:+4295704 MS.gene069899:CDS
CTAACATGGCCAGGTCCATG+AGG 0.693167 2.1:-4295677 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TATTCTTTGAATTGTTTCCA+AGG - chr2.1:4295643-4295662 None:intergenic 25.0%
TATCTTGCAATTCTCTAACA+AGG + chr2.1:4295547-4295566 MS.gene069899:CDS 30.0%
TCCATGAGGTATAAAAACTG+TGG - chr2.1:4295666-4295685 None:intergenic 35.0%
! ACCACAGTTTTTATACCTCA+TGG + chr2.1:4295662-4295681 MS.gene069899:CDS 35.0%
! ATTGGTGATCAAATTCGCAA+CGG + chr2.1:4295704-4295723 MS.gene069899:CDS 35.0%
AACTTCAGCAAAGGAAGTGA+TGG + chr2.1:4295577-4295596 MS.gene069899:CDS 40.0%
CAATTCTCTAACAAGGTGGA+AGG + chr2.1:4295554-4295573 MS.gene069899:CDS 40.0%
CTTGCAATTCTCTAACAAGG+TGG + chr2.1:4295550-4295569 MS.gene069899:CDS 40.0%
GATCACCAATATCCCTAACA+TGG - chr2.1:4295694-4295713 None:intergenic 40.0%
TTTGACACAATCAGAGACCT+TGG + chr2.1:4295623-4295642 MS.gene069899:CDS 40.0%
! GTTTTTATACCTCATGGACC+TGG + chr2.1:4295668-4295687 MS.gene069899:CDS 40.0%
!! TTGGAGTTTTTAGGAGGAGT+TGG + chr2.1:4295479-4295498 MS.gene069899:CDS 40.0%
TCAAATTCGCAACGGTGTGA+TGG + chr2.1:4295712-4295731 MS.gene069899:CDS 45.0%
!!! GTTTTTAGGAGGAGTTGGTG+TGG + chr2.1:4295484-4295503 MS.gene069899:CDS 45.0%
CAGCGACAAGCTATCACAGA+TGG + chr2.1:4295512-4295531 MS.gene069899:CDS 50.0%
CCAATATCCCTAACATGGCC+AGG - chr2.1:4295689-4295708 None:intergenic 50.0%
CCTGGCCATGTTAGGGATAT+TGG + chr2.1:4295686-4295705 MS.gene069899:CDS 50.0%
GGTGGAAGGAACTTCAGCAA+AGG + chr2.1:4295568-4295587 MS.gene069899:CDS 50.0%
TCATGGACCTGGCCATGTTA+GGG + chr2.1:4295679-4295698 MS.gene069899:CDS 50.0%
CTAACATGGCCAGGTCCATG+AGG - chr2.1:4295680-4295699 None:intergenic 55.0%
CTCATGGACCTGGCCATGTT+AGG + chr2.1:4295678-4295697 MS.gene069899:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 4295476 4295769 4295476 ID=MS.gene069899
chr2.1 mRNA 4295476 4295769 4295476 ID=MS.gene069899.t1;Parent=MS.gene069899
chr2.1 exon 4295476 4295769 4295476 ID=MS.gene069899.t1.exon1;Parent=MS.gene069899.t1
chr2.1 CDS 4295476 4295769 4295476 ID=cds.MS.gene069899.t1;Parent=MS.gene069899.t1
Gene Sequence

>MS.gene069899

ATGTTGGAGTTTTTAGGAGGAGTTGGTGTGGCAAGACAGCGACAAGCTATCACAGATGGCTTGAGAGAGAATATCTTGCAATTCTCTAACAAGGTGGAAGGAACTTCAGCAAAGGAAGTGATGGATCTTATCATGATTACTCAATACTTTGACACAATCAGAGACCTTGGAAACAATTCAAAGAATACCACAGTTTTTATACCTCATGGACCTGGCCATGTTAGGGATATTGGTGATCAAATTCGCAACGGTGTGATGGAAACATCATGTGCTCAAGTTACTGATGTTGAGTGA
Protein sequence

>MS.gene069899.t1

MLEFLGGVGVARQRQAITDGLRENILQFSNKVEGTSAKEVMDLIMITQYFDTIRDLGNNSKNTTVFIPHGPGHVRDIGDQIRNGVMETSCAQVTDVE