AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene92272

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92272.t1 MTR_8g023100 95.960 99 3 1 1 99 1 98 7.17e-67 197
MS.gene92272.t1 MTR_7g117550 57.732 97 37 3 1 97 23 115 1.70e-31 107
MS.gene92272.t1 MTR_7g117550 57.732 97 37 3 1 97 1 93 6.46e-31 107
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene92272.t1 AT3G14280 49.231 65 31 2 21 85 21 83 3.65e-11 56.2

Find 14 sgRNAs with CRISPR-Local

Find 37 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GAATTATCATATTTCTGAAT+TGG 0.275390 8.2:-72644027 None:intergenic
AATTATCATATTTCTGAATT+GGG 0.345181 8.2:-72644026 None:intergenic
CTTTGGAGCATAGCATCGTT+TGG 0.411384 8.2:-72644082 None:intergenic
CTTGAAATTTGTCTATAAGA+TGG 0.456782 8.2:-72644602 None:intergenic
TTATTTCTCCACTCTCATCT+TGG 0.480024 8.2:-72644556 None:intergenic
ATTTGTGAAGGGTATGATGA+AGG 0.501766 8.2:+72644578 MS.gene92272:CDS
GACCAACGGTTCATCACAAA+AGG 0.504204 8.2:+72644624 MS.gene92272:CDS
GTGGAGAAATAATTTGTGAA+GGG 0.550320 8.2:+72644567 MS.gene92272:CDS
AGTGGAGAAATAATTTGTGA+AGG 0.561503 8.2:+72644566 MS.gene92272:CDS
TTTGTGAAGGGTATGATGAA+GGG 0.566441 8.2:+72644579 MS.gene92272:CDS
CACAGCATCCATCAAGAACA+AGG 0.570428 8.2:+72644140 MS.gene92272:CDS
TAGACAAATTTCAAGACCAA+CGG 0.578411 8.2:+72644610 MS.gene92272:CDS
AAAGTCAACAGTTGGTCCAG+TGG 0.602548 8.2:+72644107 MS.gene92272:CDS
ATTTGCTACCAAGATGAGAG+TGG 0.633835 8.2:+72644548 MS.gene92272:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAAAAGATGAAAAAAACTT+TGG + chr8.2:72644262-72644281 MS.gene92272:intron 15.0%
!! AAGAATAGATAAAAGATAAT+AGG - chr8.2:72644173-72644192 None:intergenic 15.0%
!! ATAGATATATGTATATCAAT+TGG - chr8.2:72644216-72644235 None:intergenic 15.0%
!!! AATTATCATATTTCTGAATT+GGG - chr8.2:72644029-72644048 None:intergenic 15.0%
!!! AGATAAGTTTTTTCTTTTTT+TGG + chr8.2:72644382-72644401 MS.gene92272:intron 15.0%
!!! AAAAAAACTTTGGTTAGTTA+TGG + chr8.2:72644272-72644291 MS.gene92272:intron 20.0%
!!! GAATTATCATATTTCTGAAT+TGG - chr8.2:72644030-72644049 None:intergenic 20.0%
!!! TACCTTATAGTTTTTTCTAA+GGG - chr8.2:72644350-72644369 None:intergenic 20.0%
!!! TGGATATATCTACTTTTTAT+TGG + chr8.2:72644402-72644421 MS.gene92272:intron 20.0%
! CTTGAAATTTGTCTATAAGA+TGG - chr8.2:72644605-72644624 None:intergenic 25.0%
! TGTCTAATTTGATACTAAAC+AGG + chr8.2:72644496-72644515 MS.gene92272:intron 25.0%
! TTTCTCCTAGTAGTAAAAAT+AGG + chr8.2:72644438-72644457 MS.gene92272:intron 25.0%
! TTTGTCTCTAGTTATATCTT+TGG + chr8.2:72644319-72644338 MS.gene92272:intron 25.0%
!! TTTGGTTAGTTATGGAAATT+TGG + chr8.2:72644280-72644299 MS.gene92272:intron 25.0%
!!! GTACCTTATAGTTTTTTCTA+AGG - chr8.2:72644351-72644370 None:intergenic 25.0%
!!! TACTAAACAGGTTTTTTATG+AGG + chr8.2:72644508-72644527 MS.gene92272:intron 25.0%
ACTATAAGGTACGTCAAAAT+TGG + chr8.2:72644359-72644378 MS.gene92272:intron 30.0%
GTCCCTTAGAAAAAACTATA+AGG + chr8.2:72644345-72644364 MS.gene92272:intron 30.0%
TAGACAAATTTCAAGACCAA+CGG + chr8.2:72644610-72644629 MS.gene92272:CDS 30.0%
! AGTGGAGAAATAATTTGTGA+AGG + chr8.2:72644566-72644585 MS.gene92272:CDS 30.0%
! GTGGAGAAATAATTTGTGAA+GGG + chr8.2:72644567-72644586 MS.gene92272:CDS 30.0%
!! GATTTTAACCTTGTTCTTGA+TGG - chr8.2:72644151-72644170 None:intergenic 30.0%
CCAAAGAAAAAGTCAACAGT+TGG + chr8.2:72644099-72644118 MS.gene92272:CDS 35.0%
CCTAGTAGTAAAAATAGGCT+AGG + chr8.2:72644443-72644462 MS.gene92272:intron 35.0%
! ATTTGTGAAGGGTATGATGA+AGG + chr8.2:72644578-72644597 MS.gene92272:CDS 35.0%
! TTATTTCTCCACTCTCATCT+TGG - chr8.2:72644559-72644578 None:intergenic 35.0%
! TTTGTGAAGGGTATGATGAA+GGG + chr8.2:72644579-72644598 MS.gene92272:CDS 35.0%
! TTTTATGAGGATGAGTCTCA+AGG + chr8.2:72644521-72644540 MS.gene92272:CDS 35.0%
!!! CCAACTGTTGACTTTTTCTT+TGG - chr8.2:72644102-72644121 None:intergenic 35.0%
!!! CCTAGCCTATTTTTACTACT+AGG - chr8.2:72644446-72644465 None:intergenic 35.0%
! ATTTGCTACCAAGATGAGAG+TGG + chr8.2:72644548-72644567 MS.gene92272:CDS 40.0%
! GCTGTGATTTTCAATACCAC+TGG - chr8.2:72644126-72644145 None:intergenic 40.0%
! TACCTTTTGTGATGAACCGT+TGG - chr8.2:72644629-72644648 None:intergenic 40.0%
AAAGTCAACAGTTGGTCCAG+TGG + chr8.2:72644107-72644126 MS.gene92272:CDS 45.0%
CACAGCATCCATCAAGAACA+AGG + chr8.2:72644140-72644159 MS.gene92272:CDS 45.0%
GACCAACGGTTCATCACAAA+AGG + chr8.2:72644624-72644643 MS.gene92272:CDS 45.0%
!! CTTTGGAGCATAGCATCGTT+TGG - chr8.2:72644085-72644104 None:intergenic 45.0%


Chromosome Type Strat End Strand Name
chr8.2 gene 72643994 72644649 72643994 ID=MS.gene92272
chr8.2 mRNA 72643994 72644649 72643994 ID=MS.gene92272.t1;Parent=MS.gene92272
chr8.2 exon 72643994 72644161 72643994 ID=MS.gene92272.t1.exon1;Parent=MS.gene92272.t1
chr8.2 CDS 72643994 72644161 72643994 ID=cds.MS.gene92272.t1;Parent=MS.gene92272.t1
chr8.2 exon 72644518 72644649 72644518 ID=MS.gene92272.t1.exon2;Parent=MS.gene92272.t1
chr8.2 CDS 72644518 72644649 72644518 ID=cds.MS.gene92272.t1;Parent=MS.gene92272.t1
Gene Sequence

>MS.gene92272

ATGGCTGTTCACTGCAATTCTTTAGCTCAAATCCCAATTCAGAAATATGATAATTCATTTGTGAAATATTCAAACAATTTGTTGATGTCCAAACGATGCTATGCTCCAAAGAAAAAGTCAACAGTTGGTCCAGTGGTATTGAAAATCACAGCATCCATCAAGAACAAGGTTAAAATCCTATTATCTTTTATCTATTCTTTAGAAGTCACATATGTATAGCCAATTGATATACATATATCTATTAAAAAAAAGTTCAATAGTTTATTTCAAAAAAGATGAAAAAAACTTTGGTTAGTTATGGAAATTTGGAAACAAAAATATAACATTTGTCTCTAGTTATATCTTTGGTACGTCCCTTAGAAAAAACTATAAGGTACGTCAAAATTGGAGATAAGTTTTTTCTTTTTTTGGATATATCTACTTTTTATTGGTAATTTGTTCTTTTTTCTCCTAGTAGTAAAAATAGGCTAGGACTGAGATTAAAGATCTTTCTCTTAATTAATGTCTAATTTGATACTAAACAGGTTTTTTATGAGGATGAGTCTCAAGGTATAATTTGCTACCAAGATGAGAGTGGAGAAATAATTTGTGAAGGGTATGATGAAGGGCCATCTTATAGACAAATTTCAAGACCAACGGTTCATCACAAAAGGTAG
Protein sequence

>MS.gene92272.t1

MAVHCNSLAQIPIQKYDNSFVKYSNNLLMSKRCYAPKKKSTVGPVVLKITASIKNKVFYEDESQGIICYQDESGEIICEGYDEGPSYRQISRPTVHHKR