AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene71882

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene71882.t1 MTR_2g078780 92.437 119 6 1 1 119 1 116 1.50e-76 222
MS.gene71882.t1 MTR_1g061895 93.939 99 6 0 1 99 1 99 4.04e-63 187
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 24 sgRNAs with CRISPR-Local

Find 28 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTTGATTTATTGCTCCTAA+TGG 0.262425 2.1:-21650184 None:intergenic
AGAAGTAGTGAAGATTTATC+AGG 0.364128 2.1:+21650361 MS.gene71882:CDS
AACAAAGAAAACTGTACAAT+TGG 0.403825 2.1:+21650282 MS.gene71882:CDS
GTCTTTGCACTGAGCAAGAA+AGG 0.411430 2.1:-21649967 None:intergenic
ATTCAGGGTGGTGATCCATT+AGG 0.431783 2.1:+21650169 MS.gene71882:intron
GTTGATAACTTTAGCAGCAT+TGG 0.452113 2.1:-21650006 None:intergenic
CTAGAGAGTGTTGAAGAAGT+TGG 0.457188 2.1:+21650229 MS.gene71882:CDS
GAGTGTTGAAGAAGTTGGTA+AGG 0.463197 2.1:+21650234 MS.gene71882:CDS
TCTTGCTCAGTGCAAAGACT+TGG 0.489170 2.1:+21649971 MS.gene71882:CDS
AACTTGGAGATGGCTGTGAT+AGG 0.503601 2.1:+21650386 MS.gene71882:CDS
AACTTTAGCAGCATTGGTAG+TGG 0.505111 2.1:-21650000 None:intergenic
CCATTAGGAGCAATAAATCA+AGG 0.506320 2.1:+21650184 MS.gene71882:CDS
GAAGATTTATCAGGGCAACT+TGG 0.516603 2.1:+21650370 MS.gene71882:CDS
AGGAAAATGTGGAAACTGCA+TGG 0.519693 2.1:+21650254 MS.gene71882:CDS
TTATCAGGGCAACTTGGAGA+TGG 0.537867 2.1:+21650376 MS.gene71882:CDS
AGAAGTTGGTAAGGAAAATG+TGG 0.552960 2.1:+21650243 MS.gene71882:CDS
GAAGTAGTGAAGATTTATCA+GGG 0.567179 2.1:+21650362 MS.gene71882:CDS
TCTTTGCACTGAGCAAGAAA+GGG 0.570085 2.1:-21649966 None:intergenic
AGGGTCAGAGAAAGCAAGAG+AGG 0.619602 2.1:+21650204 MS.gene71882:CDS
GACTGAGACAACCACTGCTG+AGG 0.629251 2.1:+21650306 MS.gene71882:CDS
TGAGGCTGATATGAATGTTG+TGG 0.639431 2.1:+21650324 MS.gene71882:CDS
CATTAGGAGCAATAAATCAA+GGG 0.647640 2.1:+21650185 MS.gene71882:CDS
ATTCATATCAGCCTCAGCAG+TGG 0.674496 2.1:-21650317 None:intergenic
GGAAAATGTGGAAACTGCAT+GGG 0.686615 2.1:+21650255 MS.gene71882:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTGAAAGAAAAAAAAATTG+AGG - chr2.1:21650073-21650092 None:intergenic 20.0%
!!! TTTTTTTTTTAAATTCAGGG+TGG + chr2.1:21650157-21650176 MS.gene71882:intron 20.0%
! AACAAAGAAAACTGTACAAT+TGG + chr2.1:21650282-21650301 MS.gene71882:CDS 25.0%
AGAAGTAGTGAAGATTTATC+AGG + chr2.1:21650361-21650380 MS.gene71882:CDS 30.0%
CATTAGGAGCAATAAATCAA+GGG + chr2.1:21650185-21650204 MS.gene71882:CDS 30.0%
GAAGTAGTGAAGATTTATCA+GGG + chr2.1:21650362-21650381 MS.gene71882:CDS 30.0%
CCATTAGGAGCAATAAATCA+AGG + chr2.1:21650184-21650203 MS.gene71882:CDS 35.0%
CCTTGATTTATTGCTCCTAA+TGG - chr2.1:21650187-21650206 None:intergenic 35.0%
!! AGAAGTTGGTAAGGAAAATG+TGG + chr2.1:21650243-21650262 MS.gene71882:CDS 35.0%
!! GTTGATAACTTTAGCAGCAT+TGG - chr2.1:21650009-21650028 None:intergenic 35.0%
AGGAAAATGTGGAAACTGCA+TGG + chr2.1:21650254-21650273 MS.gene71882:CDS 40.0%
GAAGATTTATCAGGGCAACT+TGG + chr2.1:21650370-21650389 MS.gene71882:CDS 40.0%
GGAAAATGTGGAAACTGCAT+GGG + chr2.1:21650255-21650274 MS.gene71882:CDS 40.0%
TCTTTGCACTGAGCAAGAAA+GGG - chr2.1:21649969-21649988 None:intergenic 40.0%
TGAGGCTGATATGAATGTTG+TGG + chr2.1:21650324-21650343 MS.gene71882:CDS 40.0%
!! AACTTTAGCAGCATTGGTAG+TGG - chr2.1:21650003-21650022 None:intergenic 40.0%
!! CTAGAGAGTGTTGAAGAAGT+TGG + chr2.1:21650229-21650248 MS.gene71882:CDS 40.0%
!! GAGTGTTGAAGAAGTTGGTA+AGG + chr2.1:21650234-21650253 MS.gene71882:CDS 40.0%
AACTTGGAGATGGCTGTGAT+AGG + chr2.1:21650386-21650405 MS.gene71882:CDS 45.0%
ATTCAGGGTGGTGATCCATT+AGG + chr2.1:21650169-21650188 MS.gene71882:intron 45.0%
ATTCATATCAGCCTCAGCAG+TGG - chr2.1:21650320-21650339 None:intergenic 45.0%
GTCTTTGCACTGAGCAAGAA+AGG - chr2.1:21649970-21649989 None:intergenic 45.0%
TCTTGCTCAGTGCAAAGACT+TGG + chr2.1:21649971-21649990 MS.gene71882:CDS 45.0%
TTATCAGGGCAACTTGGAGA+TGG + chr2.1:21650376-21650395 MS.gene71882:CDS 45.0%
!!! TTTTTTTTTTTTTAAATTCA+GGG + chr2.1:21650154-21650173 MS.gene71882:intron 5.0%
!!! TTTTTTTTTTTTTTAAATTC+AGG + chr2.1:21650153-21650172 MS.gene71882:intron 5.0%
AGGGTCAGAGAAAGCAAGAG+AGG + chr2.1:21650204-21650223 MS.gene71882:CDS 50.0%
GACTGAGACAACCACTGCTG+AGG + chr2.1:21650306-21650325 MS.gene71882:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 21649951 21650420 21649951 ID=MS.gene71882
chr2.1 mRNA 21649951 21650420 21649951 ID=MS.gene71882.t1;Parent=MS.gene71882
chr2.1 exon 21649951 21650064 21649951 ID=MS.gene71882.t1.exon1;Parent=MS.gene71882.t1
chr2.1 CDS 21649951 21650064 21649951 ID=cds.MS.gene71882.t1;Parent=MS.gene71882.t1
chr2.1 exon 21650175 21650420 21650175 ID=MS.gene71882.t1.exon2;Parent=MS.gene71882.t1
chr2.1 CDS 21650175 21650420 21650175 ID=cds.MS.gene71882.t1;Parent=MS.gene71882.t1
Gene Sequence

>MS.gene71882

ATGGCAAAAACATTTCCCTTTCTTGCTCAGTGCAAAGACTTGGTCAAAACCACTACCAATGCTGCTAAAGTTATCAACTTCTCAATTGCAAAACAATCTCACATTCATACTCAAGTATACCTCAATTTTTTTTTCTTTCACAAATATTTATTTTTAAATTTTTTTTAATTTTGAAAATATGCTCACAAATATTGTGTACTTTTTTTTTTTTTTTTTAAATTCAGGGTGGTGATCCATTAGGAGCAATAAATCAAGGGTCAGAGAAAGCAAGAGAGGTACTAGAGAGTGTTGAAGAAGTTGGTAAGGAAAATGTGGAAACTGCATGGGATGCAACAAAGAAAACTGTACAATTGGTGACTGAGACAACCACTGCTGAGGCTGATATGAATGTTGTGGACACTGCAGAGTATAGAAGTAGTGAAGATTTATCAGGGCAACTTGGAGATGGCTGTGATAGGATTCAGTTATAA
Protein sequence

>MS.gene71882.t1

MAKTFPFLAQCKDLVKTTTNAAKVINFSIAKQSHIHTQGGDPLGAINQGSEKAREVLESVEEVGKENVETAWDATKKTVQLVTETTTAEADMNVVDTAEYRSSEDLSGQLGDGCDRIQL