AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene67045

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene67045.t1 MTR_2g078780 92.437 119 6 1 1 119 1 116 1.50e-76 222
MS.gene67045.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:+21668230 None:intergenic
AGAAGTAGTGAAGATTTATC+AGG 0.364128 2.1:-21668053 MS.gene67045:CDS
AACAAAGAAAACTGTACAAT+TGG 0.403825 2.1:-21668132 MS.gene67045:CDS
GTCTTTGCACTGAGCAAGAA+AGG 0.411430 2.1:+21668447 None:intergenic
ATTCAGGGTGGTGATCCATT+AGG 0.431783 2.1:-21668245 MS.gene67045:intron
GTTGATAACTTTAGCAGCAT+TGG 0.452113 2.1:+21668408 None:intergenic
CTAGAGAGTGTTGAAGAAGT+TGG 0.457188 2.1:-21668185 MS.gene67045:CDS
GAGTGTTGAAGAAGTTGGTA+AGG 0.463197 2.1:-21668180 MS.gene67045:CDS
TCTTGCTCAGTGCAAAGACT+TGG 0.489170 2.1:-21668443 MS.gene67045:CDS
AACTTGGAGATGGCTGTGAT+AGG 0.503601 2.1:-21668028 MS.gene67045:CDS
AACTTTAGCAGCATTGGTAG+TGG 0.505111 2.1:+21668414 None:intergenic
CCATTAGGAGCAATAAATCA+AGG 0.506320 2.1:-21668230 MS.gene67045:CDS
GAAGATTTATCAGGGCAACT+TGG 0.516603 2.1:-21668044 MS.gene67045:CDS
AGGAAAATGTGGAAACTGCA+TGG 0.519693 2.1:-21668160 MS.gene67045:CDS
TTATCAGGGCAACTTGGAGA+TGG 0.537867 2.1:-21668038 MS.gene67045:CDS
AGAAGTTGGTAAGGAAAATG+TGG 0.552960 2.1:-21668171 MS.gene67045:CDS
GAAGTAGTGAAGATTTATCA+GGG 0.567179 2.1:-21668052 MS.gene67045:CDS
TCTTTGCACTGAGCAAGAAA+GGG 0.570085 2.1:+21668448 None:intergenic
AGGGTCAGAGAAAGCAAGAG+AGG 0.619602 2.1:-21668210 MS.gene67045:CDS
GACTGAGACAACCACTGCTG+AGG 0.629251 2.1:-21668108 MS.gene67045:CDS
TGAGGCTGATATGAATGTTG+TGG 0.639431 2.1:-21668090 MS.gene67045:CDS
CATTAGGAGCAATAAATCAA+GGG 0.647640 2.1:-21668229 MS.gene67045:CDS
ATTCATATCAGCCTCAGCAG+TGG 0.674496 2.1:+21668097 None:intergenic
GGAAAATGTGGAAACTGCAT+GGG 0.686615 2.1:-21668159 MS.gene67045:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTGAAAGAAAAAAAAATTG+AGG + chr2.1:21668138-21668157 None:intergenic 20.0%
!!! TTTTTTTTTTAAATTCAGGG+TGG - chr2.1:21668222-21668241 MS.gene67045:CDS 20.0%
! AACAAAGAAAACTGTACAAT+TGG - chr2.1:21668347-21668366 MS.gene67045:intron 25.0%
AGAAGTAGTGAAGATTTATC+AGG - chr2.1:21668426-21668445 MS.gene67045:CDS 30.0%
CATTAGGAGCAATAAATCAA+GGG - chr2.1:21668250-21668269 MS.gene67045:intron 30.0%
GAAGTAGTGAAGATTTATCA+GGG - chr2.1:21668427-21668446 MS.gene67045:CDS 30.0%
CCATTAGGAGCAATAAATCA+AGG - chr2.1:21668249-21668268 MS.gene67045:intron 35.0%
CCTTGATTTATTGCTCCTAA+TGG + chr2.1:21668252-21668271 None:intergenic 35.0%
!! AGAAGTTGGTAAGGAAAATG+TGG - chr2.1:21668308-21668327 MS.gene67045:intron 35.0%
!! GTTGATAACTTTAGCAGCAT+TGG + chr2.1:21668074-21668093 None:intergenic 35.0%
AGGAAAATGTGGAAACTGCA+TGG - chr2.1:21668319-21668338 MS.gene67045:intron 40.0%
GAAGATTTATCAGGGCAACT+TGG - chr2.1:21668435-21668454 MS.gene67045:CDS 40.0%
GGAAAATGTGGAAACTGCAT+GGG - chr2.1:21668320-21668339 MS.gene67045:intron 40.0%
TCTTTGCACTGAGCAAGAAA+GGG + chr2.1:21668034-21668053 None:intergenic 40.0%
TGAGGCTGATATGAATGTTG+TGG - chr2.1:21668389-21668408 MS.gene67045:CDS 40.0%
!! AACTTTAGCAGCATTGGTAG+TGG + chr2.1:21668068-21668087 None:intergenic 40.0%
!! CTAGAGAGTGTTGAAGAAGT+TGG - chr2.1:21668294-21668313 MS.gene67045:intron 40.0%
!! GAGTGTTGAAGAAGTTGGTA+AGG - chr2.1:21668299-21668318 MS.gene67045:intron 40.0%
AACTTGGAGATGGCTGTGAT+AGG - chr2.1:21668451-21668470 MS.gene67045:CDS 45.0%
ATTCAGGGTGGTGATCCATT+AGG - chr2.1:21668234-21668253 MS.gene67045:CDS 45.0%
ATTCATATCAGCCTCAGCAG+TGG + chr2.1:21668385-21668404 None:intergenic 45.0%
GTCTTTGCACTGAGCAAGAA+AGG + chr2.1:21668035-21668054 None:intergenic 45.0%
TCTTGCTCAGTGCAAAGACT+TGG - chr2.1:21668036-21668055 MS.gene67045:CDS 45.0%
TTATCAGGGCAACTTGGAGA+TGG - chr2.1:21668441-21668460 MS.gene67045:CDS 45.0%
!!! TTTTTTTTTTTTTAAATTCA+GGG - chr2.1:21668219-21668238 MS.gene67045:CDS 5.0%
!!! TTTTTTTTTTTTTTAAATTC+AGG - chr2.1:21668218-21668237 MS.gene67045:CDS 5.0%
AGGGTCAGAGAAAGCAAGAG+AGG - chr2.1:21668269-21668288 MS.gene67045:intron 50.0%
GACTGAGACAACCACTGCTG+AGG - chr2.1:21668371-21668390 MS.gene67045:intron 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 21668016 21668485 21668016 ID=MS.gene67045
chr2.1 mRNA 21668016 21668485 21668016 ID=MS.gene67045.t1;Parent=MS.gene67045
chr2.1 exon 21668372 21668485 21668372 ID=MS.gene67045.t1.exon1;Parent=MS.gene67045.t1
chr2.1 CDS 21668372 21668485 21668372 ID=cds.MS.gene67045.t1;Parent=MS.gene67045.t1
chr2.1 exon 21668016 21668261 21668016 ID=MS.gene67045.t1.exon2;Parent=MS.gene67045.t1
chr2.1 CDS 21668016 21668261 21668016 ID=cds.MS.gene67045.t1;Parent=MS.gene67045.t1
Gene Sequence

>MS.gene67045

ATGGCAAAAACATTTCCCTTTCTTGCTCAGTGCAAAGACTTGGTCAAAACCACTACCAATGCTGCTAAAGTTATCAACTTCTCAATTGCAAAACAATCTCACATTCATACTCAAGTATACCTCAATTTTTTTTTCTTTCACAAATATTTATTTTTAAATTTTTTTTAATTTTGAAAATATGCTCACAAATATTGTGTACTTTTTTTTTTTTTTTTTAAATTCAGGGTGGTGATCCATTAGGAGCAATAAATCAAGGGTCAGAGAAAGCAAGAGAGGTACTAGAGAGTGTTGAAGAAGTTGGTAAGGAAAATGTGGAAACTGCATGGGATGCAACAAAGAAAACTGTACAATTGGTGACTGAGACAACCACTGCTGAGGCTGATATGAATGTTGTGGACACTGCAGAGTATAGAAGTAGTGAAGATTTATCAGGGCAACTTGGAGATGGCTGTGATAGGATTCAGTTATAA
Protein sequence

>MS.gene67045.t1

MAKTFPFLAQCKDLVKTTTNAAKVINFSIAKQSHIHTQGGDPLGAINQGSEKAREVLESVEEVGKENVETAWDATKKTVQLVTETTTAEADMNVVDTAEYRSSEDLSGQLGDGCDRIQL