AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene58353

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene58353.t1 MTR_2g078780 92.437 119 6 1 1 119 1 116 1.50e-76 222
MS.gene58353.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:-21571542 None:intergenic
AGAAGTAGTGAAGATTTATC+AGG 0.364128 2.1:+21571719 MS.gene58353:CDS
AACAAAGAAAACTGTACAAT+TGG 0.403825 2.1:+21571640 MS.gene58353:CDS
GTCTTTGCACTGAGCAAGAA+AGG 0.411430 2.1:-21571325 None:intergenic
ATTCAGGGTGGTGATCCATT+AGG 0.431783 2.1:+21571527 MS.gene58353:intron
GTTGATAACTTTAGCAGCAT+TGG 0.452113 2.1:-21571364 None:intergenic
CTAGAGAGTGTTGAAGAAGT+TGG 0.457188 2.1:+21571587 MS.gene58353:CDS
GAGTGTTGAAGAAGTTGGTA+AGG 0.463197 2.1:+21571592 MS.gene58353:CDS
TCTTGCTCAGTGCAAAGACT+TGG 0.489170 2.1:+21571329 MS.gene58353:CDS
AACTTGGAGATGGCTGTGAT+AGG 0.503601 2.1:+21571744 MS.gene58353:CDS
AACTTTAGCAGCATTGGTAG+TGG 0.505111 2.1:-21571358 None:intergenic
CCATTAGGAGCAATAAATCA+AGG 0.506320 2.1:+21571542 MS.gene58353:CDS
GAAGATTTATCAGGGCAACT+TGG 0.516603 2.1:+21571728 MS.gene58353:CDS
AGGAAAATGTGGAAACTGCA+TGG 0.519693 2.1:+21571612 MS.gene58353:CDS
TTATCAGGGCAACTTGGAGA+TGG 0.537867 2.1:+21571734 MS.gene58353:CDS
AGAAGTTGGTAAGGAAAATG+TGG 0.552960 2.1:+21571601 MS.gene58353:CDS
GAAGTAGTGAAGATTTATCA+GGG 0.567179 2.1:+21571720 MS.gene58353:CDS
TCTTTGCACTGAGCAAGAAA+GGG 0.570085 2.1:-21571324 None:intergenic
AGGGTCAGAGAAAGCAAGAG+AGG 0.619602 2.1:+21571562 MS.gene58353:CDS
GACTGAGACAACCACTGCTG+AGG 0.629251 2.1:+21571664 MS.gene58353:CDS
TGAGGCTGATATGAATGTTG+TGG 0.639431 2.1:+21571682 MS.gene58353:CDS
CATTAGGAGCAATAAATCAA+GGG 0.647640 2.1:+21571543 MS.gene58353:CDS
ATTCATATCAGCCTCAGCAG+TGG 0.674496 2.1:-21571675 None:intergenic
GGAAAATGTGGAAACTGCAT+GGG 0.686615 2.1:+21571613 MS.gene58353:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTGAAAGAAAAAAAAATTG+AGG - chr2.1:21571431-21571450 None:intergenic 20.0%
!!! TTTTTTTTTTAAATTCAGGG+TGG + chr2.1:21571515-21571534 MS.gene58353:intron 20.0%
! AACAAAGAAAACTGTACAAT+TGG + chr2.1:21571640-21571659 MS.gene58353:CDS 25.0%
AGAAGTAGTGAAGATTTATC+AGG + chr2.1:21571719-21571738 MS.gene58353:CDS 30.0%
CATTAGGAGCAATAAATCAA+GGG + chr2.1:21571543-21571562 MS.gene58353:CDS 30.0%
GAAGTAGTGAAGATTTATCA+GGG + chr2.1:21571720-21571739 MS.gene58353:CDS 30.0%
CCATTAGGAGCAATAAATCA+AGG + chr2.1:21571542-21571561 MS.gene58353:CDS 35.0%
CCTTGATTTATTGCTCCTAA+TGG - chr2.1:21571545-21571564 None:intergenic 35.0%
!! AGAAGTTGGTAAGGAAAATG+TGG + chr2.1:21571601-21571620 MS.gene58353:CDS 35.0%
!! GTTGATAACTTTAGCAGCAT+TGG - chr2.1:21571367-21571386 None:intergenic 35.0%
AGGAAAATGTGGAAACTGCA+TGG + chr2.1:21571612-21571631 MS.gene58353:CDS 40.0%
GAAGATTTATCAGGGCAACT+TGG + chr2.1:21571728-21571747 MS.gene58353:CDS 40.0%
GGAAAATGTGGAAACTGCAT+GGG + chr2.1:21571613-21571632 MS.gene58353:CDS 40.0%
TCTTTGCACTGAGCAAGAAA+GGG - chr2.1:21571327-21571346 None:intergenic 40.0%
TGAGGCTGATATGAATGTTG+TGG + chr2.1:21571682-21571701 MS.gene58353:CDS 40.0%
!! AACTTTAGCAGCATTGGTAG+TGG - chr2.1:21571361-21571380 None:intergenic 40.0%
!! CTAGAGAGTGTTGAAGAAGT+TGG + chr2.1:21571587-21571606 MS.gene58353:CDS 40.0%
!! GAGTGTTGAAGAAGTTGGTA+AGG + chr2.1:21571592-21571611 MS.gene58353:CDS 40.0%
AACTTGGAGATGGCTGTGAT+AGG + chr2.1:21571744-21571763 MS.gene58353:CDS 45.0%
ATTCAGGGTGGTGATCCATT+AGG + chr2.1:21571527-21571546 MS.gene58353:intron 45.0%
ATTCATATCAGCCTCAGCAG+TGG - chr2.1:21571678-21571697 None:intergenic 45.0%
GTCTTTGCACTGAGCAAGAA+AGG - chr2.1:21571328-21571347 None:intergenic 45.0%
TCTTGCTCAGTGCAAAGACT+TGG + chr2.1:21571329-21571348 MS.gene58353:CDS 45.0%
TTATCAGGGCAACTTGGAGA+TGG + chr2.1:21571734-21571753 MS.gene58353:CDS 45.0%
!!! TTTTTTTTTTTTTAAATTCA+GGG + chr2.1:21571512-21571531 MS.gene58353:intron 5.0%
!!! TTTTTTTTTTTTTTAAATTC+AGG + chr2.1:21571511-21571530 MS.gene58353:intron 5.0%
AGGGTCAGAGAAAGCAAGAG+AGG + chr2.1:21571562-21571581 MS.gene58353:CDS 50.0%
GACTGAGACAACCACTGCTG+AGG + chr2.1:21571664-21571683 MS.gene58353:CDS 55.0%


Chromosome Type Strat End Strand Name
chr2.1 gene 21571309 21571778 21571309 ID=MS.gene58353
chr2.1 mRNA 21571309 21571778 21571309 ID=MS.gene58353.t1;Parent=MS.gene58353
chr2.1 exon 21571309 21571422 21571309 ID=MS.gene58353.t1.exon1;Parent=MS.gene58353.t1
chr2.1 CDS 21571309 21571422 21571309 ID=cds.MS.gene58353.t1;Parent=MS.gene58353.t1
chr2.1 exon 21571533 21571778 21571533 ID=MS.gene58353.t1.exon2;Parent=MS.gene58353.t1
chr2.1 CDS 21571533 21571778 21571533 ID=cds.MS.gene58353.t1;Parent=MS.gene58353.t1
Gene Sequence

>MS.gene58353

ATGGCAAAAACATTTCCCTTTCTTGCTCAGTGCAAAGACTTGGTCAAAACCACTACCAATGCTGCTAAAGTTATCAACTTCTCAATTGCAAAACAATCTCACATTCATACTCAAGTATACCTCAATTTTTTTTTCTTTCACAAATATTTATTTTTAAATTTTTTTTAATTTTGAAAATATGCTCACAAATATTGTGTACTTTTTTTTTTTTTTTTTAAATTCAGGGTGGTGATCCATTAGGAGCAATAAATCAAGGGTCAGAGAAAGCAAGAGAGGTACTAGAGAGTGTTGAAGAAGTTGGTAAGGAAAATGTGGAAACTGCATGGGATGCAACAAAGAAAACTGTACAATTGGTGACTGAGACAACCACTGCTGAGGCTGATATGAATGTTGTGGACACTGCAGAGTATAGAAGTAGTGAAGATTTATCAGGGCAACTTGGAGATGGCTGTGATAGGATTCAGTTATAA
Protein sequence

>MS.gene58353.t1

MAKTFPFLAQCKDLVKTTTNAAKVINFSIAKQSHIHTQGGDPLGAINQGSEKAREVLESVEEVGKENVETAWDATKKTVQLVTETTTAEADMNVVDTAEYRSSEDLSGQLGDGCDRIQL