AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene46063

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46063.t1 MTR_7g065210 98.291 117 2 0 1 117 1 117 2.86e-82 236
MS.gene46063.t1 MTR_7g065160 87.179 117 15 0 1 117 1 117 1.88e-74 216
MS.gene46063.t1 MTR_8g070040 51.515 99 46 2 20 117 23 120 1.51e-26 95.5
MS.gene46063.t1 MTR_8g070015 47.826 92 46 2 20 110 23 113 7.28e-21 80.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene46063.t1 AT3G53980 69.474 95 28 1 23 117 21 114 1.25e-45 144
MS.gene46063.t1 AT3G53980 69.474 95 28 1 23 117 21 114 1.25e-45 144
MS.gene46063.t1 AT5G05960 58.974 117 43 2 5 117 1 116 3.11e-43 137
MS.gene46063.t1 AT2G37870 47.706 109 53 3 11 117 9 115 3.02e-27 97.4

Find 21 sgRNAs with CRISPR-Local

Find 29 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGCTTAAAAGCTTCATTATC+TGG 0.286546 7.2:+42713770 None:intergenic
TAGCAAAGTTGCAGCGTTTA+GGG 0.296288 7.2:+42713585 None:intergenic
TTAGCAAAGTTGCAGCGTTT+AGG 0.339318 7.2:+42713584 None:intergenic
GGATAGTAACAGCAATTTGA+GGG 0.472152 7.2:+42713606 None:intergenic
ATGAAGATGCTGTGCCTAGT+TGG 0.489536 7.2:-42713860 MS.gene46063:CDS
TCAAACGTTGCTAAAATGTC+AGG 0.493407 7.2:-42713635 MS.gene46063:CDS
GGGATAGTAACAGCAATTTG+AGG 0.508534 7.2:+42713605 None:intergenic
AACTTTGCTAATCGTCCCAT+TGG 0.509591 7.2:-42713572 MS.gene46063:CDS
GTGGAAAGTGCTGGTGAATG+TGG 0.509602 7.2:-42713806 MS.gene46063:CDS
CGTCCGCACTTATAACCAAT+GGG 0.524534 7.2:+42713557 None:intergenic
ACGTCCGCACTTATAACCAA+TGG 0.525340 7.2:+42713556 None:intergenic
AAAGTGCTGGTGAATGTGGA+AGG 0.526970 7.2:-42713802 MS.gene46063:CDS
TCTTGTGCTGCACTTGCACA+AGG 0.541464 7.2:+42713743 None:intergenic
TGTTGCAGGGATTCATAGTG+TGG 0.563016 7.2:-42713825 MS.gene46063:CDS
AGTGCTGGTGAATGTGGAAG+GGG 0.579137 7.2:-42713800 MS.gene46063:CDS
AAGTGCTGGTGAATGTGGAA+GGG 0.587013 7.2:-42713801 MS.gene46063:CDS
AAAACTGCACAAAGACAACT+TGG 0.590774 7.2:+42713662 None:intergenic
TGTGCTCAGACTAAGAAACT+TGG 0.591888 7.2:-42713692 MS.gene46063:CDS
CAAGAACTACAAAACCAACT+AGG 0.604153 7.2:+42713846 None:intergenic
ATTCATAGTGTGGAAAGTGC+TGG 0.646573 7.2:-42713815 MS.gene46063:CDS
CGTCCCATTGGTTATAAGTG+CGG 0.667176 7.2:-42713560 MS.gene46063:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TAGATAGTTAAGAGTATTAT+AGG - chr7.2:42713702-42713721 MS.gene46063:CDS 20.0%
! ACAACGAAAAAAATGTGAAA+CGG - chr7.2:42713750-42713769 MS.gene46063:CDS 25.0%
! TATCTGCAATAGATAGTTAA+AGG + chr7.2:42713659-42713678 None:intergenic 25.0%
!! CTATTTGTCAATTTTCTTGA+TGG - chr7.2:42713814-42713833 MS.gene46063:CDS 25.0%
AGCTTAAAAGCTTCATTATC+TGG + chr7.2:42713264-42713283 None:intergenic 30.0%
GACAACTTAAAAGAAACTGA+GGG + chr7.2:42713516-42713535 None:intergenic 30.0%
AAAACTGCACAAAGACAACT+TGG + chr7.2:42713372-42713391 None:intergenic 35.0%
CAAGAACTACAAAACCAACT+AGG + chr7.2:42713188-42713207 None:intergenic 35.0%
CGACAACTTAAAAGAAACTG+AGG + chr7.2:42713517-42713536 None:intergenic 35.0%
GGATAGTAACAGCAATTTGA+GGG + chr7.2:42713428-42713447 None:intergenic 35.0%
TCAAACGTTGCTAAAATGTC+AGG - chr7.2:42713396-42713415 MS.gene46063:intron 35.0%
! GTTTTGTAGTTCTTGTTGCA+GGG - chr7.2:42713193-42713212 MS.gene46063:intron 35.0%
AACTTTGCTAATCGTCCCAT+TGG - chr7.2:42713459-42713478 MS.gene46063:intron 40.0%
GGGATAGTAACAGCAATTTG+AGG + chr7.2:42713429-42713448 None:intergenic 40.0%
TAGCAAAGTTGCAGCGTTTA+GGG + chr7.2:42713449-42713468 None:intergenic 40.0%
TGTGCTCAGACTAAGAAACT+TGG - chr7.2:42713339-42713358 MS.gene46063:intron 40.0%
TTAGCAAAGTTGCAGCGTTT+AGG + chr7.2:42713450-42713469 None:intergenic 40.0%
! ATTCATAGTGTGGAAAGTGC+TGG - chr7.2:42713216-42713235 MS.gene46063:intron 40.0%
!! GGTTTTGTAGTTCTTGTTGC+AGG - chr7.2:42713192-42713211 MS.gene46063:intron 40.0%
ACGTCCGCACTTATAACCAA+TGG + chr7.2:42713478-42713497 None:intergenic 45.0%
ATGAAGATGCTGTGCCTAGT+TGG - chr7.2:42713171-42713190 MS.gene46063:intron 45.0%
CGTCCGCACTTATAACCAAT+GGG + chr7.2:42713477-42713496 None:intergenic 45.0%
TGTTGCAGGGATTCATAGTG+TGG - chr7.2:42713206-42713225 MS.gene46063:intron 45.0%
! CGTCCCATTGGTTATAAGTG+CGG - chr7.2:42713471-42713490 MS.gene46063:intron 45.0%
!! AAAGTGCTGGTGAATGTGGA+AGG - chr7.2:42713229-42713248 MS.gene46063:intron 45.0%
!! AAGTGCTGGTGAATGTGGAA+GGG - chr7.2:42713230-42713249 MS.gene46063:intron 45.0%
TCTTGTGCTGCACTTGCACA+AGG + chr7.2:42713291-42713310 None:intergenic 50.0%
!! AGTGCTGGTGAATGTGGAAG+GGG - chr7.2:42713231-42713250 MS.gene46063:intron 50.0%
!! GTGGAAAGTGCTGGTGAATG+TGG - chr7.2:42713225-42713244 MS.gene46063:intron 50.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 42713159 42713894 42713159 ID=MS.gene46063
chr7.2 mRNA 42713159 42713894 42713159 ID=MS.gene46063.t1;Parent=MS.gene46063
chr7.2 exon 42713558 42713894 42713558 ID=MS.gene46063.t1.exon1;Parent=MS.gene46063.t1
chr7.2 CDS 42713558 42713894 42713558 ID=cds.MS.gene46063.t1;Parent=MS.gene46063.t1
chr7.2 exon 42713159 42713175 42713159 ID=MS.gene46063.t1.exon2;Parent=MS.gene46063.t1
chr7.2 CDS 42713159 42713175 42713159 ID=cds.MS.gene46063.t1;Parent=MS.gene46063.t1
Gene Sequence

>MS.gene46063

ATGGAGGGTCTTATGAAGATGCTGTGCCTAGTTGGTTTTGTAGTTCTTGTTGCAGGGATTCATAGTGTGGAAAGTGCTGGTGAATGTGGAAGGGGTACTACACCAGATAATGAAGCTTTTAAGCTAGCTCCTTGTGCAAGTGCAGCACAAGATGAAAATGCTAGTGTCTCACAAACTTGTTGTGCTCAGACTAAGAAACTTGGTCAGAATCCAAGTTGTCTTTGTGCAGTTTTGCTCTCAAACGTTGCTAAAATGTCAGGTGTTAACCCTCAAATTGCTGTTACTATCCCTAAACGCTGCAACTTTGCTAATCGTCCCATTGGTTATAAGTGCGGACGTAAGTAACTAACAAGTCCCTCAGTTTCTTTTAAGTTGTCGTTTTCGTATAAAAGTTATTTCTTTAATATTTATTTCTTGTTTTCAAAGTTTAATTTAACATTAATTATTGTTTAGTATACAAAAACAAAAAAAAATTAATTATTGTTTAGTCAATAATACCTTTAACTATCTATTGCAGATAGAGAAATAGATCAAATGAGATTATAGATAGTTAAGAGTATTATAGGAAAAAAATAAATAACTTTATAAAAAACAACGAAAAAAATGTGAAACGGTACGATACTAGTAATTATTATGTATATACTTTTTTATTTTTCTATTTGTCAATTTTCTTGATGGATCAATATACTAACTACTCTTATAAAATTCTGATTGTGCAGCTTACACTCTTCCTTGA
Protein sequence

>MS.gene46063.t1

MEGLMKMLCLVGFVVLVAGIHSVESAGECGRGTTPDNEAFKLAPCASAAQDENASVSQTCCAQTKKLGQNPSCLCAVLLSNVAKMSGVNPQIAVTIPKRCNFANRPIGYKCGPYTLP