AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0280007547.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007547.01.T01 MTR_2g027600 92.208 77 6 0 1 77 1 77 2.12e-45 140
MsG0280007547.01.T01 MTR_0635s0010 94.667 75 4 0 3 77 1 75 7.71e-45 138
MsG0280007547.01.T01 MTR_3g082250 47.945 73 38 0 2 74 3 75 3.45e-18 72.8
MsG0280007547.01.T01 MTR_6g082330 50.000 74 37 0 1 74 1 74 5.71e-17 72.0
MsG0280007547.01.T01 MTR_6g082280 49.296 71 36 0 1 71 1 71 4.02e-16 69.7
MsG0280007547.01.T01 MTR_6g082180 51.429 70 34 0 1 70 1 70 4.14e-16 68.9
MsG0280007547.01.T01 MTR_5g007070 41.176 85 38 1 3 75 7 91 1.26e-14 63.2
MsG0280007547.01.T01 MTR_6g082190 56.667 60 26 0 11 70 1 60 8.13e-14 63.5
MsG0280007547.01.T01 MTR_3g082210 45.161 62 34 0 11 72 1 62 2.68e-12 57.4
MsG0280007547.01.T01 MTR_3g082260 44.262 61 34 0 11 71 1 61 5.05e-12 56.6
MsG0280007547.01.T01 MTR_5g084660 43.421 76 42 1 3 77 2 77 8.18e-12 56.6
MsG0280007547.01.T01 MTR_1g041690 44.262 61 34 0 11 71 1 61 1.04e-11 55.8
MsG0280007547.01.T01 MTR_5g094730 38.462 65 40 0 1 65 1 65 1.51e-11 54.7
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0280007547.01.T01 AT4G05030 59.459 74 30 0 1 74 1 74 3.38e-24 86.7
MsG0280007547.01.T01 AT4G05030 61.972 71 27 0 4 74 37 107 1.65e-23 85.9
MsG0280007547.01.T01 AT3G20180 45.333 75 41 0 1 75 20 94 1.63e-16 68.9
MsG0280007547.01.T01 AT3G20180 42.667 75 43 0 1 75 1 75 8.81e-16 66.6
MsG0280007547.01.T01 AT3G20180 43.056 72 41 0 4 75 2 73 1.57e-14 63.5
MsG0280007547.01.T01 AT3G20180 43.478 69 39 0 7 75 3 71 3.31e-14 62.8
MsG0280007547.01.T01 AT3G07600 40.260 77 46 0 1 77 1 77 1.33e-12 59.3

Find 10 sgRNAs with CRISPR-Local

Find 18 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AAAGACAAGATAGTAGTTAT+TGG 0.241019 2:-16995961 MsG0280007547.01.T01:CDS
AGCTACAACCTTGAGTGCCT+TGG 0.451895 2:+16996267 None:intergenic
CAAACTGAAATTGTCAGCTT+AGG 0.480321 2:-16995886 MsG0280007547.01.T01:CDS
AAGGCACTCAAGGTTGTAGC+TGG 0.487303 2:-16996265 MsG0280007547.01.T01:CDS
AAGATAGTAGTTATTGGAGA+TGG 0.521542 2:-16995955 MsG0280007547.01.T01:CDS
GCAGCAAAAGATTGTGATGA+GGG 0.535212 2:-16996317 MsG0280007547.01.T01:CDS
GTGTCGCACCAAGGCACTCA+AGG 0.539664 2:-16996275 MsG0280007547.01.T01:CDS
AAGGTTGTAGCTGGAGCAAA+CGG 0.547469 2:-16996256 MsG0280007547.01.T01:intron
TGCAGCAAAAGATTGTGATG+AGG 0.660386 2:-16996318 MsG0280007547.01.T01:CDS
ATGTCAAAAGTGTCGCACCA+AGG 0.695558 2:-16996284 MsG0280007547.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATTGTTTGAGAAAAAAAGT+TGG - Chr2:16996276-16996295 MsG0280007547.01.T01:CDS 20.0%
!!! GTTACTAAAATTTTGTGATT+TGG - Chr2:16996161-16996180 MsG0280007547.01.T01:intron 20.0%
! AAAGACAAGATAGTAGTTAT+TGG - Chr2:16996225-16996244 MsG0280007547.01.T01:intron 25.0%
! TTAACGATTGAAATTAGTGA+CGG - Chr2:16996026-16996045 MsG0280007547.01.T01:intron 25.0%
AAGATAGTAGTTATTGGAGA+TGG - Chr2:16996231-16996250 MsG0280007547.01.T01:intron 30.0%
CAAACTGAAATTGTCAGCTT+AGG - Chr2:16996300-16996319 MsG0280007547.01.T01:CDS 35.0%
! AAATGCAGGTGTGAATTTTG+TGG - Chr2:16996185-16996204 MsG0280007547.01.T01:intron 35.0%
! AATGCAGGTGTGAATTTTGT+GGG - Chr2:16996186-16996205 MsG0280007547.01.T01:intron 35.0%
! GTGAATTTTGTGGGATTAGA+GGG - Chr2:16996195-16996214 MsG0280007547.01.T01:intron 35.0%
! TGTGAATTTTGTGGGATTAG+AGG - Chr2:16996194-16996213 MsG0280007547.01.T01:intron 35.0%
!! TTTTGTGATTTGGCAAATGC+AGG - Chr2:16996171-16996190 MsG0280007547.01.T01:intron 35.0%
GCAGCAAAAGATTGTGATGA+GGG - Chr2:16995869-16995888 MsG0280007547.01.T01:CDS 40.0%
TGCAGCAAAAGATTGTGATG+AGG - Chr2:16995868-16995887 MsG0280007547.01.T01:CDS 40.0%
AAGGTTGTAGCTGGAGCAAA+CGG - Chr2:16995930-16995949 MsG0280007547.01.T01:CDS 45.0%
!! ATGTCAAAAGTGTCGCACCA+AGG - Chr2:16995902-16995921 MsG0280007547.01.T01:CDS 45.0%
AGCTACAACCTTGAGTGCCT+TGG + Chr2:16995922-16995941 None:intergenic 50.0%
! AAGGCACTCAAGGTTGTAGC+TGG - Chr2:16995921-16995940 MsG0280007547.01.T01:CDS 50.0%
! GTGTCGCACCAAGGCACTCA+AGG - Chr2:16995911-16995930 MsG0280007547.01.T01:CDS 60.0%
Chromosome Type Strat End Strand Name
Chr2 gene 16995867 16996341 16995867 ID=MsG0280007547.01;Name=MsG0280007547.01
Chr2 mRNA 16995867 16996341 16995867 ID=MsG0280007547.01.T01;Parent=MsG0280007547.01;Name=MsG0280007547.01.T01;_AED=0.46;_eAED=0.47;_QI=0|0|0|1|1|1|2|0|77
Chr2 exon 16996257 16996341 16996257 ID=MsG0280007547.01.T01:exon:3684;Parent=MsG0280007547.01.T01
Chr2 exon 16995867 16996015 16995867 ID=MsG0280007547.01.T01:exon:3683;Parent=MsG0280007547.01.T01
Chr2 CDS 16996257 16996341 16996257 ID=MsG0280007547.01.T01:cds;Parent=MsG0280007547.01.T01
Chr2 CDS 16995867 16996015 16995867 ID=MsG0280007547.01.T01:cds;Parent=MsG0280007547.01.T01
Gene Sequence

>MsG0280007547.01.T01

TTGCAGCAAAAGATTGTGATGAGGGTTAGCATGAGATGTCAAAAGTGTCGCACCAAGGCACTCAAGGTTGTAGCTGGAGCAAACGGTGTGAATTTTGTGGGATTAGAGGGAGATGAGAAAGACAAGATAGTAGTTATTGGAGATGGTGTAGATGCTGTCAAGTTGACAAATTGTTTGAGAAAAAAAGTTGGACAAACTGAAATTGTCAGCTTAGGAGAAGTTAAAGCCAGTTGA

Protein sequence

>MsG0280007547.01.T01

LQQKIVMRVSMRCQKCRTKALKVVAGANGVNFVGLEGDEKDKIVVIGDGVDAVKLTNCLRKKVGQTEIVSLGEVKAS*