AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene04128

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04128.t1 MTR_3g061130 100.000 216 0 0 1 216 1 216 6.39e-162 446
MS.gene04128.t1 MTR_5g088410 60.465 215 52 5 3 216 6 188 7.95e-74 221
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene04128.t1 AT3G13230 75.472 212 52 0 3 214 4 215 4.10e-123 347
MS.gene04128.t1 AT3G13230 75.472 212 52 0 3 214 4 215 4.10e-123 347

Find 47 sgRNAs with CRISPR-Local

Find 52 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTCTCTTTGTTACCTAATTA+TGG 0.104484 3.2:+52185239 MS.gene04128:CDS
AGATCCCAGAATGTGAATTT+TGG 0.238915 3.2:-52185190 None:intergenic
TGATACCAAAATTCACATTC+TGG 0.283493 3.2:+52185185 MS.gene04128:CDS
CTGCAGGTGATCCCATAATT+AGG 0.290266 3.2:-52185251 None:intergenic
AGTTGAGAGCCGTTACTTCT+AGG 0.295245 3.2:+52185289 MS.gene04128:CDS
TGCTATTGCTATTCTGCGTT+TGG 0.312006 3.2:+52185014 MS.gene04128:CDS
TCTCTTTGTTACCTAATTAT+GGG 0.325990 3.2:+52185240 MS.gene04128:CDS
TTTGTTCATGCTTTCATGTT+GGG 0.347801 3.2:+52184976 MS.gene04128:CDS
GGCTCAAACTTTGGCTTTGG+AGG 0.352039 3.2:-52184733 None:intergenic
AGAGGCTCAAACTTTGGCTT+TGG 0.356673 3.2:-52184736 None:intergenic
ATACACCTCTCAAGAAAGTT+TGG 0.369468 3.2:+52184824 MS.gene04128:CDS
GATCACTTGTCCCGTGCTAT+TGG 0.373903 3.2:+52185090 MS.gene04128:CDS
CGTGCTATTGGAAGATTATC+TGG 0.376662 3.2:+52185102 MS.gene04128:CDS
TGCATTCTCAATTGTAAACT+TGG 0.386651 3.2:-52185139 None:intergenic
GGTTTCAGAGGCTCAAACTT+TGG 0.395402 3.2:-52184742 None:intergenic
TTCGACCCTTCAAATTCATT+CGG 0.417898 3.2:-52184891 None:intergenic
TGTTGAGTCCTTTGAGATCA+AGG 0.427401 3.2:+52185047 MS.gene04128:CDS
CACAATGGCATCATCTTCAA+TGG 0.462021 3.2:+52184675 None:intergenic
ATTGGAAGATTATCTGGAAA+AGG 0.469137 3.2:+52185108 MS.gene04128:CDS
TTGCAAACATCAAGATTGCT+AGG 0.471818 3.2:+52185214 MS.gene04128:CDS
AGAAGTAACGGCTCTCAACT+TGG 0.482912 3.2:-52185286 None:intergenic
TGACATCCGAATGAATTTGA+AGG 0.495230 3.2:+52184885 MS.gene04128:CDS
CGAAACTGAACCGCAGCACC+AGG 0.498813 3.2:-52184775 None:intergenic
TTGGAATATACCTTTCCTGC+AGG 0.500426 3.2:-52185267 None:intergenic
AAGGATGTTAAGACTCTTCG+AGG 0.505057 3.2:+52185066 MS.gene04128:CDS
GATACCAAAATTCACATTCT+GGG 0.511425 3.2:+52185186 MS.gene04128:CDS
CTAATTATGGGATCACCTGC+AGG 0.512370 3.2:+52185252 MS.gene04128:CDS
CTGAAACCTCATGAGATGCC+TGG 0.516679 3.2:+52184757 MS.gene04128:CDS
TGCAAACATCAAGATTGCTA+GGG 0.524357 3.2:+52185215 MS.gene04128:CDS
TATGGGATCACCTGCAGGAA+AGG 0.544799 3.2:+52185257 MS.gene04128:CDS
CAGATAATCTTCCAATAGCA+CGG 0.551311 3.2:-52185101 None:intergenic
GACATCCGAATGAATTTGAA+GGG 0.559638 3.2:+52184886 MS.gene04128:CDS
ACCTCTCAAGAAAGTTTGGA+TGG 0.563023 3.2:+52184828 MS.gene04128:CDS
TCATGAGATGCCTGGTGCTG+CGG 0.567566 3.2:+52184765 MS.gene04128:CDS
TCCATCCAAACTTTCTTGAG+AGG 0.572045 3.2:-52184829 None:intergenic
GGAAGATTATCTGGAAAAGG+TGG 0.573573 3.2:+52185111 MS.gene04128:CDS
TTCTGCCATCCTAGAAGTAA+CGG 0.576020 3.2:-52185298 None:intergenic
GAGAGCCGTTACTTCTAGGA+TGG 0.578516 3.2:+52185293 MS.gene04128:CDS
TTACTTCTAGGATGGCAGAA+AGG 0.584575 3.2:+52185301 MS.gene04128:CDS
AGATAATCTTCCAATAGCAC+GGG 0.591480 3.2:-52185100 None:intergenic
TGCTGCGGTTCAGTTTCGCA+AGG 0.601400 3.2:+52184780 MS.gene04128:CDS
GGCATCTCATGAGGTTTCAG+AGG 0.608176 3.2:-52184754 None:intergenic
CTTAACATCCTTGATCTCAA+AGG 0.609805 3.2:-52185055 None:intergenic
GCAGCACCAGGCATCTCATG+AGG 0.646562 3.2:-52184763 None:intergenic
TTGAGAGGTGTATAACGATG+TGG 0.685518 3.2:-52184814 None:intergenic
GAAAAGTTGAGTTGAAGACA+AGG 0.702510 3.2:+52184911 MS.gene04128:CDS
AGAGGTGTATAACGATGTGG+TGG 0.702702 3.2:-52184811 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! TCTCTTTGTTACCTAATTAT+GGG + chr3.2:52185240-52185259 MS.gene04128:CDS 25.0%
! TTCTCTTTGTTACCTAATTA+TGG + chr3.2:52185239-52185258 MS.gene04128:CDS 25.0%
!! AATTTTCATCTGCTCAAATA+CGG - chr3.2:52184866-52184885 None:intergenic 25.0%
ATTGGAAGATTATCTGGAAA+AGG + chr3.2:52185108-52185127 MS.gene04128:CDS 30.0%
GATACCAAAATTCACATTCT+GGG + chr3.2:52185186-52185205 MS.gene04128:CDS 30.0%
TGATACCAAAATTCACATTC+TGG + chr3.2:52185185-52185204 MS.gene04128:CDS 30.0%
TGCATTCTCAATTGTAAACT+TGG - chr3.2:52185142-52185161 None:intergenic 30.0%
TTTGTTCATGCTTTCATGTT+GGG + chr3.2:52184976-52184995 MS.gene04128:CDS 30.0%
! ATTTTCATCTGCTCAAATAC+GGG - chr3.2:52184865-52184884 None:intergenic 30.0%
! GCAAAACTTTTTGTTCAGAT+AGG - chr3.2:52184714-52184733 None:intergenic 30.0%
! TTTTGTTCATGCTTTCATGT+TGG + chr3.2:52184975-52184994 MS.gene04128:CDS 30.0%
AGATAATCTTCCAATAGCAC+GGG - chr3.2:52185103-52185122 None:intergenic 35.0%
ATACACCTCTCAAGAAAGTT+TGG + chr3.2:52184824-52184843 MS.gene04128:CDS 35.0%
CAGATAATCTTCCAATAGCA+CGG - chr3.2:52185104-52185123 None:intergenic 35.0%
CTTAACATCCTTGATCTCAA+AGG - chr3.2:52185058-52185077 None:intergenic 35.0%
GACATCCGAATGAATTTGAA+GGG + chr3.2:52184886-52184905 MS.gene04128:CDS 35.0%
TGACATCCGAATGAATTTGA+AGG + chr3.2:52184885-52184904 MS.gene04128:CDS 35.0%
TGCAAACATCAAGATTGCTA+GGG + chr3.2:52185215-52185234 MS.gene04128:CDS 35.0%
TTCGACCCTTCAAATTCATT+CGG - chr3.2:52184894-52184913 None:intergenic 35.0%
TTGCAAACATCAAGATTGCT+AGG + chr3.2:52185214-52185233 MS.gene04128:CDS 35.0%
! AGATCCCAGAATGTGAATTT+TGG - chr3.2:52185193-52185212 None:intergenic 35.0%
! CAAAATCAGCACATTTTTGC+AGG - chr3.2:52184960-52184979 None:intergenic 35.0%
!! GAAAAGTTGAGTTGAAGACA+AGG + chr3.2:52184911-52184930 MS.gene04128:CDS 35.0%
AAGGATGTTAAGACTCTTCG+AGG + chr3.2:52185066-52185085 MS.gene04128:CDS 40.0%
ACCTCTCAAGAAAGTTTGGA+TGG + chr3.2:52184828-52184847 MS.gene04128:CDS 40.0%
GGAAGATTATCTGGAAAAGG+TGG + chr3.2:52185111-52185130 MS.gene04128:CDS 40.0%
TCCATCCAAACTTTCTTGAG+AGG - chr3.2:52184832-52184851 None:intergenic 40.0%
TTCTGCCATCCTAGAAGTAA+CGG - chr3.2:52185301-52185320 None:intergenic 40.0%
TTGGAATATACCTTTCCTGC+AGG - chr3.2:52185270-52185289 None:intergenic 40.0%
! CGTGCTATTGGAAGATTATC+TGG + chr3.2:52185102-52185121 MS.gene04128:CDS 40.0%
! TGCTATTGCTATTCTGCGTT+TGG + chr3.2:52185014-52185033 MS.gene04128:CDS 40.0%
! TTGAGAGGTGTATAACGATG+TGG - chr3.2:52184817-52184836 None:intergenic 40.0%
! TTTTGCAGGTTACTGATGTC+AGG - chr3.2:52184946-52184965 None:intergenic 40.0%
!! TGTTGAGTCCTTTGAGATCA+AGG + chr3.2:52185047-52185066 MS.gene04128:CDS 40.0%
!! TTACTTCTAGGATGGCAGAA+AGG + chr3.2:52185301-52185320 MS.gene04128:CDS 40.0%
AGAAGTAACGGCTCTCAACT+TGG - chr3.2:52185289-52185308 None:intergenic 45.0%
AGTTGAGAGCCGTTACTTCT+AGG + chr3.2:52185289-52185308 MS.gene04128:CDS 45.0%
CTAATTATGGGATCACCTGC+AGG + chr3.2:52185252-52185271 MS.gene04128:CDS 45.0%
CTGCAGGTGATCCCATAATT+AGG - chr3.2:52185254-52185273 None:intergenic 45.0%
GGTTTCAGAGGCTCAAACTT+TGG - chr3.2:52184745-52184764 None:intergenic 45.0%
! AGAGGCTCAAACTTTGGCTT+TGG - chr3.2:52184739-52184758 None:intergenic 45.0%
! AGAGGTGTATAACGATGTGG+TGG - chr3.2:52184814-52184833 None:intergenic 45.0%
CTGAAACCTCATGAGATGCC+TGG + chr3.2:52184757-52184776 MS.gene04128:CDS 50.0%
GATCACTTGTCCCGTGCTAT+TGG + chr3.2:52185090-52185109 MS.gene04128:CDS 50.0%
GGCATCTCATGAGGTTTCAG+AGG - chr3.2:52184757-52184776 None:intergenic 50.0%
TATGGGATCACCTGCAGGAA+AGG + chr3.2:52185257-52185276 MS.gene04128:CDS 50.0%
! GAGAGCCGTTACTTCTAGGA+TGG + chr3.2:52185293-52185312 MS.gene04128:CDS 50.0%
!! GGCTCAAACTTTGGCTTTGG+AGG - chr3.2:52184736-52184755 None:intergenic 50.0%
TGCTGCGGTTCAGTTTCGCA+AGG + chr3.2:52184780-52184799 MS.gene04128:CDS 55.0%
! TCATGAGATGCCTGGTGCTG+CGG + chr3.2:52184765-52184784 MS.gene04128:CDS 55.0%
CGAAACTGAACCGCAGCACC+AGG - chr3.2:52184778-52184797 None:intergenic 60.0%
GCAGCACCAGGCATCTCATG+AGG - chr3.2:52184766-52184785 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.2 gene 52184679 52185329 52184679 ID=MS.gene04128
chr3.2 mRNA 52184679 52185329 52184679 ID=MS.gene04128.t1;Parent=MS.gene04128
chr3.2 exon 52184679 52185329 52184679 ID=MS.gene04128.t1.exon1;Parent=MS.gene04128.t1
chr3.2 CDS 52184679 52185329 52184679 ID=cds.MS.gene04128.t1;Parent=MS.gene04128.t1
Gene Sequence

>MS.gene04128

ATGGCATCATCTTCAATGGAAGTTGACAATGTCCTATCTGAACAAAAAGTTTTGCCTCCAAAGCCAAAGTTTGAGCCTCTGAAACCTCATGAGATGCCTGGTGCTGCGGTTCAGTTTCGCAAGGTATCAGTTCCACCACATCGTTATACACCTCTCAAGAAAGTTTGGATGGACATCTACACTCCCGTATTTGAGCAGATGAAAATTGACATCCGAATGAATTTGAAGGGTCGAAAAGTTGAGTTGAAGACAAGGCATGATACACCTGACATCAGTAACCTGCAAAAATGTGCTGATTTTGTTCATGCTTTCATGTTGGGTTTTGATGTCATAGATGCTATTGCTATTCTGCGTTTGGATGAGCTCTATGTTGAGTCCTTTGAGATCAAGGATGTTAAGACTCTTCGAGGTGATCACTTGTCCCGTGCTATTGGAAGATTATCTGGAAAAGGTGGTAAAACCAAGTTTACAATTGAGAATGCATCAAAGACAAGAATCGTGATTGCTGATACCAAAATTCACATTCTGGGATCTTTTGCAAACATCAAGATTGCTAGGGATTCTCTTTGTTACCTAATTATGGGATCACCTGCAGGAAAGGTATATTCCAAGTTGAGAGCCGTTACTTCTAGGATGGCAGAAAGGTTTTGA
Protein sequence

>MS.gene04128.t1

MASSSMEVDNVLSEQKVLPPKPKFEPLKPHEMPGAAVQFRKVSVPPHRYTPLKKVWMDIYTPVFEQMKIDIRMNLKGRKVELKTRHDTPDISNLQKCADFVHAFMLGFDVIDAIAILRLDELYVESFEIKDVKTLRGDHLSRAIGRLSGKGGKTKFTIENASKTRIVIADTKIHILGSFANIKIARDSLCYLIMGSPAGKVYSKLRAVTSRMAERF