AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene01699

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01699.t1 MTR_2g010815 96.988 166 5 0 1 166 1 166 2.20e-118 331
MS.gene01699.t1 MTR_2g010800 86.747 166 22 0 1 166 1 166 8.59e-105 297
MS.gene01699.t1 MTR_7g080040 65.060 166 58 0 1 166 1 166 1.59e-80 236
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene01699.t1 AT5G56260 75.301 166 41 0 1 166 1 166 1.54e-90 261
MS.gene01699.t1 AT5G56260 75.301 166 41 0 1 166 1 166 1.54e-90 261
MS.gene01699.t1 AT5G56260 75.301 166 41 0 1 166 1 166 1.54e-90 261
MS.gene01699.t1 AT5G56260 75.301 166 41 0 1 166 33 198 1.03e-89 260
MS.gene01699.t1 AT5G56260 75.301 166 41 0 1 166 33 198 1.03e-89 260
MS.gene01699.t1 AT3G02770 65.060 166 58 0 1 166 1 166 9.27e-78 229
MS.gene01699.t1 AT5G16450 65.060 166 58 0 1 166 1 166 1.42e-77 228
MS.gene01699.t1 AT5G16450 65.060 166 58 0 1 166 1 166 1.42e-77 228

Find 39 sgRNAs with CRISPR-Local

Find 49 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTCTTGTTGGAGGGAATT+TGG 0.199853 2.4:+72599799 MS.gene01699:CDS
TGGCCAGTCTCGGGCATTCT+CGG 0.281731 2.4:+72599664 MS.gene01699:CDS
GCACAAAACATGGGGTGGTC+TGG 0.304278 2.4:+72599830 MS.gene01699:CDS
GGCCAGTCTCGGGCATTCTC+GGG 0.351904 2.4:+72599665 MS.gene01699:CDS
AAAAGGAGAAGGAAGGGTTT+TGG 0.369523 2.4:+72599748 MS.gene01699:CDS
TGGTCTGGGATTGTTGTGAA+TGG 0.381293 2.4:+72599845 MS.gene01699:CDS
CACAAAACATGGGGTGGTCT+GGG 0.391877 2.4:+72599831 MS.gene01699:CDS
CCCGAGACTGGCCATACATC+TGG 0.415145 2.4:-72599655 None:intergenic
GCCCCGAGAATGCCCGAGAC+TGG 0.420007 2.4:-72599667 None:intergenic
TCAAGTTGGTGTTAGAGCTT+TGG 0.422544 2.4:+72599901 MS.gene01699:CDS
ACCTCTAGTACTATTTCAAA+TGG 0.429193 2.4:-72600062 None:intergenic
AACGCAACACATTTAACAAA+TGG 0.449158 2.4:+72599605 MS.gene01699:CDS
TCCAGATGTATGGCCAGTCT+CGG 0.458278 2.4:+72599654 MS.gene01699:CDS
GGTGCAGTTGGCACAAAACA+TGG 0.464361 2.4:+72599820 MS.gene01699:CDS
CATCCAGTGTTCCAGATGTA+TGG 0.472302 2.4:+72599644 MS.gene01699:CDS
TCAAATGGACAACTCAAACT+TGG 0.482072 2.4:-72600047 None:intergenic
TGGAGGGAATTTGGTGCAGT+TGG 0.484334 2.4:+72599808 MS.gene01699:CDS
AGAGAACTTCTTGAAACAAA+AGG 0.491488 2.4:+72599731 MS.gene01699:CDS
GAGATTAATTTGTGTCAAGT+TGG 0.491931 2.4:+72599887 MS.gene01699:CDS
CATGTTGCTGTTTATGTTGG+AGG 0.502059 2.4:+72599968 MS.gene01699:CDS
TTGAAACAAAAGGAGAAGGA+AGG 0.507552 2.4:+72599741 MS.gene01699:CDS
AAACATGTTGCTGTTTATGT+TGG 0.508506 2.4:+72599965 MS.gene01699:CDS
TGGCCATACATCTGGAACAC+TGG 0.512769 2.4:-72599647 None:intergenic
CCAGATGTATGGCCAGTCTC+GGG 0.532810 2.4:+72599655 MS.gene01699:CDS
GTGTCACATATCTCTGCTGT+TGG 0.545822 2.4:-72599581 None:intergenic
TGAAACAAAAGGAGAAGGAA+GGG 0.548341 2.4:+72599742 MS.gene01699:CDS
GCCAGTCTCGGGCATTCTCG+GGG 0.553955 2.4:+72599666 MS.gene01699:CDS
AGCATGAGGTGTGCTCTTGT+TGG 0.557997 2.4:+72599788 MS.gene01699:CDS
ATGAGGTGTGCTCTTGTTGG+AGG 0.569564 2.4:+72599791 MS.gene01699:CDS
CTTCTTGAAACAAAAGGAGA+AGG 0.585218 2.4:+72599737 MS.gene01699:CDS
TGGCTCTATGCAGATAATGA+TGG 0.590987 2.4:+72600013 MS.gene01699:CDS
ATTTAACAAATGGTGACTTG+AGG 0.616446 2.4:+72599615 MS.gene01699:CDS
AGTGTTTGAAGACAATGTGT+TGG 0.617013 2.4:+72599706 MS.gene01699:CDS
GTGCAGTTGGCACAAAACAT+GGG 0.623381 2.4:+72599821 MS.gene01699:CDS
GAATGGTTGTATTAGAGATG+TGG 0.623790 2.4:+72599862 MS.gene01699:CDS
TGAGGTGTGCTCTTGTTGGA+GGG 0.651891 2.4:+72599792 MS.gene01699:CDS
AGTTGGCACAAAACATGGGG+TGG 0.672135 2.4:+72599825 MS.gene01699:CDS
TGCAGTTGGCACAAAACATG+GGG 0.672279 2.4:+72599822 MS.gene01699:CDS
TTGATGGAGGAGGAAGCATG+AGG 0.673507 2.4:+72599774 MS.gene01699:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! CCACTTAAATCCAATAAAAA+CGG + chr2.4:72599932-72599951 MS.gene01699:CDS 25.0%
!! ATTGTCTTCAAACACTTTTA+CGG - chr2.4:72599702-72599721 None:intergenic 25.0%
AAATCCAATAAAAACGGTAC+TGG + chr2.4:72599938-72599957 MS.gene01699:CDS 30.0%
AACGCAACACATTTAACAAA+TGG + chr2.4:72599605-72599624 MS.gene01699:CDS 30.0%
AGAGAACTTCTTGAAACAAA+AGG + chr2.4:72599731-72599750 MS.gene01699:CDS 30.0%
ATTTAACAAATGGTGACTTG+AGG + chr2.4:72599615-72599634 MS.gene01699:CDS 30.0%
!! AAACATGTTGCTGTTTATGT+TGG + chr2.4:72599965-72599984 MS.gene01699:CDS 30.0%
!! CCGTTTTTATTGGATTTAAG+TGG - chr2.4:72599935-72599954 None:intergenic 30.0%
!! GAGATTAATTTGTGTCAAGT+TGG + chr2.4:72599887-72599906 MS.gene01699:CDS 30.0%
AGTGTTTGAAGACAATGTGT+TGG + chr2.4:72599706-72599725 MS.gene01699:CDS 35.0%
CTTCTTGAAACAAAAGGAGA+AGG + chr2.4:72599737-72599756 MS.gene01699:CDS 35.0%
GAATGGTTGTATTAGAGATG+TGG + chr2.4:72599862-72599881 MS.gene01699:CDS 35.0%
TCAAATGGACAACTCAAACT+TGG - chr2.4:72600050-72600069 None:intergenic 35.0%
TGAAACAAAAGGAGAAGGAA+GGG + chr2.4:72599742-72599761 MS.gene01699:CDS 35.0%
TTGAAACAAAAGGAGAAGGA+AGG + chr2.4:72599741-72599760 MS.gene01699:CDS 35.0%
! AACACTTTTACGGTAACAAC+AGG - chr2.4:72599692-72599711 None:intergenic 35.0%
!! CTTTTATTCGTGATGGAGAA+TGG + chr2.4:72599993-72600012 MS.gene01699:CDS 35.0%
!! TTCACCAGTACCGTTTTTAT+TGG - chr2.4:72599945-72599964 None:intergenic 35.0%
! AAAAGGAGAAGGAAGGGTTT+TGG + chr2.4:72599748-72599767 MS.gene01699:CDS 40.0%
! GGAGGAACTTTTATTCGTGA+TGG + chr2.4:72599986-72600005 MS.gene01699:CDS 40.0%
! TGGCTCTATGCAGATAATGA+TGG + chr2.4:72600013-72600032 MS.gene01699:CDS 40.0%
!! CATGTTGCTGTTTATGTTGG+AGG + chr2.4:72599968-72599987 MS.gene01699:CDS 40.0%
!! TCAAGTTGGTGTTAGAGCTT+TGG + chr2.4:72599901-72599920 MS.gene01699:CDS 40.0%
!!! AGGGTTTTGGTTATTGATGG+AGG + chr2.4:72599761-72599780 MS.gene01699:CDS 40.0%
!!! GGAAGGGTTTTGGTTATTGA+TGG + chr2.4:72599758-72599777 MS.gene01699:CDS 40.0%
!!! GTTTTGGTTATTGATGGAGG+AGG + chr2.4:72599764-72599783 MS.gene01699:CDS 40.0%
CATCCAGTGTTCCAGATGTA+TGG + chr2.4:72599644-72599663 MS.gene01699:CDS 45.0%
GTGCAGTTGGCACAAAACAT+GGG + chr2.4:72599821-72599840 MS.gene01699:CDS 45.0%
GTGTCACATATCTCTGCTGT+TGG - chr2.4:72599584-72599603 None:intergenic 45.0%
TGCAGTTGGCACAAAACATG+GGG + chr2.4:72599822-72599841 MS.gene01699:CDS 45.0%
TGCTCTTGTTGGAGGGAATT+TGG + chr2.4:72599799-72599818 MS.gene01699:CDS 45.0%
! TGGTCTGGGATTGTTGTGAA+TGG + chr2.4:72599845-72599864 MS.gene01699:CDS 45.0%
AGCATGAGGTGTGCTCTTGT+TGG + chr2.4:72599788-72599807 MS.gene01699:CDS 50.0%
AGTTGGCACAAAACATGGGG+TGG + chr2.4:72599825-72599844 MS.gene01699:CDS 50.0%
ATGAGGTGTGCTCTTGTTGG+AGG + chr2.4:72599791-72599810 MS.gene01699:CDS 50.0%
CACAAAACATGGGGTGGTCT+GGG + chr2.4:72599831-72599850 MS.gene01699:CDS 50.0%
GGTGCAGTTGGCACAAAACA+TGG + chr2.4:72599820-72599839 MS.gene01699:CDS 50.0%
TCCAGATGTATGGCCAGTCT+CGG + chr2.4:72599654-72599673 MS.gene01699:CDS 50.0%
TGAGGTGTGCTCTTGTTGGA+GGG + chr2.4:72599792-72599811 MS.gene01699:CDS 50.0%
! TGGCCATACATCTGGAACAC+TGG - chr2.4:72599650-72599669 None:intergenic 50.0%
! TTGATGGAGGAGGAAGCATG+AGG + chr2.4:72599774-72599793 MS.gene01699:CDS 50.0%
!! TGGAGGGAATTTGGTGCAGT+TGG + chr2.4:72599808-72599827 MS.gene01699:CDS 50.0%
CCAGATGTATGGCCAGTCTC+GGG + chr2.4:72599655-72599674 MS.gene01699:CDS 55.0%
GCACAAAACATGGGGTGGTC+TGG + chr2.4:72599830-72599849 MS.gene01699:CDS 55.0%
TGGCCAGTCTCGGGCATTCT+CGG + chr2.4:72599664-72599683 MS.gene01699:CDS 60.0%
! CCCGAGACTGGCCATACATC+TGG - chr2.4:72599658-72599677 None:intergenic 60.0%
GCCAGTCTCGGGCATTCTCG+GGG + chr2.4:72599666-72599685 MS.gene01699:CDS 65.0%
GGCCAGTCTCGGGCATTCTC+GGG + chr2.4:72599665-72599684 MS.gene01699:CDS 65.0%
GCCCCGAGAATGCCCGAGAC+TGG - chr2.4:72599670-72599689 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 72599569 72600069 72599569 ID=MS.gene01699
chr2.4 mRNA 72599569 72600069 72599569 ID=MS.gene01699.t1;Parent=MS.gene01699
chr2.4 exon 72599569 72600069 72599569 ID=MS.gene01699.t1.exon1;Parent=MS.gene01699.t1
chr2.4 CDS 72599569 72600069 72599569 ID=cds.MS.gene01699.t1;Parent=MS.gene01699.t1
Gene Sequence

>MS.gene01699

ATGGATTCTCTACCAACAGCAGAGATATGTGACACAAACGCAACACATTTAACAAATGGTGACTTGAGGATACTTCATCCAGTGTTCCAGATGTATGGCCAGTCTCGGGCATTCTCGGGGCCTGTTGTTACCGTAAAAGTGTTTGAAGACAATGTGTTGGTAAGAGAACTTCTTGAAACAAAAGGAGAAGGAAGGGTTTTGGTTATTGATGGAGGAGGAAGCATGAGGTGTGCTCTTGTTGGAGGGAATTTGGTGCAGTTGGCACAAAACATGGGGTGGTCTGGGATTGTTGTGAATGGTTGTATTAGAGATGTGGATGAGATTAATTTGTGTCAAGTTGGTGTTAGAGCTTTGGCTTCTCATCCACTTAAATCCAATAAAAACGGTACTGGTGAAAAACATGTTGCTGTTTATGTTGGAGGAACTTTTATTCGTGATGGAGAATGGCTCTATGCAGATAATGATGGTATCATTGTATCCAAGTTTGAGTTGTCCATTTGA
Protein sequence

>MS.gene01699.t1

MDSLPTAEICDTNATHLTNGDLRILHPVFQMYGQSRAFSGPVVTVKVFEDNVLVRELLETKGEGRVLVIDGGGSMRCALVGGNLVQLAQNMGWSGIVVNGCIRDVDEINLCQVGVRALASHPLKSNKNGTGEKHVAVYVGGTFIRDGEWLYADNDGIIVSKFELSI