AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene97008


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97008.t1 MTR_7g096840 97.765 179 4 0 1 179 1 179 6.43e-125 349
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene97008.t1 AT2G44820 58.268 127 50 2 24 149 20 144 2.60e-36 125
MS.gene97008.t1 AT2G44820 58.268 127 50 2 24 149 39 163 3.11e-36 125

Find 33 sgRNAs with CRISPR-Local

Find 79 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CGTATGATTCTAGGACGTTT+TGG 0.217863 7.4:+12748910 MS.gene97008:CDS
ATTGGTCGTGCCACACTTAA+AGG 0.224539 7.4:-12748754 None:intergenic
TGCTTATTGTTATGTTCTCT+TGG 0.258679 7.4:-12748161 None:intergenic
TAGAGAAAATACTGAAGTTT+TGG 0.269693 7.4:-12748223 None:intergenic
CAACTGGAAACATGATAAAA+AGG 0.272902 7.4:+12749122 MS.gene97008:CDS
GCCTTTCAGCGTATGATTCT+AGG 0.290954 7.4:+12748901 MS.gene97008:intron
AATGGACATCAGGAAGATTA+TGG 0.351249 7.4:+12748193 MS.gene97008:CDS
CCAGTGTCATGACCTCTTGT+GGG 0.400870 7.4:-12749063 None:intergenic
AGGAAAATGAAATGGACATC+AGG 0.425149 7.4:+12748183 MS.gene97008:CDS
TTATTGTTATGTTCTCTTGG+AGG 0.434023 7.4:-12748158 None:intergenic
AACTTCAAACCTCTGTCCTC+TGG 0.439918 7.4:-12748982 None:intergenic
GACATGGAAAGAGCGCAAAA+AGG 0.445441 7.4:+12748564 MS.gene97008:CDS
CAATAAGCAGGAAAATGAAA+TGG 0.447339 7.4:+12748175 MS.gene97008:CDS
GGTTGTTTCCCTTGGTGGGA+AGG 0.454986 7.4:+12748600 MS.gene97008:CDS
GATAGGAAGGTTGTTTCCCT+TGG 0.461391 7.4:+12748592 MS.gene97008:CDS
TCCAGTGTCATGACCTCTTG+TGG 0.466337 7.4:-12749064 None:intergenic
AGGTAATCTTTGATTCTTGA+GGG 0.502643 7.4:-12748734 None:intergenic
AAGAAACAAGCTCACGGACG+TGG 0.521086 7.4:+12748134 MS.gene97008:CDS
AAGGTAATCTTTGATTCTTG+AGG 0.525330 7.4:-12748735 None:intergenic
GGAAGGTTGTTTCCCTTGGT+GGG 0.530525 7.4:+12748596 MS.gene97008:CDS
AAGAGAACATAACAATAAGC+AGG 0.534086 7.4:+12748163 MS.gene97008:CDS
AGGAAGGTTGTTTCCCTTGG+TGG 0.540449 7.4:+12748595 MS.gene97008:CDS
TTGAAGTCAACACCCACAAG+AGG 0.593893 7.4:+12749051 MS.gene97008:CDS
TCAAAGATTACCTTTAAGTG+TGG 0.597312 7.4:+12748744 MS.gene97008:CDS
GGTAATCTTTGATTCTTGAG+GGG 0.603282 7.4:-12748733 None:intergenic
CCCACAAGAGGTCATGACAC+TGG 0.620094 7.4:+12749063 MS.gene97008:CDS
TAGGCAACTCGCATATGACA+TGG 0.625414 7.4:+12748548 MS.gene97008:intron
AGACCTCACCTTCCCACCAA+GGG 0.627792 7.4:-12748608 None:intergenic
AGAGGTTTGAAGTTAAGTGA+AGG 0.641153 7.4:+12748991 MS.gene97008:CDS
TACAAGAAGAAACAAGCTCA+CGG 0.651983 7.4:+12748128 MS.gene97008:CDS
TAGACCTCACCTTCCCACCA+AGG 0.660546 7.4:-12748609 None:intergenic
AGCTGGAAAACACAAACCAG+AGG 0.689560 7.4:+12748966 MS.gene97008:CDS
AAACACAAACCAGAGGACAG+AGG 0.717192 7.4:+12748973 MS.gene97008:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTCATTATTTTAAATTTG+GGG + chr7.4:12748440-12748459 MS.gene97008:intron 10.0%
!!! CATTTCATTATTTTAAATTT+GGG + chr7.4:12748439-12748458 MS.gene97008:intron 10.0%
!!! TCATTTCATTATTTTAAATT+TGG + chr7.4:12748438-12748457 MS.gene97008:intron 10.0%
!! AGTAGTCATTATAAAAAAGA+AGG - chr7.4:12748513-12748532 None:intergenic 20.0%
!! TAAAACATCCAATTCAAATT+TGG - chr7.4:12748396-12748415 None:intergenic 20.0%
!! TGTTGGAGTTAAATAATTTA+TGG + chr7.4:12748463-12748482 MS.gene97008:intron 20.0%
! AACTGGAAACATGATAAAAA+GGG + chr7.4:12749123-12749142 MS.gene97008:CDS 25.0%
! AGTTGTACAAACAAATAAAG+AGG - chr7.4:12748843-12748862 None:intergenic 25.0%
! CATCATTGATCATATATTTG+AGG - chr7.4:12748329-12748348 None:intergenic 25.0%
! GGAAAAAATATGTCAAATAC+AGG + chr7.4:12749084-12749103 MS.gene97008:CDS 25.0%
! TACTCATTGCAATATATCTT+AGG + chr7.4:12748529-12748548 MS.gene97008:intron 25.0%
! TATCATGTTCTATTTGCAAA+TGG + chr7.4:12748654-12748673 MS.gene97008:intron 25.0%
! TCAAATACAGGAAAAAGAAA+AGG + chr7.4:12749096-12749115 MS.gene97008:CDS 25.0%
! TGATAAGACCAAATTTGAAT+TGG + chr7.4:12748385-12748404 MS.gene97008:intron 25.0%
! TGATAGAATTAATTACCTCT+TGG - chr7.4:12748816-12748835 None:intergenic 25.0%
!! TAGAGAAAATACTGAAGTTT+TGG - chr7.4:12748226-12748245 None:intergenic 25.0%
!!! TGTTTTTGTTTCTTCATCAT+TGG - chr7.4:12748775-12748794 None:intergenic 25.0%
!!! TTATTTTAAATTTGGGGTGT+TGG + chr7.4:12748446-12748465 MS.gene97008:intron 25.0%
AAAAAAGAAGGTAACAAACC+AGG - chr7.4:12748501-12748520 None:intergenic 30.0%
AAGAGAACATAACAATAAGC+AGG + chr7.4:12748163-12748182 MS.gene97008:CDS 30.0%
AAGGTAATCTTTGATTCTTG+AGG - chr7.4:12748738-12748757 None:intergenic 30.0%
AATACAGGAAAAAGAAAAGG+AGG + chr7.4:12749099-12749118 MS.gene97008:CDS 30.0%
AATGGTATTATCACAATGCT+CGG + chr7.4:12748672-12748691 MS.gene97008:intron 30.0%
AGGTAATCTTTGATTCTTGA+GGG - chr7.4:12748737-12748756 None:intergenic 30.0%
CAACTGGAAACATGATAAAA+AGG + chr7.4:12749122-12749141 MS.gene97008:CDS 30.0%
CAATAAGCAGGAAAATGAAA+TGG + chr7.4:12748175-12748194 MS.gene97008:CDS 30.0%
GATGAAGAAACAAAAACAGA+GGG + chr7.4:12748777-12748796 MS.gene97008:CDS 30.0%
TCAAAGATTACCTTTAAGTG+TGG + chr7.4:12748744-12748763 MS.gene97008:CDS 30.0%
TGATGAAGAAACAAAAACAG+AGG + chr7.4:12748776-12748795 MS.gene97008:CDS 30.0%
TGCTTATTGTTATGTTCTCT+TGG - chr7.4:12748164-12748183 None:intergenic 30.0%
TGTACAAACAAATAAAGAGG+AGG - chr7.4:12748840-12748859 None:intergenic 30.0%
TTATTGTTATGTTCTCTTGG+AGG - chr7.4:12748161-12748180 None:intergenic 30.0%
! AGTGAAGGTCGATTTAAAAA+TGG + chr7.4:12749006-12749025 MS.gene97008:CDS 30.0%
AAACATGATAAAAAGGGTGG+TGG + chr7.4:12749129-12749148 MS.gene97008:CDS 35.0%
AATGGACATCAGGAAGATTA+TGG + chr7.4:12748193-12748212 MS.gene97008:CDS 35.0%
AGGAAAATGAAATGGACATC+AGG + chr7.4:12748183-12748202 MS.gene97008:CDS 35.0%
CAAAAAGGTTGAAGATAGGA+AGG + chr7.4:12748579-12748598 MS.gene97008:CDS 35.0%
GAATAAGAGCAGATGAAACA+CGG - chr7.4:12748711-12748730 None:intergenic 35.0%
GCACAAGTGGTACATATATA+AGG - chr7.4:12748883-12748902 None:intergenic 35.0%
GGTAATCTTTGATTCTTGAG+GGG - chr7.4:12748736-12748755 None:intergenic 35.0%
TACAAGAAGAAACAAGCTCA+CGG + chr7.4:12748128-12748147 MS.gene97008:CDS 35.0%
TGGAAACATGATAAAAAGGG+TGG + chr7.4:12749126-12749145 MS.gene97008:CDS 35.0%
TTATGGTAAGCATATTCACC+TGG + chr7.4:12748480-12748499 MS.gene97008:intron 35.0%
! AGAGGTTTGAAGTTAAGTGA+AGG + chr7.4:12748991-12749010 MS.gene97008:CDS 35.0%
!!! GTATGATTCTAGGACGTTTT+GGG + chr7.4:12748911-12748930 MS.gene97008:CDS 35.0%
!!! TATGATTCTAGGACGTTTTG+GGG + chr7.4:12748912-12748931 MS.gene97008:CDS 35.0%
AGCGCAAAAAGGTTGAAGAT+AGG + chr7.4:12748575-12748594 MS.gene97008:CDS 40.0%
GAAAAAGAAAAGGAGGCAAC+TGG + chr7.4:12749106-12749125 MS.gene97008:CDS 40.0%
GAAGAAACAAAAACAGAGGG+AGG + chr7.4:12748780-12748799 MS.gene97008:CDS 40.0%
TCCTAGAATCATACGCTGAA+AGG - chr7.4:12748905-12748924 None:intergenic 40.0%
! TAAAAAGGGTGGTGGTAAGA+AGG + chr7.4:12749137-12749156 MS.gene97008:CDS 40.0%
!!! ATGATTCTAGGACGTTTTGG+GGG + chr7.4:12748913-12748932 MS.gene97008:CDS 40.0%
!!! CGTATGATTCTAGGACGTTT+TGG + chr7.4:12748910-12748929 MS.gene97008:CDS 40.0%
AAACACAAACCAGAGGACAG+AGG + chr7.4:12748973-12748992 MS.gene97008:CDS 45.0%
AACTTCAAACCTCTGTCCTC+TGG - chr7.4:12748985-12749004 None:intergenic 45.0%
AGCAGCAGTAAAAAACCAGC+TGG + chr7.4:12748949-12748968 MS.gene97008:CDS 45.0%
AGCTGGAAAACACAAACCAG+AGG + chr7.4:12748966-12748985 MS.gene97008:CDS 45.0%
ATTGGTCGTGCCACACTTAA+AGG - chr7.4:12748757-12748776 None:intergenic 45.0%
GCCTTTCAGCGTATGATTCT+AGG + chr7.4:12748901-12748920 MS.gene97008:intron 45.0%
GGAGGAAAAAATGCTCCAAG+AGG + chr7.4:12748798-12748817 MS.gene97008:CDS 45.0%
TAGGCAACTCGCATATGACA+TGG + chr7.4:12748548-12748567 MS.gene97008:intron 45.0%
TTGAAGTCAACACCCACAAG+AGG + chr7.4:12749051-12749070 MS.gene97008:CDS 45.0%
! GACATGGAAAGAGCGCAAAA+AGG + chr7.4:12748564-12748583 MS.gene97008:CDS 45.0%
! GATAGGAAGGTTGTTTCCCT+TGG + chr7.4:12748592-12748611 MS.gene97008:CDS 45.0%
!! TCTGGTTTGTGTTTTCCAGC+TGG - chr7.4:12748967-12748986 None:intergenic 45.0%
AAGAAACAAGCTCACGGACG+TGG + chr7.4:12748134-12748153 MS.gene97008:CDS 50.0%
CCAGTGTCATGACCTCTTGT+GGG - chr7.4:12749066-12749085 None:intergenic 50.0%
TCCAGTGTCATGACCTCTTG+TGG - chr7.4:12749067-12749086 None:intergenic 50.0%
! AGGAAGGTTGTTTCCCTTGG+TGG + chr7.4:12748595-12748614 MS.gene97008:CDS 50.0%
! CATACGCTGAAAGGCACAAG+TGG - chr7.4:12748896-12748915 None:intergenic 50.0%
! GGAAGGTTGTTTCCCTTGGT+GGG + chr7.4:12748596-12748615 MS.gene97008:CDS 50.0%
!!! TCTAGGACGTTTTGGGGGAA+AGG + chr7.4:12748918-12748937 MS.gene97008:CDS 50.0%
AGACCTCACCTTCCCACCAA+GGG - chr7.4:12748611-12748630 None:intergenic 55.0%
CCCACAAGAGGTCATGACAC+TGG + chr7.4:12749063-12749082 MS.gene97008:CDS 55.0%
TAGACCTCACCTTCCCACCA+AGG - chr7.4:12748612-12748631 None:intergenic 55.0%
TTTCCCTTGGTGGGAAGGTG+AGG + chr7.4:12748605-12748624 MS.gene97008:intron 55.0%
! GGTTGTTTCCCTTGGTGGGA+AGG + chr7.4:12748600-12748619 MS.gene97008:CDS 55.0%
!!! CGTTTTGGGGGAAAGGATGG+TGG + chr7.4:12748925-12748944 MS.gene97008:CDS 55.0%
!!! GGACGTTTTGGGGGAAAGGA+TGG + chr7.4:12748922-12748941 MS.gene97008:CDS 55.0%


Chromosome Type Strat End Strand Name
chr7.4 gene 12748116 12749173 12748116 ID=MS.gene97008
chr7.4 mRNA 12748116 12749173 12748116 ID=MS.gene97008.t1;Parent=MS.gene97008
chr7.4 exon 12748116 12748233 12748116 ID=MS.gene97008.t1.exon1;Parent=MS.gene97008.t1
chr7.4 CDS 12748116 12748233 12748116 ID=cds.MS.gene97008.t1;Parent=MS.gene97008.t1
chr7.4 exon 12748551 12748621 12748551 ID=MS.gene97008.t1.exon2;Parent=MS.gene97008.t1
chr7.4 CDS 12748551 12748621 12748551 ID=cds.MS.gene97008.t1;Parent=MS.gene97008.t1
chr7.4 exon 12748733 12748819 12748733 ID=MS.gene97008.t1.exon3;Parent=MS.gene97008.t1
chr7.4 CDS 12748733 12748819 12748733 ID=cds.MS.gene97008.t1;Parent=MS.gene97008.t1
chr7.4 exon 12748910 12749173 12748910 ID=MS.gene97008.t1.exon4;Parent=MS.gene97008.t1
chr7.4 CDS 12748910 12749173 12748910 ID=cds.MS.gene97008.t1;Parent=MS.gene97008.t1
Gene Sequence

>MS.gene97008

ATGGGAAAGATGTACAAGAAGAAACAAGCTCACGGACGTGGACCTCCAAGAGAACATAACAATAAGCAGGAAAATGAAATGGACATCAGGAAGATTATGGAAGACGTCCAAAACTTCAGTATTTTCTCTACTTTTTTATTTTTTTTTTAAATTATTTCACATTGAATGTTGTTTATTTTCTCATTGAATCTGTTTTCTGTTTTTGATGCACCTCAAATATATGATCAATGATGTTTCTGCGTTATGATTTTGCTTATGATATGTTTAAATGATAAGACCAAATTTGAATTGGATGTTTTAATGCTAAGAACAAAATATCTGTTCATTTCATTATTTTAAATTTGGGGTGTTGGAGTTAAATAATTTATGGTAAGCATATTCACCTGGTTTGTTACCTTCTTTTTTATAATGACTACTCATTGCAATATATCTTAGGCAACTCGCATATGACATGGAAAGAGCGCAAAAAGGTTGAAGATAGGAAGGTTGTTTCCCTTGGTGGGAAGGTGAGGTCTATTTATTGATGCTCTATTTTTTATATCATGTTCTATTTGCAAATGGTATTATCACAATGCTCGGTGCACAAAATTCACCGTGTTTCATCTGCTCTTATTCAGCCCCTCAAGAATCAAAGATTACCTTTAAGTGTGGCACGACCAATGATGAAGAAACAAAAACAGAGGGAGGAAAAAATGCTCCAAGAGGTAATTAATTCTATCATCCTCCTCTTTATTTGTTTGTACAACTCTTACTTTCTTTTTATTCCTTATATATGTACCACTTGTGCCTTTCAGCGTATGATTCTAGGACGTTTTGGGGGAAAGGATGGTGGTAGCAGCAGTAAAAAACCAGCTGGAAAACACAAACCAGAGGACAGAGGTTTGAAGTTAAGTGAAGGTCGATTTAAAAATGGCATACTCGACGTGAAGCATTTGTTGAAGTCAACACCCACAAGAGGTCATGACACTGGAAAAAATATGTCAAATACAGGAAAAAGAAAAGGAGGCAACTGGAAACATGATAAAAAGGGTGGTGGTAAGAAGGATCAAATGTTTTAG

Protein sequence

>MS.gene97008.t1

MGKMYKKKQAHGRGPPREHNNKQENEMDIRKIMEDVQNFSNSHMTWKERKKVEDRKVVSLGGKPLKNQRLPLSVARPMMKKQKQREEKMLQERMILGRFGGKDGGSSSKKPAGKHKPEDRGLKLSEGRFKNGILDVKHLLKSTPTRGHDTGKNMSNTGKRKGGNWKHDKKGGGKKDQMF