AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene007434

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007434.t1 MTR_7g101170 95.455 110 5 0 1 110 1 110 5.14e-72 209
MS.gene007434.t1 MTR_1g064540 81.308 107 20 0 3 109 5 111 4.43e-55 167
MS.gene007434.t1 MTR_7g007770 55.046 109 49 0 1 109 42 150 1.73e-36 121
MS.gene007434.t1 MTR_1g064540 77.500 80 18 0 30 109 10 89 3.65e-36 118
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene007434.t1 AT4G23710 69.903 103 31 0 8 110 4 106 2.20e-44 140
MS.gene007434.t1 AT3G01390 73.636 110 29 0 1 110 1 110 5.05e-42 134
MS.gene007434.t1 AT3G01390 73.636 110 29 0 1 110 1 110 5.05e-42 134
MS.gene007434.t1 AT3G01390 73.636 110 29 0 1 110 1 110 5.05e-42 134
MS.gene007434.t1 AT3G01390 73.636 110 29 0 1 110 1 110 5.05e-42 134
MS.gene007434.t1 AT4G25950 54.206 107 47 1 1 107 1 105 1.07e-33 113
MS.gene007434.t1 AT4G25950 58.462 65 27 0 1 65 1 65 3.55e-19 75.5

Find 18 sgRNAs with CRISPR-Local

Find 47 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACCGAGGCTAGTAGAATTTC+GGG 0.229288 7.3:+11919455 MS.gene007434:CDS
GACCGAGGCTAGTAGAATTT+CGG 0.295846 7.3:+11919454 MS.gene007434:CDS
CACTAAACATCGAGCTCATT+TGG 0.305668 7.3:+11919233 MS.gene007434:CDS
AGGTGGAATTCAACAATTAT+TGG 0.361539 7.3:+11918749 MS.gene007434:CDS
AATTCCACCTTGACTGTTGT+TGG 0.367869 7.3:-11918736 None:intergenic
ATACAGAGCAGTGGAGATTC+TGG 0.378837 7.3:+11919377 MS.gene007434:intron
AGCCAAAGAAGAGGCTGAAA+AGG 0.415151 7.3:+11919206 MS.gene007434:CDS
CCAAGAAGTCTAGTTCTTCA+CGG 0.458780 7.3:-11919513 None:intergenic
CCCCGAAATTCTACTAGCCT+CGG 0.490166 7.3:-11919456 None:intergenic
TAGCCTCGGTCTTCAGCTGA+TGG 0.496170 7.3:-11919442 None:intergenic
ATGGCATCCAACAACAGTCA+AGG 0.643899 7.3:+11918729 MS.gene007434:CDS
GATCCATCAGCTGAAGACCG+AGG 0.646369 7.3:+11919439 MS.gene007434:CDS
CTTCAATGAATACAGAGCAG+TGG 0.651983 7.3:+11919368 MS.gene007434:intron
GTTGAAACAAGCCAAAGAAG+AGG 0.654824 7.3:+11919197 MS.gene007434:CDS
GCATCCAACAACAGTCAAGG+TGG 0.657348 7.3:+11918732 MS.gene007434:CDS
CGAGGCTAGTAGAATTTCGG+GGG 0.666069 7.3:+11919457 MS.gene007434:CDS
CCGAGGCTAGTAGAATTTCG+GGG 0.697212 7.3:+11919456 MS.gene007434:CDS
CTGCTGAACAAGAAGCACAG+CGG 0.743446 7.3:+11918772 MS.gene007434:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AAAACAGTATAATTAAAAAG+TGG - chr7.3:11919074-11919093 None:intergenic 15.0%
!! AAACAGTATAATTAAAAAGT+GGG - chr7.3:11919073-11919092 None:intergenic 15.0%
!! GAGAAATAAAAAATGAAGAT+TGG - chr7.3:11918829-11918848 None:intergenic 20.0%
! AACAATCTGCTAACATAAAA+TGG - chr7.3:11918890-11918909 None:intergenic 25.0%
! AAGCTTATAATGAGATAGAA+CGG - chr7.3:11919339-11919358 None:intergenic 25.0%
! AGTATAATTAAAAAGTGGGA+GGG - chr7.3:11919069-11919088 None:intergenic 25.0%
! ATTCAGCATAATTACATAAC+TGG - chr7.3:11919119-11919138 None:intergenic 25.0%
! GTTAAAAGATAAACACAAGA+AGG - chr7.3:11918927-11918946 None:intergenic 25.0%
! TACTGTTAGAAAAATATGCT+AGG + chr7.3:11919175-11919194 MS.gene007434:intron 25.0%
! TTTGTTCTATGATATATACG+AGG - chr7.3:11919010-11919029 None:intergenic 25.0%
!! TTTAACTTTCACATGAAACT+GGG + chr7.3:11918941-11918960 MS.gene007434:intron 25.0%
!!! TTTTAACTTTCACATGAAAC+TGG + chr7.3:11918940-11918959 MS.gene007434:intron 25.0%
!!! TTTTCAAAACAAAGTATCAG+CGG + chr7.3:11919263-11919282 MS.gene007434:CDS 25.0%
AGCATAATTACATAACTGGT+TGG - chr7.3:11919115-11919134 None:intergenic 30.0%
AGGTGGAATTCAACAATTAT+TGG + chr7.3:11918749-11918768 MS.gene007434:CDS 30.0%
ATTGTGAATGCTGCAAAAAA+TGG + chr7.3:11918795-11918814 MS.gene007434:CDS 30.0%
CAGTATAATTAAAAAGTGGG+AGG - chr7.3:11919070-11919089 None:intergenic 30.0%
! TTATCGACTGCAGTAATAAA+TGG + chr7.3:11919294-11919313 MS.gene007434:intron 30.0%
AATTAAAAAGTGGGAGGGAT+GGG - chr7.3:11919064-11919083 None:intergenic 35.0%
TAATTAAAAAGTGGGAGGGA+TGG - chr7.3:11919065-11919084 None:intergenic 35.0%
!! ATTGGTCTTATGATGGGAAT+GGG + chr7.3:11918966-11918985 MS.gene007434:intron 35.0%
!! TATTGGTCTTATGATGGGAA+TGG + chr7.3:11918965-11918984 MS.gene007434:intron 35.0%
AATTCCACCTTGACTGTTGT+TGG - chr7.3:11918739-11918758 None:intergenic 40.0%
ATTAAAAAGTGGGAGGGATG+GGG - chr7.3:11919063-11919082 None:intergenic 40.0%
CACTAAACATCGAGCTCATT+TGG + chr7.3:11919233-11919252 MS.gene007434:CDS 40.0%
CTTCAATGAATACAGAGCAG+TGG + chr7.3:11919368-11919387 MS.gene007434:intron 40.0%
GAAGGAAGACAGGTTTATCA+TGG - chr7.3:11919041-11919060 None:intergenic 40.0%
GTTGAAACAAGCCAAAGAAG+AGG + chr7.3:11919197-11919216 MS.gene007434:CDS 40.0%
TATGATATATACGAGGAGCG+AGG - chr7.3:11919003-11919022 None:intergenic 40.0%
TTCACATGAAACTGGGCTAT+TGG + chr7.3:11918948-11918967 MS.gene007434:intron 40.0%
!! TGGGCTATTGGTCTTATGAT+GGG + chr7.3:11918960-11918979 MS.gene007434:intron 40.0%
ACCGAGGCTAGTAGAATTTC+GGG + chr7.3:11919455-11919474 MS.gene007434:CDS 45.0%
AGCCAAAGAAGAGGCTGAAA+AGG + chr7.3:11919206-11919225 MS.gene007434:CDS 45.0%
ATACAGAGCAGTGGAGATTC+TGG + chr7.3:11919377-11919396 MS.gene007434:intron 45.0%
ATGGCATCCAACAACAGTCA+AGG + chr7.3:11918729-11918748 MS.gene007434:CDS 45.0%
GACCGAGGCTAGTAGAATTT+CGG + chr7.3:11919454-11919473 MS.gene007434:CDS 45.0%
! CTCCTTTTCAGCCTCTTCTT+TGG - chr7.3:11919211-11919230 None:intergenic 45.0%
!! CTGGGCTATTGGTCTTATGA+TGG + chr7.3:11918959-11918978 MS.gene007434:intron 45.0%
CCGAGGCTAGTAGAATTTCG+GGG + chr7.3:11919456-11919475 MS.gene007434:CDS 50.0%
CGAGGCTAGTAGAATTTCGG+GGG + chr7.3:11919457-11919476 MS.gene007434:CDS 50.0%
GCATCCAACAACAGTCAAGG+TGG + chr7.3:11918732-11918751 MS.gene007434:CDS 50.0%
! CCCCGAAATTCTACTAGCCT+CGG - chr7.3:11919459-11919478 None:intergenic 50.0%
! CTGCTGAACAAGAAGCACAG+CGG + chr7.3:11918772-11918791 MS.gene007434:CDS 50.0%
AAAAGTGGGAGGGATGGGGA+AGG - chr7.3:11919059-11919078 None:intergenic 55.0%
GATCCATCAGCTGAAGACCG+AGG + chr7.3:11919439-11919458 MS.gene007434:CDS 55.0%
TAGCCTCGGTCTTCAGCTGA+TGG - chr7.3:11919445-11919464 None:intergenic 55.0%
GAGGGATGGGGAAGGAAGAC+AGG - chr7.3:11919051-11919070 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr7.3 gene 11918729 11919526 11918729 ID=MS.gene007434
chr7.3 mRNA 11918729 11919526 11918729 ID=MS.gene007434.t1;Parent=MS.gene007434
chr7.3 exon 11918729 11918816 11918729 ID=MS.gene007434.t1.exon1;Parent=MS.gene007434.t1
chr7.3 CDS 11918729 11918816 11918729 ID=cds.MS.gene007434.t1;Parent=MS.gene007434.t1
chr7.3 exon 11919184 11919284 11919184 ID=MS.gene007434.t1.exon2;Parent=MS.gene007434.t1
chr7.3 CDS 11919184 11919284 11919184 ID=cds.MS.gene007434.t1;Parent=MS.gene007434.t1
chr7.3 exon 11919383 11919526 11919383 ID=MS.gene007434.t1.exon3;Parent=MS.gene007434.t1
chr7.3 CDS 11919383 11919526 11919383 ID=cds.MS.gene007434.t1;Parent=MS.gene007434.t1
Gene Sequence

>MS.gene007434

ATGGCATCCAACAACAGTCAAGGTGGAATTCAACAATTATTGGCTGCTGAACAAGAAGCACAGCGGATTGTGAATGCTGCAAAAAATGGTATTCTAGCCAATCTTCATTTTTTATTTCTCTGTGTTGTTATATGTTTTCATTAAAACTTCTTATAATGCCATTTTATGTTAGCAGATTGTTTATCTTTTCTTTATCCTTCTTGTGTTTATCTTTTAACTTTCACATGAAACTGGGCTATTGGTCTTATGATGGGAATGGGTTTTCTTGTGTCCTCGCTCCTCGTATATATCATAGAACAAATTTCATTACCATGATAAACCTGTCTTCCTTCCCCATCCCTCCCACTTTTTAATTATACTGTTTTTTTTTTTTTATTGTAACTCCAACCAGTTATGTAATTATGCTGAATCGCTATATCTGTTCACTAATCAGTATTCTGCATCTCTACTGTTAGAAAAATATGCTAGGTTGAAACAAGCCAAAGAAGAGGCTGAAAAGGAGATCACTAAACATCGAGCTCATTTGGAAAATCATTTTCAAAACAAAGTATCAGCGGTATGTTAATTATCGACTGCAGTAATAAATGGCAATGTTGCTGTTAGACTACCGTTCTATCTCATTATAAGCTTGTGTGCATTCTTCAATGAATACAGAGCAGTGGAGATTCTGGTGCTAATGTCAAGCGACTTGAGCAAGAGACTGATACAAAGATCCATCAGCTGAAGACCGAGGCTAGTAGAATTTCGGGGGATGTTGTCAGCACACTTCTCAAGTATGTAACAACCGTGAAGAACTAG
Protein sequence

>MS.gene007434.t1

MASNNSQGGIQQLLAAEQEAQRIVNAAKNEKYARLKQAKEEAEKEITKHRAHLENHFQNKVSASSGDSGANVKRLEQETDTKIHQLKTEASRISGDVVSTLLKYVTTVKN