AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar zhongmu-4 / Msa0908250


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 77 sgRNAs with CRISPR-Local

Find 81 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGCTGCCTCCCGTAGGAGTC+TGG 0.214220 6_2:-9506551 Msa0908250:intron
GAAGAAACAATGACGGTATC+TGG 0.223499 6_2:+9506664 None:intergenic
CGCTTTACGCCCAATCATTC+CGG 0.287091 6_2:-9506749 Msa0908250:CDS
CAATGCCGCGTGGAGGTAAA+AGG 0.308793 6_2:+9506612 None:intergenic
TCCTTTCGCTCCTCAGCTTA+CGG 0.318574 6_2:-9506407 Msa0908250:CDS
ATCAGACGCGAGCCCCTCCT+TGG 0.323688 6_2:-9506439 Msa0908250:CDS
CTCTGTCTTACCGCGGCTGC+TGG 0.335301 6_2:-9506712 Msa0908250:CDS
CCTTTCGCTCCTCAGCTTAC+GGG 0.341229 6_2:-9506406 Msa0908250:CDS
CAAGCGTTATCCGGAATGAT+TGG 0.365557 6_2:+9506739 None:intergenic
CAGCTGTTGTTCCCCTCCCA+AGG 0.401225 6_2:-9506366 Msa0908250:CDS
CAGAGGATGCAAGCGTTATC+CGG 0.442617 6_2:+9506730 None:intergenic
GGTTGAGCCCTGGGATTTGA+CGG 0.443812 6_2:-9506796 None:intergenic
CTTGGGAGGGGAACAACAGC+TGG 0.448224 6_2:+9506367 None:intergenic
CTCGCGTCTGATTAGCTAGT+TGG 0.450357 6_2:+9506450 None:intergenic
GTTGTTCCCCTCCCAAGGGC+AGG 0.453286 6_2:-9506361 Msa0908250:CDS
TCAGACGCGAGCCCCTCCTT+GGG 0.455699 6_2:-9506438 Msa0908250:CDS
GCTGCCTCCCGTAGGAGTCT+GGG 0.465822 6_2:-9506550 Msa0908250:intron
TAAGTTCGCCGTCAAATCCC+AGG 0.467544 6_2:+9506788 None:intergenic
TAAGAACCTGCCCTTGGGAG+GGG 0.474163 6_2:+9506355 None:intergenic
CTCCTACGGGAGGCAGCAGT+GGG 0.476121 6_2:+9506556 None:intergenic
AGGGGAACAACAGCTGGAAA+CGG 0.479232 6_2:+9506373 None:intergenic
TTTACACATGCAAGTCGAAC+GGG 0.480570 6_2:+9506295 None:intergenic
CCACGCGGCATTGCTCCGTC+AGG 0.484232 6_2:-9506602 Msa0908250:CDS
ACTCCTACGGGAGGCAGCAG+TGG 0.491996 6_2:+9506555 None:intergenic
AAGAAACAATGACGGTATCT+GGG 0.492143 6_2:+9506665 None:intergenic
AACGCGTAAGAACCTGCCCT+TGG 0.497667 6_2:+9506349 None:intergenic
AGGAGGAATCCGCCCAAGGA+GGG 0.502243 6_2:+9506426 None:intergenic
TGGTGTTTCCAGTGGCGGAC+GGG 0.506464 6_2:+9506321 None:intergenic
AAGCGTTATCCGGAATGATT+GGG 0.511219 6_2:+9506740 None:intergenic
CATGCAAGTCGAACGGGAAG+TGG 0.511388 6_2:+9506301 None:intergenic
GTTACTCACCCGTCCGCCAC+TGG 0.515654 6_2:-9506329 Msa0908250:CDS
GTGGTGTTTCCAGTGGCGGA+CGG 0.521309 6_2:+9506320 None:intergenic
ACGCGTAAGAACCTGCCCTT+GGG 0.530469 6_2:+9506350 None:intergenic
AGCTGTTGTTCCCCTCCCAA+GGG 0.533909 6_2:-9506365 Msa0908250:CDS
CGCAATGGGCGAAAGCCTGA+CGG 0.536266 6_2:+9506587 None:intergenic
CCAAGGCGGTGATCAGTAGC+TGG 0.540351 6_2:+9506488 None:intergenic
TAACTCTGTGCCAGCAGCCG+CGG 0.544469 6_2:+9506702 None:intergenic
CGTAAGAACCTGCCCTTGGG+AGG 0.550231 6_2:+9506353 None:intergenic
CCCGTAAGCTGAGGAGCGAA+AGG 0.554829 6_2:+9506406 None:intergenic
GAGAGGATGATCAGCCACAC+TGG 0.556699 6_2:+9506514 None:intergenic
GTAAGAACCTGCCCTTGGGA+GGG 0.557080 6_2:+9506354 None:intergenic
GCGTGGAGGTAAAAGGCCTA+CGG 0.560249 6_2:+9506619 None:intergenic
GGAGGAATCCGCCCAAGGAG+GGG 0.562553 6_2:+9506427 None:intergenic
AAGTTCGCCGTCAAATCCCA+GGG 0.564420 6_2:+9506789 None:intergenic
CGTGGAGGTAAAAGGCCTAC+GGG 0.570032 6_2:+9506620 None:intergenic
GACGCGAGCCCCTCCTTGGG+CGG 0.572606 6_2:-9506435 Msa0908250:CDS
CTTTCGCTCCTCAGCTTACG+GGG 0.577687 6_2:-9506405 Msa0908250:CDS
CCAGCTACTGATCACCGCCT+TGG 0.578071 6_2:-9506488 Msa0908250:CDS
CGTCAGGCTTTCGCCCATTG+CGG 0.587223 6_2:-9506586 Msa0908250:CDS
GGGCGTAAAGCGTCTGTAGG+TGG 0.587281 6_2:+9506760 None:intergenic
AGTGTGGCTGATCATCCTCT+CGG 0.593369 6_2:-9506512 Msa0908250:CDS
CGAAAGGAGGAATCCGCCCA+AGG 0.596152 6_2:+9506422 None:intergenic
CTTTACACATGCAAGTCGAA+CGG 0.597034 6_2:+9506294 None:intergenic
TCCTGGCTCAGGATGAACGC+TGG 0.603603 6_2:+9506264 None:intergenic
AGAGGATGATCAGCCACACT+GGG 0.612353 6_2:+9506515 None:intergenic
TGCTAATACCCCGTAAGCTG+AGG 0.615470 6_2:+9506397 None:intergenic
GGTATCTGGGGAATAAGCAT+CGG 0.620214 6_2:+9506678 None:intergenic
ACGGGAAGTGGTGTTTCCAG+TGG 0.620953 6_2:+9506313 None:intergenic
AAGGAGGAATCCGCCCAAGG+AGG 0.622334 6_2:+9506425 None:intergenic
GGAAGTGGTGTTTCCAGTGG+CGG 0.627120 6_2:+9506316 None:intergenic
TCCTGGAGAAGAAACAATGA+CGG 0.628601 6_2:+9506657 None:intergenic
GCCACACTGGGACTGAGACA+AGG 0.629204 6_2:+9506527 None:intergenic
ATTGGGCGTAAAGCGTCTGT+AGG 0.632255 6_2:+9506757 None:intergenic
GACGGAGCAATGCCGCGTGG+AGG 0.640730 6_2:+9506605 None:intergenic
GTCTGATTAGCTAGTTGGTG+AGG 0.641304 6_2:+9506455 None:intergenic
CAGCAGCCGCGGTAAGACAG+AGG 0.650015 6_2:+9506713 None:intergenic
TGGCTCAGGATGAACGCTGG+CGG 0.650788 6_2:+9506267 None:intergenic
AAAAGAAGTTCATGACCCGT+AGG 0.653857 6_2:-9506635 Msa0908250:CDS
GTAAGCTGAGGAGCGAAAGG+AGG 0.654589 6_2:+9506409 None:intergenic
GCCTTGTCTCAGTCCCAGTG+TGG 0.654955 6_2:-9506528 Msa0908250:CDS
AGAAACAATGACGGTATCTG+GGG 0.658343 6_2:+9506666 None:intergenic
TGATCAGTAGCTGGTCCGAG+AGG 0.705254 6_2:+9506497 None:intergenic
CCTGACGGAGCAATGCCGCG+TGG 0.711882 6_2:+9506602 None:intergenic
GGTGAGGTAATAGCTTACCA+AGG 0.724474 6_2:+9506471 None:intergenic
GAGGTAATAGCTTACCAAGG+CGG 0.748896 6_2:+9506474 None:intergenic
TTGCATCCTCTGTCTTACCG+CGG 0.760348 6_2:-9506719 Msa0908250:CDS
TCCTACGGGAGGCAGCAGTG+GGG 0.779333 6_2:+9506557 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
AAGAAACAATGACGGTATCT+GGG + chr6_2:9506399-9506418 None:intergenic 35.0%
AAGCGTTATCCGGAATGATT+GGG + chr6_2:9506324-9506343 None:intergenic 40.0%
AGAAACAATGACGGTATCTG+GGG + chr6_2:9506398-9506417 None:intergenic 40.0%
GAAGAAACAATGACGGTATC+TGG + chr6_2:9506400-9506419 None:intergenic 40.0%
TCCTGGAGAAGAAACAATGA+CGG + chr6_2:9506407-9506426 None:intergenic 40.0%
AAAAGAAGTTCATGACCCGT+AGG - chr6_2:9506426-9506445 Msa0908250:CDS 40.0%
TTTACACATGCAAGTCGAAC+GGG + chr6_2:9506769-9506788 None:intergenic 40.0%
CTTTACACATGCAAGTCGAA+CGG + chr6_2:9506770-9506789 None:intergenic 40.0%
CAAGCGTTATCCGGAATGAT+TGG + chr6_2:9506325-9506344 None:intergenic 45.0%
GGTATCTGGGGAATAAGCAT+CGG + chr6_2:9506386-9506405 None:intergenic 45.0%
! ACCGTCATTGTTTCTTCTCC+AGG - chr6_2:9506403-9506422 Msa0908250:CDS 45.0%
! GGGTCATGAACTTCTTTTCC+TGG + chr6_2:9506424-9506443 None:intergenic 45.0%
! AGTGGGGAATTTTCCGCAAT+GGG + chr6_2:9506491-9506510 None:intergenic 45.0%
GAGGTAATAGCTTACCAAGG+CGG + chr6_2:9506590-9506609 None:intergenic 45.0%
GGTGAGGTAATAGCTTACCA+AGG + chr6_2:9506593-9506612 None:intergenic 45.0%
! GTCTGATTAGCTAGTTGGTG+AGG + chr6_2:9506609-9506628 None:intergenic 45.0%
! ATTGGGCGTAAAGCGTCTGT+AGG + chr6_2:9506307-9506326 None:intergenic 50.0%
CGCTTTACGCCCAATCATTC+CGG - chr6_2:9506312-9506331 Msa0908250:CDS 50.0%
CAGAGGATGCAAGCGTTATC+CGG + chr6_2:9506334-9506353 None:intergenic 50.0%
TTGCATCCTCTGTCTTACCG+CGG - chr6_2:9506342-9506361 Msa0908250:CDS 50.0%
! CAGTGGGGAATTTTCCGCAA+TGG + chr6_2:9506492-9506511 None:intergenic 50.0%
AGAGGATGATCAGCCACACT+GGG + chr6_2:9506549-9506568 None:intergenic 50.0%
AGTGTGGCTGATCATCCTCT+CGG - chr6_2:9506549-9506568 Msa0908250:intron 50.0%
! CTCGCGTCTGATTAGCTAGT+TGG + chr6_2:9506614-9506633 None:intergenic 50.0%
TCCTTTCGCTCCTCAGCTTA+CGG - chr6_2:9506654-9506673 Msa0908250:intron 50.0%
TGCTAATACCCCGTAAGCTG+AGG + chr6_2:9506667-9506686 None:intergenic 50.0%
AGGGGAACAACAGCTGGAAA+CGG + chr6_2:9506691-9506710 None:intergenic 50.0%
CGTGGAGGTAAAAGGCCTAC+GGG + chr6_2:9506444-9506463 None:intergenic 55.0%
GCGTGGAGGTAAAAGGCCTA+CGG + chr6_2:9506445-9506464 None:intergenic 55.0%
! GTAGGCCTTTTACCTCCACG+CGG - chr6_2:9506444-9506463 Msa0908250:CDS 55.0%
CAATGCCGCGTGGAGGTAAA+AGG + chr6_2:9506452-9506471 None:intergenic 55.0%
AGACAAGGCCCAGACTCCTA+CGG + chr6_2:9506522-9506541 None:intergenic 55.0%
GAGAGGATGATCAGCCACAC+TGG + chr6_2:9506550-9506569 None:intergenic 55.0%
TGATCAGTAGCTGGTCCGAG+AGG + chr6_2:9506567-9506586 None:intergenic 55.0%
GTAAGCTGAGGAGCGAAAGG+AGG + chr6_2:9506655-9506674 None:intergenic 55.0%
CCTTTCGCTCCTCAGCTTAC+GGG - chr6_2:9506655-9506674 Msa0908250:intron 55.0%
CTTTCGCTCCTCAGCTTACG+GGG - chr6_2:9506656-9506675 Msa0908250:intron 55.0%
AGCTGTTGTTCCCCTCCCAA+GGG - chr6_2:9506696-9506715 Msa0908250:CDS 55.0%
TAAGAACCTGCCCTTGGGAG+GGG + chr6_2:9506709-9506728 None:intergenic 55.0%
GTAAGAACCTGCCCTTGGGA+GGG + chr6_2:9506710-9506729 None:intergenic 55.0%
ACGCGTAAGAACCTGCCCTT+GGG + chr6_2:9506714-9506733 None:intergenic 55.0%
AACGCGTAAGAACCTGCCCT+TGG + chr6_2:9506715-9506734 None:intergenic 55.0%
GGAAGTGGTGTTTCCAGTGG+CGG + chr6_2:9506748-9506767 None:intergenic 55.0%
ACGGGAAGTGGTGTTTCCAG+TGG + chr6_2:9506751-9506770 None:intergenic 55.0%
CATGCAAGTCGAACGGGAAG+TGG + chr6_2:9506763-9506782 None:intergenic 55.0%
! GGGCGTAAAGCGTCTGTAGG+TGG + chr6_2:9506304-9506323 None:intergenic 60.0%
TAACTCTGTGCCAGCAGCCG+CGG + chr6_2:9506362-9506381 None:intergenic 60.0%
CGCAATGGGCGAAAGCCTGA+CGG + chr6_2:9506477-9506496 None:intergenic 60.0%
CGTCAGGCTTTCGCCCATTG+CGG - chr6_2:9506475-9506494 Msa0908250:CDS 60.0%
GACAAGGCCCAGACTCCTAC+GGG + chr6_2:9506521-9506540 None:intergenic 60.0%
GCCTTGTCTCAGTCCCAGTG+TGG - chr6_2:9506533-9506552 Msa0908250:CDS 60.0%
GCCACACTGGGACTGAGACA+AGG + chr6_2:9506537-9506556 None:intergenic 60.0%
CCAAGGCGGTGATCAGTAGC+TGG + chr6_2:9506576-9506595 None:intergenic 60.0%
CCAGCTACTGATCACCGCCT+TGG - chr6_2:9506573-9506592 Msa0908250:CDS 60.0%
AGGAGGAATCCGCCCAAGGA+GGG + chr6_2:9506638-9506657 None:intergenic 60.0%
AAGGAGGAATCCGCCCAAGG+AGG + chr6_2:9506639-9506658 None:intergenic 60.0%
CGAAAGGAGGAATCCGCCCA+AGG + chr6_2:9506642-9506661 None:intergenic 60.0%
CCCGTAAGCTGAGGAGCGAA+AGG + chr6_2:9506658-9506677 None:intergenic 60.0%
CTTGGGAGGGGAACAACAGC+TGG + chr6_2:9506697-9506716 None:intergenic 60.0%
CAGCTGTTGTTCCCCTCCCA+AGG - chr6_2:9506695-9506714 Msa0908250:CDS 60.0%
CGTAAGAACCTGCCCTTGGG+AGG + chr6_2:9506711-9506730 None:intergenic 60.0%
!! TGGTGTTTCCAGTGGCGGAC+GGG + chr6_2:9506743-9506762 None:intergenic 60.0%
! GTGGTGTTTCCAGTGGCGGA+CGG + chr6_2:9506744-9506763 None:intergenic 60.0%
CAGCAGCCGCGGTAAGACAG+AGG + chr6_2:9506351-9506370 None:intergenic 65.0%
CTCTGTCTTACCGCGGCTGC+TGG - chr6_2:9506349-9506368 Msa0908250:CDS 65.0%
TCCTACGGGAGGCAGCAGTG+GGG + chr6_2:9506507-9506526 None:intergenic 65.0%
CTCCTACGGGAGGCAGCAGT+GGG + chr6_2:9506508-9506527 None:intergenic 65.0%
ACTCCTACGGGAGGCAGCAG+TGG + chr6_2:9506509-9506528 None:intergenic 65.0%
TGCTGCCTCCCGTAGGAGTC+TGG - chr6_2:9506510-9506529 Msa0908250:CDS 65.0%
GCTGCCTCCCGTAGGAGTCT+GGG - chr6_2:9506511-9506530 Msa0908250:CDS 65.0%
AAGGCCCAGACTCCTACGGG+AGG + chr6_2:9506518-9506537 None:intergenic 65.0%
ATCAGACGCGAGCCCCTCCT+TGG - chr6_2:9506622-9506641 Msa0908250:CDS 65.0%
TCAGACGCGAGCCCCTCCTT+GGG - chr6_2:9506623-9506642 Msa0908250:CDS 65.0%
GGAGGAATCCGCCCAAGGAG+GGG + chr6_2:9506637-9506656 None:intergenic 65.0%
GTTGTTCCCCTCCCAAGGGC+AGG - chr6_2:9506700-9506719 Msa0908250:CDS 65.0%
GTTACTCACCCGTCCGCCAC+TGG - chr6_2:9506732-9506751 Msa0908250:CDS 65.0%
GACGGAGCAATGCCGCGTGG+AGG + chr6_2:9506459-9506478 None:intergenic 70.0%
CCTGACGGAGCAATGCCGCG+TGG + chr6_2:9506462-9506481 None:intergenic 70.0%
CCACGCGGCATTGCTCCGTC+AGG - chr6_2:9506459-9506478 Msa0908250:CDS 70.0%
TCCCCACTGCTGCCTCCCGT+AGG - chr6_2:9506503-9506522 Msa0908250:CDS 70.0%
GACGCGAGCCCCTCCTTGGG+CGG - chr6_2:9506626-9506645 Msa0908250:CDS 75.0%
Chromosome Type Strat End Strand Name
chr6_2 gene 9506274 9506809 9506274 ID=Msa0908250;Name=Msa0908250
chr6_2 mRNA 9506274 9506809 9506274 ID=Msa0908250-mRNA-1;Parent=Msa0908250;Name=Msa0908250-mRNA-1;_AED=0.42;_eAED=0.44;_QI=0|0|0|1|0.5|0|3|0|173
chr6_2 exon 9506672 9506809 9506672 ID=Msa0908250-mRNA-1:exon:2295;Parent=Msa0908250-mRNA-1
chr6_2 exon 9506563 9506658 9506563 ID=Msa0908250-mRNA-1:exon:2294;Parent=Msa0908250-mRNA-1
chr6_2 exon 9506274 9506558 9506274 ID=Msa0908250-mRNA-1:exon:2293;Parent=Msa0908250-mRNA-1
chr6_2 CDS 9506672 9506809 9506672 ID=Msa0908250-mRNA-1:cds;Parent=Msa0908250-mRNA-1
chr6_2 CDS 9506563 9506658 9506563 ID=Msa0908250-mRNA-1:cds;Parent=Msa0908250-mRNA-1
chr6_2 CDS 9506274 9506558 9506274 ID=Msa0908250-mRNA-1:cds;Parent=Msa0908250-mRNA-1
Gene Sequence

>Msa0908250

CTGGGATTTGACGGCGAACTTAAAAAGCCACCTACAGACGCTTTACGCCCAATCATTCCGGATAACGCTTGCATCCTCTGTCTTACCGCGGCTGCTGGCACAGAGTTAGCCGATGCTTATTCCCCAGATACCGTCATTGAAAAGAAGTTCATGACCCGTAGGCCTTTTACCTCCACGCGGCATTGCTCCGTCAGGCTTTCGCCCATTGCGGAAAATTCCCCACTGCTGCCTCCCGAGTCTGGGCCTTGTCTCAGTCCCAGTGTGGCTGATCATCCTCTCGGACCAGCTACTGATCACCGCCTTGGTAAGCTATTACCTCACCAACTAGCTAATCAGACGCGAGCCCCTCCTTGGGCGGATTCCTCCTTTCGCTCCTCAGCTTACGGGGTATTAGCAGCCGTTTCCAGCTGTTGTTCCCCTCCCAAGGGCAGGTTCTTACGCGTTACTCACCCGTCCGCCACTGGAAACACCACTTCCCGTTCGACTTGCATGTGTAAAGCATGCCGCCAGCGTTCATCC

Protein sequence

>Msa0908250

LGFDGELKKPPTDALRPIIPDNACILCLTAAAGTELADAYSPDTVIEKKFMTRRPFTSTRHCSVRLSPIAENSPLLPPESGPCLSPSVADHPLGPATDHRLGKLLPHQLANQTRAPPWADSSFRSSAYGVLAAVSSCCSPPKGRFLRVTHPSATGNTTSRSTCMCKACRQRSS