AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene40377


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene40377.t1 MTR_3g108990 96.164 391 14 1 1 391 1 390 0.0 781
MS.gene40377.t1 MTR_3g109010 76.562 384 88 2 4 386 6 388 0.0 626
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene40377.t1 AT2G24580 62.025 395 143 3 2 390 5 398 0.0 523

Find 0 sgRNAs with CRISPR-Local

Find 154 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAGTTAGTTAAAAGAAT+TGG + 24210:27006-27025 MS.gene40377:CDS 15.0%
!!! GATTTTGTGATTGATTTTTT+GGG + 24210:27369-27388 MS.gene40377:CDS 20.0%
! AAGTTAGTTAAAAGAATTGG+CGG + 24210:27009-27028 MS.gene40377:CDS 25.0%
! TTTGGTAAGGTTTATGTATA+CGG + 24210:27144-27163 MS.gene40377:CDS 25.0%
!! TTTGGAAAAAATGTGGTTTT+GGG + 24210:27399-27418 MS.gene40377:CDS 25.0%
!!! GGATTTTGTGATTGATTTTT+TGG + 24210:27368-27387 MS.gene40377:CDS 25.0%
!!! GTAGTAATGGTTTTGAATAT+AGG - 24210:26557-26576 MS.gene40377:intergenic 25.0%
AATTCAACTTACCGGAAAAT+TGG + 24210:26776-26795 MS.gene40377:CDS 30.0%
ATTCAACTTACCGGAAAATT+GGG + 24210:26777-26796 MS.gene40377:CDS 30.0%
CATGAAGGTAAATTCGTAAT+TGG + 24210:27093-27112 MS.gene40377:CDS 30.0%
GATGAATGAGTTAAAGGAAT+GGG + 24210:27263-27282 MS.gene40377:CDS 30.0%
GTCAATATCTTACCAATAAC+CGG - 24210:27459-27478 MS.gene40377:intergenic 30.0%
TGATGAATGAGTTAAAGGAA+TGG + 24210:27262-27281 MS.gene40377:CDS 30.0%
TGATGGAATCATACAAACTT+TGG + 24210:26584-26603 MS.gene40377:CDS 30.0%
! GTTTGGAAAAAATGTGGTTT+TGG + 24210:27398-27417 MS.gene40377:CDS 30.0%
! TGTGATGATGAATGAGTTAA+AGG + 24210:27257-27276 MS.gene40377:CDS 30.0%
!! TAAGATATTGACTCAACTTG+TGG + 24210:27467-27486 MS.gene40377:CDS 30.0%
!!! AGGTTGACTTGAAACATTTT+AGG + 24210:27508-27527 MS.gene40377:CDS 30.0%
!!! GACTTGAAACATTTTAGGAT+TGG + 24210:27513-27532 MS.gene40377:CDS 30.0%
!!! TGTTTTGAAAGACAACACAA+AGG + 24210:26885-26904 MS.gene40377:CDS 30.0%
!!! TTTGTGATTGATTTTTTGGG+TGG + 24210:27372-27391 MS.gene40377:CDS 30.0%
!!! TTTTGCTAGCTTTTTTGGTA+AGG + 24210:27131-27150 MS.gene40377:CDS 30.0%
AAAAAATGCGTGGTAACTGT+TGG + 24210:26973-26992 MS.gene40377:CDS 35.0%
CAGTTTGATGTGATTATCGT+CGG + 24210:26400-26419 MS.gene40377:CDS 35.0%
CCAAAAAAGCTAGCAAAAGT+TGG - 24210:27129-27148 MS.gene40377:intergenic 35.0%
GAAGGTAAATTCGTAATTGG+TGG + 24210:27096-27115 MS.gene40377:CDS 35.0%
GTTACTGGAGGATTAAAGAA+GGG + 24210:27070-27089 MS.gene40377:CDS 35.0%
TCAAAACCATTACTACCCTT+TGG + 24210:26561-26580 MS.gene40377:CDS 35.0%
TCAATCACAAAATCCTCATC+TGG - 24210:27363-27382 MS.gene40377:intergenic 35.0%
TGGTGAGTTTGGAAAAAATG+TGG + 24210:27392-27411 MS.gene40377:CDS 35.0%
TGTATGATTCCATCACCAAA+GGG - 24210:26579-26598 MS.gene40377:intergenic 35.0%
TGTTACTGGAGGATTAAAGA+AGG + 24210:27069-27088 MS.gene40377:CDS 35.0%
TTGAATATAGGTAGCACGAA+TGG - 24210:26545-26564 MS.gene40377:intergenic 35.0%
TTGTATGATTCCATCACCAA+AGG - 24210:26580-26599 MS.gene40377:intergenic 35.0%
! ATGTTTCAAGTCAACCTCAT+TGG - 24210:27505-27524 MS.gene40377:intergenic 35.0%
!! GAATGGGTTGAAGGTATATT+TGG + 24210:27279-27298 MS.gene40377:CDS 35.0%
!! GTGACGGATATAAAAAACGA+CGG + 24210:26907-26926 MS.gene40377:CDS 35.0%
!!! AAAAATGTGGTTTTGGGTGT+TGG + 24210:27405-27424 MS.gene40377:CDS 35.0%
!!! AAAATGTGGTTTTGGGTGTT+GGG + 24210:27406-27425 MS.gene40377:CDS 35.0%
!!! CCAACTTTTGCTAGCTTTTT+TGG + 24210:27126-27145 MS.gene40377:CDS 35.0%
AACTTACCGGAAAATTGGGT+GGG + 24210:26781-26800 MS.gene40377:CDS 40.0%
ACGGATATAAAAAACGACGG+AGG + 24210:26910-26929 MS.gene40377:CDS 40.0%
ATGCAAGATTGTTTCACCAC+TGG - 24210:27327-27346 MS.gene40377:intergenic 40.0%
CAGACACTCGCTTACAAAAA+CGG + 24210:26859-26878 MS.gene40377:CDS 40.0%
GAAAGACAACACAAAGGTGA+CGG + 24210:26891-26910 MS.gene40377:CDS 40.0%
GTAACAAACATGAGTCTCCA+CGG - 24210:27055-27074 MS.gene40377:intergenic 40.0%
GTATTCAATGACACCAGATG+AGG + 24210:27347-27366 MS.gene40377:CDS 40.0%
TAACAAACATGAGTCTCCAC+GGG - 24210:27054-27073 MS.gene40377:intergenic 40.0%
TGAAATTCCGATAAAACCCG+TGG + 24210:27035-27054 MS.gene40377:CDS 40.0%
TTTCCGTTATCGAAAACTGC+CGG + 24210:26692-26711 MS.gene40377:CDS 40.0%
! AGACTCATGTTTGTTACTGG+AGG + 24210:27058-27077 MS.gene40377:CDS 40.0%
! AGGATTAAAGAAGGGCATGA+AGG + 24210:27078-27097 MS.gene40377:CDS 40.0%
! CAAACTTTGGAAAGAAGCTC+AGG + 24210:26597-26616 MS.gene40377:CDS 40.0%
! GGGTTGAAGGTATATTTGGT+GGG + 24210:27283-27302 MS.gene40377:CDS 40.0%
! GGTTGAAGGTATATTTGGTG+GGG + 24210:27284-27303 MS.gene40377:CDS 40.0%
! GTATCCTGGTTTGATGAAAG+CGG + 24210:27182-27201 MS.gene40377:CDS 40.0%
! GTTGTAGTTTTTACCGCGAA+TGG + 24210:26934-26953 MS.gene40377:CDS 40.0%
! TGGAGACTCATGTTTGTTAC+TGG + 24210:27055-27074 MS.gene40377:CDS 40.0%
! TGGGTTGAAGGTATATTTGG+TGG + 24210:27282-27301 MS.gene40377:CDS 40.0%
! TTCCGGTAAGTTGAATTTGC+CGG - 24210:26773-26792 MS.gene40377:intergenic 40.0%
! TTTAAGATGGCTCCGGTTAT+TGG + 24210:27444-27463 MS.gene40377:CDS 40.0%
! TTTCCGGCAGTTTTCGATAA+CGG - 24210:26698-26717 MS.gene40377:intergenic 40.0%
!! GAGTTAAAGGAATGGGTTGA+AGG + 24210:27270-27289 MS.gene40377:CDS 40.0%
!! GATATTGACTCAACTTGTGG+TGG + 24210:27470-27489 MS.gene40377:CDS 40.0%
!! GGTGGGGTATTTTATGTTTC+CGG - 24210:26714-26733 MS.gene40377:intergenic 40.0%
!!! GATTTTTTGGGTGGTGAGTT+TGG + 24210:27381-27400 MS.gene40377:CDS 40.0%
AAACCAGGATACTCCAGAAC+GGG - 24210:27174-27193 MS.gene40377:intergenic 45.0%
AATAAACGTCGTAGCCCACT+TGG - 24210:26624-26643 MS.gene40377:intergenic 45.0%
ATAAACGTCGTAGCCCACTT+GGG - 24210:26623-26642 MS.gene40377:intergenic 45.0%
CAAACCAGGATACTCCAGAA+CGG - 24210:27175-27194 MS.gene40377:intergenic 45.0%
CAACTTACCGGAAAATTGGG+TGG + 24210:26780-26799 MS.gene40377:CDS 45.0%
CCATCACCAAAGGGTAGTAA+TGG - 24210:26570-26589 MS.gene40377:intergenic 45.0%
CCATTACTACCCTTTGGTGA+TGG + 24210:26567-26586 MS.gene40377:CDS 45.0%
GAATTTGCCGGCGAATTTGT+CGG - 24210:26761-26780 MS.gene40377:intergenic 45.0%
GCGAATGGTGAAAAGTTTCG+CGG + 24210:26949-26968 MS.gene40377:CDS 45.0%
GTTTCGCGGTAAAAAATGCG+TGG + 24210:26963-26982 MS.gene40377:CDS 45.0%
TATAGGTAGCACGAATGGTG+CGG - 24210:26540-26559 MS.gene40377:intergenic 45.0%
TTCGGGTCATGGGTTTAAGA+TGG + 24210:27431-27450 MS.gene40377:CDS 45.0%
! AAACATGGCAGTGGCTTTTG+TGG - 24210:26839-26858 MS.gene40377:intergenic 45.0%
! AACATGGCAGTGGCTTTTGT+GGG - 24210:26838-26857 MS.gene40377:intergenic 45.0%
! GCGAAACTTTTCACCATTCG+CGG - 24210:26950-26969 MS.gene40377:intergenic 45.0%
! GTAAGCGAGTGTCTGAAACA+TGG - 24210:26854-26873 MS.gene40377:intergenic 45.0%
! TCATGGGTTTAAGATGGCTC+CGG + 24210:27437-27456 MS.gene40377:CDS 45.0%
! TTGACTCAACTTGTGGTGGA+TGG + 24210:27474-27493 MS.gene40377:CDS 45.0%
!! CGATAACGGAAAGGATGACT+GGG - 24210:26684-26703 MS.gene40377:intergenic 45.0%
!! TCGATAACGGAAAGGATGAC+TGG - 24210:26685-26704 MS.gene40377:intergenic 45.0%
!! TGACTCAACTTGTGGTGGAT+GGG + 24210:27475-27494 MS.gene40377:CDS 45.0%
!! TGAGTCTCCACGGGTTTTAT+CGG - 24210:27045-27064 MS.gene40377:intergenic 45.0%
!! TGTTGATTCAAGTGAGCCAG+TGG + 24210:27308-27327 MS.gene40377:CDS 45.0%
!!! GAGTGTTTTGAGACCCCTTT+TGG - 24210:26464-26483 MS.gene40377:intergenic 45.0%
!!! GGCAGTTTTCGATAACGGAA+AGG - 24210:26693-26712 MS.gene40377:intergenic 45.0%
!!! GGTTTTGGGTGTTGGGTTTT+CGG + 24210:27413-27432 MS.gene40377:CDS 45.0%
!!! GTTTTGGGTGTTGGGTTTTC+GGG + 24210:27414-27433 MS.gene40377:CDS 45.0%
AAAGAAGCTCAGGCCCAAGT+GGG + 24210:26607-26626 MS.gene40377:CDS 50.0%
AAAGCCCAGCACCTTGACAT+GGG + 24210:26646-26665 MS.gene40377:CDS 50.0%
AACCCCACGGTCTCTTATCA+GGG - 24210:27233-27252 MS.gene40377:intergenic 50.0%
AGGATGACTGGGTCGTTGAA+TGG - 24210:26673-26692 MS.gene40377:intergenic 50.0%
ATAGGTAGCACGAATGGTGC+GGG - 24210:26539-26558 MS.gene40377:intergenic 50.0%
ATCATCACAACCGAACCCCA+CGG - 24210:27246-27265 MS.gene40377:intergenic 50.0%
CAAGTTGCCGACAAATTCGC+CGG + 24210:26751-26770 MS.gene40377:CDS 50.0%
CGAATTTGTCGGCAACTTGC+TGG - 24210:26750-26769 MS.gene40377:intergenic 50.0%
CGCCGGCAAATTCAACTTAC+CGG + 24210:26768-26787 MS.gene40377:CDS 50.0%
CGCTTACCAAGCTGCCAAAA+GGG + 24210:26447-26466 MS.gene40377:CDS 50.0%
GATGTGATTATCGTCGGAGC+CGG + 24210:26406-26425 MS.gene40377:CDS 50.0%
GCTTACCAAGCTGCCAAAAG+GGG + 24210:26448-26467 MS.gene40377:CDS 50.0%
GGATGACTGGGTCGTTGAAT+GGG - 24210:26672-26691 MS.gene40377:intergenic 50.0%
TGACCCTGATAAGAGACCGT+GGG + 24210:27227-27246 MS.gene40377:CDS 50.0%
TGATAAGAGACCGTGGGGTT+CGG + 24210:27233-27252 MS.gene40377:CDS 50.0%
TGTATACGGAACACCCGTTC+TGG + 24210:27158-27177 MS.gene40377:CDS 50.0%
TTGATGAAAGCGGCGGTTCA+CGG + 24210:27192-27211 MS.gene40377:CDS 50.0%
! CCTTTTGGCAGCTTGGTAAG+CGG - 24210:26449-26468 MS.gene40377:intergenic 50.0%
! GACAAGCCCACCCAATTTTC+CGG - 24210:26790-26809 MS.gene40377:intergenic 50.0%
! GAGTGTCTGAAACATGGCAG+TGG - 24210:26848-26867 MS.gene40377:intergenic 50.0%
! TCCTGGTTTGATGAAAGCGG+CGG + 24210:27185-27204 MS.gene40377:CDS 50.0%
! TTTGACTTTCTCCACCACCG+TGG + 24210:26496-26515 MS.gene40377:CDS 50.0%
!! ATTTGTCGGCAACTTGCTGG+TGG - 24210:26747-26766 MS.gene40377:intergenic 50.0%
!! GACTCAACTTGTGGTGGATG+GGG + 24210:27476-27495 MS.gene40377:CDS 50.0%
!!! GTGTTGGGTTTTCGGGTCAT+GGG + 24210:27421-27440 MS.gene40377:CDS 50.0%
AATGGTGCGGGATTCACCGT+GGG - 24210:26527-26546 MS.gene40377:intergenic 55.0%
ATTCACCGTGGGAAGAGCCA+CGG - 24210:26516-26535 MS.gene40377:intergenic 55.0%
CAAAGCCCAGCACCTTGACA+TGG + 24210:26645-26664 MS.gene40377:CDS 55.0%
CAGTATGCCACCGTGTTCAG+TGG - 24210:26812-26831 MS.gene40377:intergenic 55.0%
CCGCTTACCAAGCTGCCAAA+AGG + 24210:26446-26465 MS.gene40377:CDS 55.0%
CGTGGTAACTGTTGGAGCGT+GGG + 24210:26981-27000 MS.gene40377:CDS 55.0%
CGTTGAATGGGCCCATGTCA+AGG - 24210:26660-26679 MS.gene40377:intergenic 55.0%
GAAAGAAGCTCAGGCCCAAG+TGG + 24210:26606-26625 MS.gene40377:CDS 55.0%
GAACCCCACGGTCTCTTATC+AGG - 24210:27234-27253 MS.gene40377:intergenic 55.0%
GACCCTGATAAGAGACCGTG+GGG + 24210:27228-27247 MS.gene40377:CDS 55.0%
GGTGGATGGGGAAACCAATG+AGG + 24210:27488-27507 MS.gene40377:CDS 55.0%
GTGACCCTGATAAGAGACCG+TGG + 24210:27226-27245 MS.gene40377:CDS 55.0%
GTGGGCTTGTCCACTGAACA+CGG + 24210:26799-26818 MS.gene40377:CDS 55.0%
TTTGGCAGCTTGGTAAGCGG+TGG - 24210:26446-26465 MS.gene40377:intergenic 55.0%
! ACCGCCGCTTTCATCAAACC+AGG - 24210:27189-27208 MS.gene40377:intergenic 55.0%
! TGAGACCCCTTTTGGCAGCT+TGG - 24210:26456-26475 MS.gene40377:intergenic 55.0%
!! ACACCCGTTCTGGAGTATCC+TGG + 24210:27168-27187 MS.gene40377:CDS 55.0%
!!! GGTGTTGGGTTTTCGGGTCA+TGG + 24210:27420-27439 MS.gene40377:CDS 55.0%
ATGAAAGCGGCGGTTCACGG+TGG + 24210:27195-27214 MS.gene40377:CDS 60.0%
ATGGGCCCATGTCAAGGTGC+TGG - 24210:26654-26673 MS.gene40377:intergenic 60.0%
CTGGTGGTTGAGGAGCTGGT+GGG - 24210:26731-26750 MS.gene40377:intergenic 60.0%
CTTGCTGGTGGTTGAGGAGC+TGG - 24210:26735-26754 MS.gene40377:intergenic 60.0%
GAATGGTGCGGGATTCACCG+TGG - 24210:26528-26547 MS.gene40377:intergenic 60.0%
GCGTGGTAACTGTTGGAGCG+TGG + 24210:26980-26999 MS.gene40377:CDS 60.0%
GGCTTGTCCACTGAACACGG+TGG + 24210:26802-26821 MS.gene40377:CDS 60.0%
GGTGGAACTTCCCATGACGC+CGG - 24210:26428-26447 MS.gene40377:intergenic 60.0%
TGGTGGTTGAGGAGCTGGTG+GGG - 24210:26730-26749 MS.gene40377:intergenic 60.0%
! TGGGCCCATGTCAAGGTGCT+GGG - 24210:26653-26672 MS.gene40377:intergenic 60.0%
!! CGGCAACTTGCTGGTGGTTG+AGG - 24210:26741-26760 MS.gene40377:intergenic 60.0%
AAGCGGCGGTTCACGGTGGT+CGG + 24210:27199-27218 MS.gene40377:CDS 65.0%
ATCGTCGGAGCCGGCGTCAT+GGG + 24210:26415-26434 MS.gene40377:CDS 65.0%
CACCACCGTGGCTCTTCCCA+CGG + 24210:26508-26527 MS.gene40377:CDS 65.0%
GCTGGTGGTTGAGGAGCTGG+TGG - 24210:26732-26751 MS.gene40377:intergenic 65.0%
TATCGTCGGAGCCGGCGTCA+TGG + 24210:26414-26433 MS.gene40377:CDS 65.0%
CACCGTGGGAAGAGCCACGG+TGG - 24210:26513-26532 MS.gene40377:intergenic 70.0%
CGTGGGAAGAGCCACGGTGG+TGG - 24210:26510-26529 MS.gene40377:intergenic 70.0%


Chromosome Type Strat End Strand Name
24210 gene 26388 27563 26388 ID=MS.gene40377
24210 mRNA 26388 27563 26388 ID=MS.gene40377.t1;Parent=MS.gene40377
24210 exon 26388 27563 26388 ID=MS.gene40377.t1.exon1;Parent=MS.gene40377.t1
24210 CDS 26388 27563 26388 ID=cds.MS.gene40377.t1;Parent=MS.gene40377.t1
Gene Sequence

>MS.gene40377

ATGGAGGATTCTCAGTTTGATGTGATTATCGTCGGAGCCGGCGTCATGGGAAGTTCCACCGCTTACCAAGCTGCCAAAAGGGGTCTCAAAACACTCTTGCTTGAACAATTTGACTTTCTCCACCACCGTGGCTCTTCCCACGGTGAATCCCGCACCATTCGTGCTACCTATATTCAAAACCATTACTACCCTTTGGTGATGGAATCATACAAACTTTGGAAAGAAGCTCAGGCCCAAGTGGGCTACGACGTTTATTTCAAAGCCCAGCACCTTGACATGGGCCCATTCAACGACCCAGTCATCCTTTCCGTTATCGAAAACTGCCGGAAACATAAAATACCCCACCAGCTCCTCAACCACCAGCAAGTTGCCGACAAATTCGCCGGCAAATTCAACTTACCGGAAAATTGGGTGGGCTTGTCCACTGAACACGGTGGCATACTGAAGCCCACAAAAGCCACTGCCATGTTTCAGACACTCGCTTACAAAAACGGTGCTGTTTTGAAAGACAACACAAAGGTGACGGATATAAAAAACGACGGAGGTGTTGTAGTTTTTACCGCGAATGGTGAAAAGTTTCGCGGTAAAAAATGCGTGGTAACTGTTGGAGCGTGGGCAAATAAGTTAGTTAAAAGAATTGGCGGAGTTGAAATTCCGATAAAACCCGTGGAGACTCATGTTTGTTACTGGAGGATTAAAGAAGGGCATGAAGGTAAATTCGTAATTGGTGGCGATTTTCCAACTTTTGCTAGCTTTTTTGGTAAGGTTTATGTATACGGAACACCCGTTCTGGAGTATCCTGGTTTGATGAAAGCGGCGGTTCACGGTGGTCGGTTGTGTGACCCTGATAAGAGACCGTGGGGTTCGGTTGTGATGATGAATGAGTTAAAGGAATGGGTTGAAGGTATATTTGGTGGGGTTGTTGATTCAAGTGAGCCAGTGGTGAAACAATCTTGCATGTATTCAATGACACCAGATGAGGATTTTGTGATTGATTTTTTGGGTGGTGAGTTTGGAAAAAATGTGGTTTTGGGTGTTGGGTTTTCGGGTCATGGGTTTAAGATGGCTCCGGTTATTGGTAAGATATTGACTCAACTTGTGGTGGATGGGGAAACCAATGAGGTTGACTTGAAACATTTTAGGATTGGAAGATTCCAAATGACATCTAAGATTTAG

Protein sequence

>MS.gene40377.t1

MEDSQFDVIIVGAGVMGSSTAYQAAKRGLKTLLLEQFDFLHHRGSSHGESRTIRATYIQNHYYPLVMESYKLWKEAQAQVGYDVYFKAQHLDMGPFNDPVILSVIENCRKHKIPHQLLNHQQVADKFAGKFNLPENWVGLSTEHGGILKPTKATAMFQTLAYKNGAVLKDNTKVTDIKNDGGVVVFTANGEKFRGKKCVVTVGAWANKLVKRIGGVEIPIKPVETHVCYWRIKEGHEGKFVIGGDFPTFASFFGKVYVYGTPVLEYPGLMKAAVHGGRLCDPDKRPWGSVVMMNELKEWVEGIFGGVVDSSEPVVKQSCMYSMTPDEDFVIDFLGGEFGKNVVLGVGFSGHGFKMAPVIGKILTQLVVDGETNEVDLKHFRIGRFQMTSKI