AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene26910


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26910.t1 MTR_1g104630 79.899 199 32 3 1 197 1 193 1.65e-109 311
MS.gene26910.t1 MTR_5g006130 70.833 216 37 3 1 197 1 209 1.18e-102 295
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene26910.t1 AT1G03130 75.145 173 30 2 38 197 32 204 2.77e-88 258
MS.gene26910.t1 AT4G02770 73.864 176 30 2 38 197 33 208 5.39e-87 255

Find 74 sgRNAs with CRISPR-Local

Find 84 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CAACTTGGGCTTTGCGTAAA+AGG 0.172350 1.2:-77737691 None:intergenic
CGACCCGGGTTCACTTTCTC+TGG 0.253150 1.2:-77737944 None:intergenic
AAGGGGTTGGTCAGAACTTT+AGG 0.293589 1.2:+77737969 MS.gene26910:CDS
ATTTCAAAGATTTGTTCTTT+TGG 0.302487 1.2:-77737743 None:intergenic
CCTTGCTAACTTGAGAAGAT+TGG 0.306141 1.2:-77737801 None:intergenic
GGTCAGAACTTTAGGTCTAT+TGG 0.344103 1.2:+77737977 MS.gene26910:CDS
AGCCTAAGACTGAGAGGGTT+TGG 0.354319 1.2:-77737542 None:intergenic
AGAGATACGGTCATTAGGTT+TGG 0.376453 1.2:-77737480 None:intergenic
CTCTTCACCCCTCCTCTCTC+TGG 0.385923 1.2:+77737455 MS.gene26910:CDS
AAAGAACAATGTTTGGCTCT+TGG 0.389124 1.2:+77737824 MS.gene26910:CDS
GGTACAGAGATACGGTCATT+AGG 0.394276 1.2:-77737485 None:intergenic
AGCAAGGAAAGAACAATGTT+TGG 0.394375 1.2:+77737817 MS.gene26910:CDS
CTTGCTAACTTGAGAAGATT+GGG 0.409133 1.2:-77737800 None:intergenic
TGGGAAACACTCTATAGAAT+TGG 0.417334 1.2:-77737880 None:intergenic
CCACTGAACTTAACCTCTAT+AGG 0.417689 1.2:-77738013 None:intergenic
GAGATACGGTCATTAGGTTT+GGG 0.426468 1.2:-77737479 None:intergenic
TCTGGGTACACACCATCCTT+AGG 0.434810 1.2:-77737926 None:intergenic
TGACCAACCCCTTGGCGACC+CGG 0.439253 1.2:-77737959 None:intergenic
TCTATAGAGTGTTTCCCAAT+GGG 0.441504 1.2:+77737885 MS.gene26910:CDS
AGAGAGAGGAGGGGTGAAGA+GGG 0.442080 1.2:-77737453 None:intergenic
ATCCAAACCCTCTCAGTCTT+AGG 0.461548 1.2:+77737540 MS.gene26910:CDS
AAGTATTGAACTTCCCCATT+GGG 0.462594 1.2:-77737899 None:intergenic
TACATAAAATTCCTCAACTT+GGG 0.465412 1.2:-77737705 None:intergenic
TAAGAATGTTAGTCCTATAG+AGG 0.473752 1.2:+77738000 MS.gene26910:CDS
GTTTGGGACCAGAGAGAGGA+GGG 0.477785 1.2:-77737463 None:intergenic
CAGAGAGAGGAGGGGTGAAG+AGG 0.479426 1.2:-77737454 None:intergenic
CAAATCTTTGAAATGCCTAC+TGG 0.482126 1.2:+77737752 MS.gene26910:CDS
ATGTTTGTGTCTTACTCAGG+TGG 0.482467 1.2:-77737635 None:intergenic
GACCCGGGTTCACTTTCTCT+GGG 0.486087 1.2:-77737943 None:intergenic
GAGAGGAGGGGTGAAGAGGG+AGG 0.499448 1.2:-77737450 None:intergenic
AAAGTGAACCCGGGTCGCCA+AGG 0.500800 1.2:+77737950 MS.gene26910:CDS
TTACATAAAATTCCTCAACT+TGG 0.508639 1.2:-77737706 None:intergenic
TCAGGTGGGGTGAAGCCAAT+TGG 0.510396 1.2:-77737620 None:intergenic
GAAGCAACAGAGGCACCAAT+TGG 0.510520 1.2:+77737605 MS.gene26910:CDS
AACCCGGGTCGCCAAGGGGT+TGG 0.516971 1.2:+77737956 MS.gene26910:CDS
GACCAACCCCTTGGCGACCC+GGG 0.524362 1.2:-77737958 None:intergenic
AATGTGGGTGATTGTTTCCA+TGG 0.524862 1.2:-77737506 None:intergenic
TTCTATAGAGTGTTTCCCAA+TGG 0.534519 1.2:+77737884 MS.gene26910:CDS
CAAGTATTGAACTTCCCCAT+TGG 0.539423 1.2:-77737900 None:intergenic
TGTTTGTGTCTTACTCAGGT+GGG 0.540009 1.2:-77737634 None:intergenic
TGGATTGGTGAAGGACAATG+TGG 0.545639 1.2:-77737522 None:intergenic
TGGCTCTTGGAACTACATTG+AGG 0.549525 1.2:+77737837 MS.gene26910:CDS
AAGTGAACCCGGGTCGCCAA+GGG 0.549528 1.2:+77737951 MS.gene26910:CDS
GTTTCCATGGTACAGAGATA+CGG 0.551001 1.2:-77737493 None:intergenic
GGTTTGGGACCAGAGAGAGG+AGG 0.559759 1.2:-77737464 None:intergenic
ATTGGGACCTTCCCTCATGA+TGG 0.564788 1.2:-77737783 None:intergenic
GTACCCAGAGAAAGTGAACC+CGG 0.564935 1.2:+77737940 MS.gene26910:CDS
GAGAGGGTTTGGATTGGTGA+AGG 0.565450 1.2:-77737531 None:intergenic
CAAAACAACAACTGTTACTG+AGG 0.567600 1.2:+77737583 MS.gene26910:CDS
TAAAGTTCTGACCAACCCCT+TGG 0.570035 1.2:-77737967 None:intergenic
AGTTCAATACTTGCATCCTA+AGG 0.578655 1.2:+77737910 MS.gene26910:CDS
GTTTGTGTCTTACTCAGGTG+GGG 0.582440 1.2:-77737633 None:intergenic
CCAATCTTCTCAAGTTAGCA+AGG 0.583877 1.2:+77737801 MS.gene26910:CDS
CAATACTTGCATCCTAAGGA+TGG 0.585635 1.2:+77737914 MS.gene26910:CDS
AAGACTGAGAGGGTTTGGAT+TGG 0.585730 1.2:-77737537 None:intergenic
CTGGTGGTGCAGCCATCATG+AGG 0.591206 1.2:+77737771 MS.gene26910:CDS
GAGGGAGGTTTGAGTTGCCG+TGG 0.592804 1.2:-77737435 None:intergenic
CCTATAGAGGTTAAGTTCAG+TGG 0.595489 1.2:+77738013 MS.gene26910:CDS
AAACCACCTCACAATGGCCA+CGG 0.601200 1.2:+77737418 None:intergenic
TTAGGTTTGGGACCAGAGAG+AGG 0.606251 1.2:-77737467 None:intergenic
TTTGGGACCAGAGAGAGGAG+GGG 0.614499 1.2:-77737462 None:intergenic
GGTGCAGCCATCATGAGGGA+AGG 0.635464 1.2:+77737776 MS.gene26910:CDS
TTGTGAGCCTAAGACTGAGA+GGG 0.636675 1.2:-77737547 None:intergenic
ATGATGGCTGCACCACCAGT+AGG 0.647307 1.2:-77737767 None:intergenic
TTTACGCAAAGCCCAAGTTG+AGG 0.649694 1.2:+77737694 MS.gene26910:CDS
CTATAGAGTGTTTCCCAATG+GGG 0.656977 1.2:+77737886 MS.gene26910:CDS
AGTGAACCCGGGTCGCCAAG+GGG 0.658596 1.2:+77737952 MS.gene26910:CDS
ATCTTTGAAATGCCTACTGG+TGG 0.664160 1.2:+77737755 MS.gene26910:CDS
TGTTACTGAGGAAGCAACAG+AGG 0.671184 1.2:+77737595 MS.gene26910:CDS
TGGTGGTGCAGCCATCATGA+GGG 0.675901 1.2:+77737772 MS.gene26910:CDS
ATTGTGAGCCTAAGACTGAG+AGG 0.683773 1.2:-77737548 None:intergenic
TACCCAGAGAAAGTGAACCC+GGG 0.686978 1.2:+77737941 MS.gene26910:CDS
ATGACCGTATCTCTGTACCA+TGG 0.695290 1.2:+77737489 MS.gene26910:CDS
GGATTGGTGAAGGACAATGT+GGG 0.717553 1.2:-77737521 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATTTCAAAGATTTGTTCTTT+TGG - chr1.2:77737746-77737765 None:intergenic 20.0%
! TACATAAAATTCCTCAACTT+GGG - chr1.2:77737708-77737727 None:intergenic 25.0%
! TTACATAAAATTCCTCAACT+TGG - chr1.2:77737709-77737728 None:intergenic 25.0%
!! AGGAATTTTATGTAATCACA+TGG + chr1.2:77737714-77737733 MS.gene26910:CDS 25.0%
!! GGAATTTTATGTAATCACAT+GGG + chr1.2:77737715-77737734 MS.gene26910:CDS 25.0%
TAAGAATGTTAGTCCTATAG+AGG + chr1.2:77738000-77738019 MS.gene26910:CDS 30.0%
AGCAAGGAAAGAACAATGTT+TGG + chr1.2:77737817-77737836 MS.gene26910:CDS 35.0%
AGTTCAATACTTGCATCCTA+AGG + chr1.2:77737910-77737929 MS.gene26910:CDS 35.0%
CAAAACAACAACTGTTACTG+AGG + chr1.2:77737583-77737602 MS.gene26910:CDS 35.0%
CTTGCTAACTTGAGAAGATT+GGG - chr1.2:77737803-77737822 None:intergenic 35.0%
TGGGAAACACTCTATAGAAT+TGG - chr1.2:77737883-77737902 None:intergenic 35.0%
! TCTATAGAGTGTTTCCCAAT+GGG + chr1.2:77737885-77737904 MS.gene26910:CDS 35.0%
! TTCTATAGAGTGTTTCCCAA+TGG + chr1.2:77737884-77737903 MS.gene26910:CDS 35.0%
!! AAAGAACAATGTTTGGCTCT+TGG + chr1.2:77737824-77737843 MS.gene26910:CDS 35.0%
!! AAGTATTGAACTTCCCCATT+GGG - chr1.2:77737902-77737921 None:intergenic 35.0%
!! CAAATCTTTGAAATGCCTAC+TGG + chr1.2:77737752-77737771 MS.gene26910:CDS 35.0%
AATGTGGGTGATTGTTTCCA+TGG - chr1.2:77737509-77737528 None:intergenic 40.0%
AGAGATACGGTCATTAGGTT+TGG - chr1.2:77737483-77737502 None:intergenic 40.0%
AGTACTGCCACTGAAAATTG+GGG - chr1.2:77737666-77737685 None:intergenic 40.0%
ATGTTTGTGTCTTACTCAGG+TGG - chr1.2:77737638-77737657 None:intergenic 40.0%
CAATACTTGCATCCTAAGGA+TGG + chr1.2:77737914-77737933 MS.gene26910:CDS 40.0%
CAGTACTGCCACTGAAAATT+GGG - chr1.2:77737667-77737686 None:intergenic 40.0%
CCAATCTTCTCAAGTTAGCA+AGG + chr1.2:77737801-77737820 MS.gene26910:CDS 40.0%
CCACTGAACTTAACCTCTAT+AGG - chr1.2:77738016-77738035 None:intergenic 40.0%
CCTATAGAGGTTAAGTTCAG+TGG + chr1.2:77738013-77738032 MS.gene26910:CDS 40.0%
CCTTGCTAACTTGAGAAGAT+TGG - chr1.2:77737804-77737823 None:intergenic 40.0%
GAGATACGGTCATTAGGTTT+GGG - chr1.2:77737482-77737501 None:intergenic 40.0%
GGAATGTTTGTGTCTTACTC+AGG - chr1.2:77737641-77737660 None:intergenic 40.0%
GGTCAGAACTTTAGGTCTAT+TGG + chr1.2:77737977-77737996 MS.gene26910:CDS 40.0%
GTTTCCATGGTACAGAGATA+CGG - chr1.2:77737496-77737515 None:intergenic 40.0%
TGTTTGTGTCTTACTCAGGT+GGG - chr1.2:77737637-77737656 None:intergenic 40.0%
! CTATAGAGTGTTTCCCAATG+GGG + chr1.2:77737886-77737905 MS.gene26910:CDS 40.0%
!! ATCTTTGAAATGCCTACTGG+TGG + chr1.2:77737755-77737774 MS.gene26910:CDS 40.0%
!! CAAGTATTGAACTTCCCCAT+TGG - chr1.2:77737903-77737922 None:intergenic 40.0%
AAGACTGAGAGGGTTTGGAT+TGG - chr1.2:77737540-77737559 None:intergenic 45.0%
ATCCAAACCCTCTCAGTCTT+AGG + chr1.2:77737540-77737559 MS.gene26910:CDS 45.0%
ATGACCGTATCTCTGTACCA+TGG + chr1.2:77737489-77737508 MS.gene26910:CDS 45.0%
ATTGTGAGCCTAAGACTGAG+AGG - chr1.2:77737551-77737570 None:intergenic 45.0%
CAACTTGGGCTTTGCGTAAA+AGG - chr1.2:77737694-77737713 None:intergenic 45.0%
CCAGTACTGCCACTGAAAAT+TGG - chr1.2:77737668-77737687 None:intergenic 45.0%
GGTACAGAGATACGGTCATT+AGG - chr1.2:77737488-77737507 None:intergenic 45.0%
GTTTGTGTCTTACTCAGGTG+GGG - chr1.2:77737636-77737655 None:intergenic 45.0%
TGGCTCTTGGAACTACATTG+AGG + chr1.2:77737837-77737856 MS.gene26910:CDS 45.0%
TGTTACTGAGGAAGCAACAG+AGG + chr1.2:77737595-77737614 MS.gene26910:CDS 45.0%
TTGTGAGCCTAAGACTGAGA+GGG - chr1.2:77737550-77737569 None:intergenic 45.0%
TTTACGCAAAGCCCAAGTTG+AGG + chr1.2:77737694-77737713 MS.gene26910:CDS 45.0%
! ATTCCCTCCCCAATTTTCAG+TGG + chr1.2:77737656-77737675 MS.gene26910:intron 45.0%
! CCAATTTTCAGTGGCAGTAC+TGG + chr1.2:77737665-77737684 MS.gene26910:intron 45.0%
! GGATTGGTGAAGGACAATGT+GGG - chr1.2:77737524-77737543 None:intergenic 45.0%
! TAAAGTTCTGACCAACCCCT+TGG - chr1.2:77737970-77737989 None:intergenic 45.0%
!! AAGGGGTTGGTCAGAACTTT+AGG + chr1.2:77737969-77737988 MS.gene26910:CDS 45.0%
!! ATTTTCAGTGGCAGTACTGG+AGG + chr1.2:77737668-77737687 MS.gene26910:intron 45.0%
!! TGGATTGGTGAAGGACAATG+TGG - chr1.2:77737525-77737544 None:intergenic 45.0%
ACTGCCACTGAAAATTGGGG+AGG - chr1.2:77737663-77737682 None:intergenic 50.0%
AGCCTAAGACTGAGAGGGTT+TGG - chr1.2:77737545-77737564 None:intergenic 50.0%
ATTGGGACCTTCCCTCATGA+TGG - chr1.2:77737786-77737805 None:intergenic 50.0%
CTGCCACTGAAAATTGGGGA+GGG - chr1.2:77737662-77737681 None:intergenic 50.0%
GTACCCAGAGAAAGTGAACC+CGG + chr1.2:77737940-77737959 MS.gene26910:CDS 50.0%
TACCCAGAGAAAGTGAACCC+GGG + chr1.2:77737941-77737960 MS.gene26910:CDS 50.0%
TCTGGGTACACACCATCCTT+AGG - chr1.2:77737929-77737948 None:intergenic 50.0%
! TTAGGTTTGGGACCAGAGAG+AGG - chr1.2:77737470-77737489 None:intergenic 50.0%
!! GAAGCAACAGAGGCACCAAT+TGG + chr1.2:77737605-77737624 MS.gene26910:CDS 50.0%
!! GAGAGGGTTTGGATTGGTGA+AGG - chr1.2:77737534-77737553 None:intergenic 50.0%
AGAGAGAGGAGGGGTGAAGA+GGG - chr1.2:77737456-77737475 None:intergenic 55.0%
ATGATGGCTGCACCACCAGT+AGG - chr1.2:77737770-77737789 None:intergenic 55.0%
GACCCGGGTTCACTTTCTCT+GGG - chr1.2:77737946-77737965 None:intergenic 55.0%
TCAGGTGGGGTGAAGCCAAT+TGG - chr1.2:77737623-77737642 None:intergenic 55.0%
! GTTTGGGACCAGAGAGAGGA+GGG - chr1.2:77737466-77737485 None:intergenic 55.0%
! TGGTGGTGCAGCCATCATGA+GGG + chr1.2:77737772-77737791 MS.gene26910:CDS 55.0%
! TTTGGGACCAGAGAGAGGAG+GGG - chr1.2:77737465-77737484 None:intergenic 55.0%
AAAGTGAACCCGGGTCGCCA+AGG + chr1.2:77737950-77737969 MS.gene26910:CDS 60.0%
AAGTGAACCCGGGTCGCCAA+GGG + chr1.2:77737951-77737970 MS.gene26910:CDS 60.0%
CAGAGAGAGGAGGGGTGAAG+AGG - chr1.2:77737457-77737476 None:intergenic 60.0%
CGACCCGGGTTCACTTTCTC+TGG - chr1.2:77737947-77737966 None:intergenic 60.0%
CTCTTCACCCCTCCTCTCTC+TGG + chr1.2:77737455-77737474 MS.gene26910:CDS 60.0%
GGTGCAGCCATCATGAGGGA+AGG + chr1.2:77737776-77737795 MS.gene26910:CDS 60.0%
! CTGGTGGTGCAGCCATCATG+AGG + chr1.2:77737771-77737790 MS.gene26910:CDS 60.0%
! GGTTTGGGACCAGAGAGAGG+AGG - chr1.2:77737467-77737486 None:intergenic 60.0%
!! GAGGGAGGTTTGAGTTGCCG+TGG - chr1.2:77737438-77737457 None:intergenic 60.0%
AGTGAACCCGGGTCGCCAAG+GGG + chr1.2:77737952-77737971 MS.gene26910:CDS 65.0%
GAGAGGAGGGGTGAAGAGGG+AGG - chr1.2:77737453-77737472 None:intergenic 65.0%
TGACCAACCCCTTGGCGACC+CGG - chr1.2:77737962-77737981 None:intergenic 65.0%
AACCCGGGTCGCCAAGGGGT+TGG + chr1.2:77737956-77737975 MS.gene26910:CDS 70.0%
GACCAACCCCTTGGCGACCC+GGG - chr1.2:77737961-77737980 None:intergenic 70.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 77737431 77738057 77737431 ID=MS.gene26910
chr1.2 mRNA 77737431 77738057 77737431 ID=MS.gene26910.t1;Parent=MS.gene26910
chr1.2 exon 77737431 77737642 77737431 ID=MS.gene26910.t1.exon1;Parent=MS.gene26910.t1
chr1.2 CDS 77737431 77737642 77737431 ID=cds.MS.gene26910.t1;Parent=MS.gene26910.t1
chr1.2 exon 77737676 77738057 77737676 ID=MS.gene26910.t1.exon2;Parent=MS.gene26910.t1
chr1.2 CDS 77737676 77738057 77737676 ID=cds.MS.gene26910.t1;Parent=MS.gene26910.t1
Gene Sequence

>MS.gene26910

ATGGCCACGGCAACTCAAACCTCCCTCTTCACCCCTCCTCTCTCTGGTCCCAAACCTAATGACCGTATCTCTGTACCATGGAAACAATCACCCACATTGTCCTTCACCAATCCAAACCCTCTCAGTCTTAGGCTCACAATTTCAAGAAACATCAAAACAACAACTGTTACTGAGGAAGCAACAGAGGCACCAATTGGCTTCACCCCACCTGAGTAAGACACAAACATTCCCTCCCCAATTTTCAGTGGCAGTACTGGAGGCCTTTTACGCAAAGCCCAAGTTGAGGAATTTTATGTAATCACATGGGATTCACCAAAAGAACAAATCTTTGAAATGCCTACTGGTGGTGCAGCCATCATGAGGGAAGGTCCCAATCTTCTCAAGTTAGCAAGGAAAGAACAATGTTTGGCTCTTGGAACTACATTGAGGTCAAAGTACAAGATCAAGTACCAATTCTATAGAGTGTTTCCCAATGGGGAAGTTCAATACTTGCATCCTAAGGATGGTGTGTACCCAGAGAAAGTGAACCCGGGTCGCCAAGGGGTTGGTCAGAACTTTAGGTCTATTGGTAAGAATGTTAGTCCTATAGAGGTTAAGTTCAGTGGCAAGCAAGTGCATGAATTGTGA

Protein sequence

>MS.gene26910.t1

MATATQTSLFTPPLSGPKPNDRISVPWKQSPTLSFTNPNPLSLRLTISRNIKTTTVTEEATEAPIGFTPPDGSTGGLLRKAQVEEFYVITWDSPKEQIFEMPTGGAAIMREGPNLLKLARKEQCLALGTTLRSKYKIKYQFYRVFPNGEVQYLHPKDGVYPEKVNPGRQGVGQNFRSIGKNVSPIEVKFSGKQVHEL