AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0580028958.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028958.01.T01 MTR_5g078780 93.182 176 12 0 2 177 432 607 1.20e-118 348
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0580028958.01.T01 AT2G17250 69.159 107 33 0 35 141 462 568 4.79e-49 167

Find 38 sgRNAs with CRISPR-Local

Find 93 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AATGGTCAAGGCCTGATTTC+TGG 0.177335 5:-89581262 None:intergenic
CTTGAGCAGGAAGCTCTCTT+TGG 0.255727 5:+89581741 MsG0580028958.01.T01:intron
TTTAGGTTTGCTTTGTCTCT+TGG 0.268396 5:+89581927 MsG0580028958.01.T01:intron
CAGATTCCTCAATGTTAAAA+TGG 0.289979 5:-89581280 None:intergenic
GAACGGGGCTAAAGATTTAT+TGG 0.290532 5:+89582560 MsG0580028958.01.T01:CDS
TTAGGTTTGCTTTGTCTCTT+GGG 0.321498 5:+89581928 MsG0580028958.01.T01:intron
GCTTCTTATGCAACAATACT+TGG 0.323139 5:+89582008 MsG0580028958.01.T01:CDS
CTGCAGATACTTGAGATATA+TGG 0.357343 5:+89582763 MsG0580028958.01.T01:three_prime_UTR
CTAATTTCTGATATTTGAAC+AGG 0.389494 5:+89581154 None:intergenic
AAAACAAGCGAAGTTAATAT+TGG 0.391828 5:+89581972 MsG0580028958.01.T01:CDS
TTGAGCAGGAAGCTCTCTTT+GGG 0.394155 5:+89581742 MsG0580028958.01.T01:intron
CGAAGAGACTGCTTCTAACT+TGG 0.405411 5:+89581211 MsG0580028958.01.T01:CDS
GCAAAGCTCTGCCAGAAATC+AGG 0.417403 5:+89581251 MsG0580028958.01.T01:CDS
GTGAAATTAAAATGTTTGTT+TGG 0.426506 5:+89582654 MsG0580028958.01.T01:three_prime_UTR
TCATCGACAATAATGAGAAC+GGG 0.429049 5:+89582544 MsG0580028958.01.T01:CDS
CTCATAGCGCCTGACTTCAT+AGG 0.448545 5:-89581305 None:intergenic
CAAAACACTTACCGTGAGAC+AGG 0.494028 5:-89581797 None:intergenic
GAATCTGATCCTATGAAGTC+AGG 0.505902 5:+89581296 MsG0580028958.01.T01:CDS
TTCTCTGAAAAGAGAGAGGA+TGG 0.507254 5:-89582474 None:intergenic
GATTACACGGAGGGTGAAGC+AGG 0.509973 5:+89582425 MsG0580028958.01.T01:intron
GGCTAAAGATTTATTGGACC+AGG 0.548798 5:+89582566 MsG0580028958.01.T01:CDS
AACTTGGATAATACTCAGAA+TGG 0.551493 5:+89581227 MsG0580028958.01.T01:CDS
TTGCACCATTGCAGATTACA+CGG 0.577570 5:+89582412 MsG0580028958.01.T01:intron
CCTCAATGTTAAAATGGTCA+AGG 0.580409 5:-89581274 None:intergenic
AGACAGGAGGACAGTAGTGG+TGG 0.591867 5:-89581781 None:intergenic
ACCATTGCAGATTACACGGA+GGG 0.596485 5:+89582416 MsG0580028958.01.T01:intron
TTATGCAACAATACTTGGAG+CGG 0.600906 5:+89582013 MsG0580028958.01.T01:CDS
AGAAGTAATACGTCTAGCGG+AGG 0.603896 5:+89582817 MsG0580028958.01.T01:three_prime_UTR
TGCAACAATACTTGGAGCGG+AGG 0.610817 5:+89582016 MsG0580028958.01.T01:CDS
ATCATCGACAATAATGAGAA+CGG 0.612651 5:+89582543 MsG0580028958.01.T01:CDS
AAAAGAAGTAATACGTCTAG+CGG 0.612735 5:+89582814 MsG0580028958.01.T01:three_prime_UTR
ATCATTCTCTGAAAAGAGAG+AGG 0.615510 5:-89582478 None:intergenic
ACTACTGTCCTCCTGTCTCA+CGG 0.630327 5:+89581786 MsG0580028958.01.T01:CDS
GAAGTAATACGTCTAGCGGA+GGG 0.639426 5:+89582818 MsG0580028958.01.T01:three_prime_UTR
GTGAGACAGGAGGACAGTAG+TGG 0.650028 5:-89581784 None:intergenic
AACACTTACCGTGAGACAGG+AGG 0.675774 5:-89581794 None:intergenic
CATCGACAATAATGAGAACG+GGG 0.677716 5:+89582545 MsG0580028958.01.T01:CDS
CACCATTGCAGATTACACGG+AGG 0.732506 5:+89582415 MsG0580028958.01.T01:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! ATATTTTTTATTTTTCTGTT+GGG + Chr5:89582693-89582712 MsG0580028958.01.T01:three_prime_UTR 10.0%
!!! TATATTTTTTATTTTTCTGT+TGG + Chr5:89582692-89582711 MsG0580028958.01.T01:three_prime_UTR 10.0%
!! GTTTCTAATTTCTATAAAAT+TGG + Chr5:89582149-89582168 MsG0580028958.01.T01:intron 15.0%
!!! ATATATGGTAAATTTTGTAA+GGG + Chr5:89582778-89582797 MsG0580028958.01.T01:three_prime_UTR 15.0%
!! AAGATTAAATACAACAATGA+AGG - Chr5:89581854-89581873 None:intergenic 20.0%
!! ACAATACATGTAAAACTAAA+TGG - Chr5:89581501-89581520 None:intergenic 20.0%
!! CATGTATTGTTAATGTTATA+TGG + Chr5:89581511-89581530 MsG0580028958.01.T01:intron 20.0%
!! GTGAAATTAAAATGTTTGTT+TGG + Chr5:89582654-89582673 MsG0580028958.01.T01:three_prime_UTR 20.0%
!!! AACAAACATTTTAATTTCAC+AGG - Chr5:89582654-89582673 None:intergenic 20.0%
!!! AATTTTATTTTTGTCCTACA+AGG - Chr5:89582303-89582322 None:intergenic 20.0%
!!! CATTTTTGTATTTTGTATAC+TGG + Chr5:89582262-89582281 MsG0580028958.01.T01:intron 20.0%
!!! GATATATGGTAAATTTTGTA+AGG + Chr5:89582777-89582796 MsG0580028958.01.T01:three_prime_UTR 20.0%
!!! GTAAAAGCATATAATGTTTA+AGG - Chr5:89581900-89581919 None:intergenic 20.0%
! AAAACAAGCGAAGTTAATAT+TGG + Chr5:89581972-89581991 MsG0580028958.01.T01:CDS 25.0%
! AAATTTGCACAATAAGAGAA+TGG + Chr5:89582091-89582110 MsG0580028958.01.T01:intron 25.0%
! AACAAATTAAGCATGACATT+AGG + Chr5:89581623-89581642 MsG0580028958.01.T01:intron 25.0%
! ATAAAGGACGAAAAACAAAA+TGG - Chr5:89582049-89582068 None:intergenic 25.0%
! ATTCTCTTATTGTGCAAATT+TGG - Chr5:89582092-89582111 None:intergenic 25.0%
! TAAATACAACAATGAAGGAA+AGG - Chr5:89581849-89581868 None:intergenic 25.0%
! TATAAGGCACATTACTATAA+AGG - Chr5:89582065-89582084 None:intergenic 25.0%
! TTGTTAATGTTATATGGTCA+AGG + Chr5:89581517-89581536 MsG0580028958.01.T01:intron 25.0%
!! TTGAAGATCAAAATTTTCAC+CGG - Chr5:89582737-89582756 None:intergenic 25.0%
AAAAGAAGTAATACGTCTAG+CGG + Chr5:89582814-89582833 MsG0580028958.01.T01:three_prime_UTR 30.0%
AACTTGGATAATACTCAGAA+TGG + Chr5:89581227-89581246 MsG0580028958.01.T01:CDS 30.0%
ATCATCGACAATAATGAGAA+CGG + Chr5:89582543-89582562 MsG0580028958.01.T01:CDS 30.0%
CAGATTCCTCAATGTTAAAA+TGG - Chr5:89581283-89581302 None:intergenic 30.0%
CGTCTTATAGCTTACAATAT+TGG + Chr5:89581656-89581675 MsG0580028958.01.T01:intron 30.0%
CTTCATCAGCAAAACAAATA+AGG - Chr5:89581717-89581736 None:intergenic 30.0%
TAGGAAAAATAACACACTTC+AGG - Chr5:89581367-89581386 None:intergenic 30.0%
TTTCTGTTGGGAAAGAAAAA+AGG + Chr5:89582705-89582724 MsG0580028958.01.T01:three_prime_UTR 30.0%
! AACACACTTCAGGTTATATT+GGG - Chr5:89581357-89581376 None:intergenic 30.0%
! ATGCTTTTACTTGTGCTTTT+AGG + Chr5:89581910-89581929 MsG0580028958.01.T01:intron 30.0%
! CAAATAACTTTTCTCCTTGT+AGG + Chr5:89582286-89582305 MsG0580028958.01.T01:intron 30.0%
! GTGCAAATTTGGTGAATATA+AGG - Chr5:89582081-89582100 None:intergenic 30.0%
! TAACACACTTCAGGTTATAT+TGG - Chr5:89581358-89581377 None:intergenic 30.0%
! TGAAGATCAAAATTTTCACC+GGG - Chr5:89582736-89582755 None:intergenic 30.0%
! TTTTCAGAGAATGATTTTGC+TGG + Chr5:89582486-89582505 MsG0580028958.01.T01:CDS 30.0%
ATACATATTGCGTGAGTAAG+AGG + Chr5:89581463-89581482 MsG0580028958.01.T01:intron 35.0%
ATACTCATCCTTGTATCTTC+TGG + Chr5:89582382-89582401 MsG0580028958.01.T01:intron 35.0%
CAATGAAGGAAAGGAAAACA+AGG - Chr5:89581840-89581859 None:intergenic 35.0%
CCTCAATGTTAAAATGGTCA+AGG - Chr5:89581277-89581296 None:intergenic 35.0%
CTGCAGATACTTGAGATATA+TGG + Chr5:89582763-89582782 MsG0580028958.01.T01:three_prime_UTR 35.0%
GCTTCTTATGCAACAATACT+TGG + Chr5:89582008-89582027 MsG0580028958.01.T01:CDS 35.0%
TCATCGACAATAATGAGAAC+GGG + Chr5:89582544-89582563 MsG0580028958.01.T01:CDS 35.0%
TTATGCAACAATACTTGGAG+CGG + Chr5:89582013-89582032 MsG0580028958.01.T01:CDS 35.0%
! ACAGTTTTCCAATTTTCTCC+TGG - Chr5:89581397-89581416 None:intergenic 35.0%
! ATCATTCTCTGAAAAGAGAG+AGG - Chr5:89582481-89582500 None:intergenic 35.0%
! CTCAATTCGTTGTCTTTTAG+CGG - Chr5:89582601-89582620 None:intergenic 35.0%
! GAAGATCAAAATTTTCACCG+GGG - Chr5:89582735-89582754 None:intergenic 35.0%
! TATTTTTCCTAAACCAGACC+AGG + Chr5:89581376-89581395 MsG0580028958.01.T01:intron 35.0%
! TCAATTCGTTGTCTTTTAGC+GGG - Chr5:89582600-89582619 None:intergenic 35.0%
! TTAGGTTTGCTTTGTCTCTT+GGG + Chr5:89581928-89581947 MsG0580028958.01.T01:intron 35.0%
! TTTAGGTTTGCTTTGTCTCT+TGG + Chr5:89581927-89581946 MsG0580028958.01.T01:intron 35.0%
!! CCTTGACCATTTTAACATTG+AGG + Chr5:89581274-89581293 MsG0580028958.01.T01:CDS 35.0%
!! GTTGTTTTGTAGAATGCTAG+AGG - Chr5:89582453-89582472 None:intergenic 35.0%
!!! ACGGTAAGTGTTTTGATCTT+TGG + Chr5:89581805-89581824 MsG0580028958.01.T01:intron 35.0%
!!! TGTTTTTAGTCGTTCATCAG+TGG + Chr5:89582219-89582238 MsG0580028958.01.T01:intron 35.0%
AAACCAGACCAGGAGAAAAT+TGG + Chr5:89581386-89581405 MsG0580028958.01.T01:intron 40.0%
AGCAAGCATGCATTCATGTA+AGG - Chr5:89581572-89581591 None:intergenic 40.0%
CATCGACAATAATGAGAACG+GGG + Chr5:89582545-89582564 MsG0580028958.01.T01:CDS 40.0%
CGTTCATCAGTGGCTTATTA+AGG + Chr5:89582229-89582248 MsG0580028958.01.T01:intron 40.0%
CTGATGAAGATTTCTTGAGC+AGG + Chr5:89581728-89581747 MsG0580028958.01.T01:intron 40.0%
GAACGGGGCTAAAGATTTAT+TGG + Chr5:89582560-89582579 MsG0580028958.01.T01:CDS 40.0%
GAATCTGATCCTATGAAGTC+AGG + Chr5:89581296-89581315 MsG0580028958.01.T01:CDS 40.0%
GCAAGCATGCATTCATGTAA+GGG - Chr5:89581571-89581590 None:intergenic 40.0%
GGCTAAAGATTTATTGGACC+AGG + Chr5:89582566-89582585 MsG0580028958.01.T01:CDS 40.0%
TTGCACCATTGCAGATTACA+CGG + Chr5:89582412-89582431 MsG0580028958.01.T01:intron 40.0%
! CAATTCGTTGTCTTTTAGCG+GGG - Chr5:89582599-89582618 None:intergenic 40.0%
! CAGAGAATGATTTTGCTGGT+TGG + Chr5:89582490-89582509 MsG0580028958.01.T01:CDS 40.0%
! TTCTCTGAAAAGAGAGAGGA+TGG - Chr5:89582477-89582496 None:intergenic 40.0%
! TTTCCAATTTTCTCCTGGTC+TGG - Chr5:89581392-89581411 None:intergenic 40.0%
!! ATTTTCTCCTGGTCTGGTTT+AGG - Chr5:89581386-89581405 None:intergenic 40.0%
AATGGTCAAGGCCTGATTTC+TGG - Chr5:89581265-89581284 None:intergenic 45.0%
ACCATTGCAGATTACACGGA+GGG + Chr5:89582416-89582435 MsG0580028958.01.T01:intron 45.0%
AGAAGTAATACGTCTAGCGG+AGG + Chr5:89582817-89582836 MsG0580028958.01.T01:three_prime_UTR 45.0%
AGTCGTCACCAGAAGATACA+AGG - Chr5:89582393-89582412 None:intergenic 45.0%
CAAAACACTTACCGTGAGAC+AGG - Chr5:89581800-89581819 None:intergenic 45.0%
CGAAGAGACTGCTTCTAACT+TGG + Chr5:89581211-89581230 MsG0580028958.01.T01:CDS 45.0%
GAAGTAATACGTCTAGCGGA+GGG + Chr5:89582818-89582837 MsG0580028958.01.T01:three_prime_UTR 45.0%
TTGAGCAGGAAGCTCTCTTT+GGG + Chr5:89581742-89581761 MsG0580028958.01.T01:intron 45.0%
! GAAAGAAAAAAGGCATGCCC+CGG + Chr5:89582715-89582734 MsG0580028958.01.T01:three_prime_UTR 45.0%
AACACTTACCGTGAGACAGG+AGG - Chr5:89581797-89581816 None:intergenic 50.0%
ACCCTCCGTGTAATCTGCAA+TGG - Chr5:89582420-89582439 None:intergenic 50.0%
ACTACTGTCCTCCTGTCTCA+CGG + Chr5:89581786-89581805 MsG0580028958.01.T01:CDS 50.0%
CACCATTGCAGATTACACGG+AGG + Chr5:89582415-89582434 MsG0580028958.01.T01:intron 50.0%
CTCATAGCGCCTGACTTCAT+AGG - Chr5:89581308-89581327 None:intergenic 50.0%
CTTGAGCAGGAAGCTCTCTT+TGG + Chr5:89581741-89581760 MsG0580028958.01.T01:intron 50.0%
GCAAAGCTCTGCCAGAAATC+AGG + Chr5:89581251-89581270 MsG0580028958.01.T01:CDS 50.0%
TGCAACAATACTTGGAGCGG+AGG + Chr5:89582016-89582035 MsG0580028958.01.T01:CDS 50.0%
AGACAGGAGGACAGTAGTGG+TGG - Chr5:89581784-89581803 None:intergenic 55.0%
GATTACACGGAGGGTGAAGC+AGG + Chr5:89582425-89582444 MsG0580028958.01.T01:intron 55.0%
GTGAGACAGGAGGACAGTAG+TGG - Chr5:89581787-89581806 None:intergenic 55.0%
! TTTTAGCGGGGCTGTGTTCC+TGG - Chr5:89582587-89582606 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr5 gene 89581161 89582850 89581161 ID=MsG0580028958.01;Name=MsG0580028958.01
Chr5 mRNA 89581161 89582850 89581161 ID=MsG0580028958.01.T01;Parent=MsG0580028958.01;Name=MsG0580028958.01.T01;_AED=0.46;_eAED=0.46;_QI=0|1|0.75|1|1|1|4|221|177
Chr5 exon 89581161 89581326 89581161 ID=MsG0580028958.01.T01:exon:25975;Parent=MsG0580028958.01.T01
Chr5 exon 89581750 89581807 89581750 ID=MsG0580028958.01.T01:exon:25976;Parent=MsG0580028958.01.T01
Chr5 exon 89581932 89582037 89581932 ID=MsG0580028958.01.T01:exon:25977;Parent=MsG0580028958.01.T01
Chr5 exon 89582426 89582850 89582426 ID=MsG0580028958.01.T01:exon:25978;Parent=MsG0580028958.01.T01
Chr5 CDS 89581161 89581326 89581161 ID=MsG0580028958.01.T01:cds;Parent=MsG0580028958.01.T01
Chr5 CDS 89581750 89581807 89581750 ID=MsG0580028958.01.T01:cds;Parent=MsG0580028958.01.T01
Chr5 CDS 89581932 89582037 89581932 ID=MsG0580028958.01.T01:cds;Parent=MsG0580028958.01.T01
Chr5 CDS 89582426 89582629 89582426 ID=MsG0580028958.01.T01:cds;Parent=MsG0580028958.01.T01
Chr5 three_prime_UTR 89582630 89582850 89582630 ID=MsG0580028958.01.T01:three_prime_utr;Parent=MsG0580028958.01.T01
Gene Sequence

>MsG0580028958.01.T01

CTGATATTTGAACAGGAAGAAGTTAATGAAGACACTGAACAAAGAACAGACGAAGAGACTGCTTCTAACTTGGATAATACTCAGAATGGTGCAAAGCTCTGCCAGAAATCAGGCCTTGACCATTTTAACATTGAGGAATCTGATCCTATGAAGTCAGGCGCTATGAGAAGCTCTCTTTGGGAAATTGATACTGCTCTCCACCACTACTGTCCTCCTGTCTCACGGTTTGCTTTGTCTCTTGGGACTGATTTGACAGTCAGAGCAAAAACAAGCGAAGTTAATATTGGTGATTTTAGTGCTGCTTCTTATGCAACAATACTTGGAGCGGAGATTACACGGAGGGTGAAGCAGGTTCCTCTAGCATTCTACAAAACAACTCCATCCTCTCTCTTTTCAGAGAATGATTTTGCTGGTTGGACTTTCAAATGTGAAGAAAATTCTGAAACGATCATCGACAATAATGAGAACGGGGCTAAAGATTTATTGGACCAGGAACACAGCCCCGCTAAAAGACAACGAATTGAGTGTCAGTGA
Protein sequence

>MsG0580028958.01.T01

LIFEQEEVNEDTEQRTDEETASNLDNTQNGAKLCQKSGLDHFNIEESDPMKSGAMRSSLWEIDTALHHYCPPVSRFALSLGTDLTVRAKTSEVNIGDFSAASYATILGAEITRRVKQVPLAFYKTTPSSLFSENDFAGWTFKCEENSETIIDNNENGAKDLLDQEHSPAKRQRIECQ*