AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059048

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059048.t1 MTR_2g035220 96.815 157 5 0 1 157 1 157 3.97e-107 302
MS.gene059048.t1 MTR_2g035210 93.631 157 10 0 1 157 1 157 4.03e-104 295
MS.gene059048.t1 MTR_2g035190 90.446 157 15 0 1 157 1 157 1.97e-99 283
MS.gene059048.t1 MTR_2g035320 87.898 157 19 0 1 157 1 157 9.16e-98 278
MS.gene059048.t1 MTR_6g033450 66.879 157 52 0 1 157 1 157 4.37e-69 206
MS.gene059048.t1 MTR_4g120970 66.879 157 52 0 1 157 1 157 4.37e-69 206
MS.gene059048.t1 MTR_2g035100 63.057 157 58 0 1 157 1 157 4.27e-65 196
MS.gene059048.t1 MTR_2g035150 64.331 157 56 0 1 157 1 157 8.79e-65 195
MS.gene059048.t1 MTR_2g035105 62.420 157 59 0 1 157 1 157 3.34e-64 194
MS.gene059048.t1 MTR_2g035130 60.510 157 62 0 1 157 1 157 8.50e-62 187
MS.gene059048.t1 MTR_2g035120 59.236 157 64 0 1 157 1 157 2.54e-59 181
MS.gene059048.t1 MTR_2g035320 87.500 96 12 0 62 157 27 122 3.61e-57 174
MS.gene059048.t1 MTR_2g035170 49.315 146 74 0 12 157 12 157 1.60e-47 151
MS.gene059048.t1 MTR_4g120760 34.395 157 102 1 1 156 1 157 2.78e-31 110
MS.gene059048.t1 MTR_4g120760 34.395 157 102 1 1 156 1 157 3.24e-31 110
MS.gene059048.t1 MTR_2g435310 31.410 156 106 1 1 155 1 156 5.08e-30 107
MS.gene059048.t1 MTR_4g120950 40.373 161 89 5 1 157 1 158 9.88e-30 106
MS.gene059048.t1 MTR_4g120940 65.753 73 25 0 85 157 47 119 3.73e-24 90.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 45 sgRNAs with CRISPR-Local

Find 94 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TATACATTTACTTAATAATT+AGG 0.132764 2.4:+55982654 None:intergenic
GATAATTTCTTGATGGTTCC+AGG 0.292734 2.4:+55984038 None:intergenic
TGGGCAGCTGGAATCACCTT+TGG 0.317415 2.4:+55984092 None:intergenic
CTTGATAAGTCCAGTTCCTT+TGG 0.324632 2.4:+55982704 None:intergenic
GGGCAGCTGGAATCACCTTT+GGG 0.327572 2.4:+55984093 None:intergenic
GGCCATTGAGGGCTACGTTT+TGG 0.338863 2.4:-55982682 MS.gene059048:CDS
ATACATTTACTTAATAATTA+GGG 0.345110 2.4:+55982655 None:intergenic
TTCAACAATTTCAACACTTT+GGG 0.350751 2.4:+55984073 None:intergenic
CTTCAACAATTTCAACACTT+TGG 0.364915 2.4:+55984072 None:intergenic
AAGTCCAGTTCCTTTGGCTT+TGG 0.382566 2.4:+55982710 None:intergenic
AGAGCTTTGTAGAGTTTAGC+TGG 0.394931 2.4:+55984140 None:intergenic
GTTGAAATTGTTGAAGGAAA+TGG 0.402462 2.4:-55984065 MS.gene059048:CDS
ATTTCAACACTTTGGGCAGC+TGG 0.408726 2.4:+55984080 None:intergenic
AGCAGTCGATGAGGCAAACT+TGG 0.409910 2.4:-55982901 MS.gene059048:CDS
AGATAGAGTTGCATCACCTT+TGG 0.412652 2.4:+55982752 None:intergenic
AGACATGGATAATTTCTTGA+TGG 0.415791 2.4:+55984031 None:intergenic
GAGACCAAAGCCAAAGGAAC+TGG 0.425614 2.4:-55982714 MS.gene059048:CDS
AGTGTTGTGGCTGGCTCTGA+TGG 0.429803 2.4:-55982810 MS.gene059048:CDS
TATAGCATAGTAGGAGGAAC+AGG 0.432305 2.4:-55982870 MS.gene059048:CDS
GGATACAACTATAGCATAGT+AGG 0.470749 2.4:-55982879 MS.gene059048:CDS
CAAAGGAACTGGACTTATCA+AGG 0.497615 2.4:-55982703 MS.gene059048:CDS
CAAAGTGTTGAAATTGTTGA+AGG 0.502542 2.4:-55984071 MS.gene059048:CDS
GGACTTATCAAGGCCATTGA+GGG 0.514208 2.4:-55982693 MS.gene059048:CDS
TGCCAAAACGTAGCCCTCAA+TGG 0.516239 2.4:+55982680 None:intergenic
GTTGTGGCTGGCTCTGATGG+TGG 0.516642 2.4:-55982807 MS.gene059048:CDS
TTGTGGCTGGCTCTGATGGT+GGG 0.520055 2.4:-55982806 MS.gene059048:CDS
CATAGTAGGAGGAACAGGAT+TGG 0.544201 2.4:-55982865 MS.gene059048:CDS
TGGACTTATCAAGGCCATTG+AGG 0.572485 2.4:-55982694 MS.gene059048:CDS
GTTGAAGGAAATGGAGGACC+TGG 0.574664 2.4:-55984056 MS.gene059048:CDS
TTTCACTGAAATCTTAACAA+TGG 0.575851 2.4:+55982782 None:intergenic
TAATTTGTGTAGCACAAAGT+CGG 0.587472 2.4:+55982926 None:intergenic
TTCGAGACAAGTGTTGTGGC+TGG 0.589865 2.4:-55982819 MS.gene059048:CDS
AAGAAATTATCCATGTCTGA+AGG 0.597444 2.4:-55984026 MS.gene059048:intron
TAATCAATTACCTTCAGACA+TGG 0.598263 2.4:+55984016 None:intergenic
TGCTGATGAAATCATCCCAA+AGG 0.616025 2.4:-55984108 MS.gene059048:CDS
GCAGTCGATGAGGCAAACTT+GGG 0.618301 2.4:-55982900 MS.gene059048:CDS
GAAATTGTTGAAGGAAATGG+AGG 0.626795 2.4:-55984062 MS.gene059048:CDS
GAGTTGCATCACCTTTGGTG+TGG 0.638190 2.4:+55982757 None:intergenic
TACAACTATAGCATAGTAGG+AGG 0.648903 2.4:-55982876 MS.gene059048:CDS
CAAATTAGAAGCAGTCGATG+AGG 0.651850 2.4:-55982910 MS.gene059048:CDS
TGAATTCGAGACAAGTGTTG+TGG 0.660471 2.4:-55982823 MS.gene059048:CDS
TCAGTGAAATACCACACCAA+AGG 0.661287 2.4:-55982768 MS.gene059048:CDS
CGTGAGGAGACCAAAGCCAA+AGG 0.666854 2.4:-55982720 MS.gene059048:CDS
TCTATCTGAAGCAGTACGTG+AGG 0.676642 2.4:-55982736 MS.gene059048:CDS
TGATGAACATGTCTCAACTG+TGG 0.723859 2.4:-55984165 MS.gene059048:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATAAATAAATAATAAATAA+CGG - chr2.4:55983096-55983115 MS.gene059048:intron 0.0%
!! AATTTGTATATAAATTATGA+TGG - chr2.4:55983881-55983900 MS.gene059048:intron 10.0%
!! ATTTGTATATAAATTATGAT+GGG - chr2.4:55983882-55983901 MS.gene059048:intron 10.0%
!!! ACATAAATTTTTAGTAAATT+TGG + chr2.4:55983155-55983174 None:intergenic 10.0%
!!! TTAAATTTTATTTGCATTTA+AGG - chr2.4:55983853-55983872 MS.gene059048:intron 10.0%
!! AAAATGAATGATCAAATTAT+AGG - chr2.4:55983331-55983350 MS.gene059048:intron 15.0%
!! AAGAAACTATAACATTTAAA+CGG - chr2.4:55983713-55983732 MS.gene059048:intron 15.0%
!! AATTTAACTAAAGATTGTTT+CGG + chr2.4:55983840-55983859 None:intergenic 15.0%
!! ATTTATGTATAACTTATCAA+CGG - chr2.4:55983167-55983186 MS.gene059048:intron 15.0%
!! TTATTTATTTCCATGAAAAA+TGG + chr2.4:55983081-55983100 None:intergenic 15.0%
!!! ACGAATATGTTAATAATTTT+TGG + chr2.4:55983399-55983418 None:intergenic 15.0%
!! TTCAATTCTAGTATTTGAAT+AGG - chr2.4:55982946-55982965 MS.gene059048:intron 20.0%
!!! AAACGGTTTATTTTTTTTTC+CGG - chr2.4:55983730-55983749 MS.gene059048:intron 20.0%
!!! TGAAGCTTTAAATTTATTGA+TGG + chr2.4:55983050-55983069 None:intergenic 20.0%
!!! TTTTTTTTTGAGAGAATGTT+AGG + chr2.4:55983452-55983471 None:intergenic 20.0%
! AAAATACCAAAATACCTTCA+CGG - chr2.4:55983555-55983574 MS.gene059048:intron 25.0%
! TAGAGACATGTAAATGTTAT+AGG + chr2.4:55983690-55983709 None:intergenic 25.0%
! TTCAACAATTTCAACACTTT+GGG + chr2.4:55982780-55982799 None:intergenic 25.0%
! TTTCACTGAAATCTTAACAA+TGG + chr2.4:55984071-55984090 None:intergenic 25.0%
!! TTGAATTCAACAACTCTTTT+TGG + chr2.4:55982931-55982950 None:intergenic 25.0%
!! TTTCAATGTTTTCAACTTCA+TGG - chr2.4:55983358-55983377 MS.gene059048:intron 25.0%
!! TTTTCAACTTCATGGTAAAT+AGG - chr2.4:55983366-55983385 MS.gene059048:intron 25.0%
!!! AAGGTATTTTGGTATTTTCA+CGG + chr2.4:55983553-55983572 None:intergenic 25.0%
AAGAAATTATCCATGTCTGA+AGG - chr2.4:55982824-55982843 MS.gene059048:CDS 30.0%
AATCAGCCTAACATAATATG+TGG - chr2.4:55983472-55983491 MS.gene059048:intron 30.0%
AGACATGGATAATTTCTTGA+TGG + chr2.4:55982822-55982841 None:intergenic 30.0%
ATCGGAGATTTGAAAGTAAT+TGG + chr2.4:55983815-55983834 None:intergenic 30.0%
CTCTCAAATTTGAGAATTGA+AGG - chr2.4:55982999-55983018 MS.gene059048:intron 30.0%
CTTCAACAATTTCAACACTT+TGG + chr2.4:55982781-55982800 None:intergenic 30.0%
CTTCAATTCTCAAATTTGAG+AGG + chr2.4:55983001-55983020 None:intergenic 30.0%
GTTGAAATTGTTGAAGGAAA+TGG - chr2.4:55982785-55982804 MS.gene059048:CDS 30.0%
TAATCAATTACCTTCAGACA+TGG + chr2.4:55982837-55982856 None:intergenic 30.0%
TGTAGACCACATATTATGTT+AGG + chr2.4:55983481-55983500 None:intergenic 30.0%
! TAATTTGTGTAGCACAAAGT+CGG + chr2.4:55983927-55983946 None:intergenic 30.0%
!! AATTATGATGGGTGTATTGT+AGG - chr2.4:55983893-55983912 MS.gene059048:intron 30.0%
!! CAAAGTGTTGAAATTGTTGA+AGG - chr2.4:55982779-55982798 MS.gene059048:CDS 30.0%
AGTTAACTGCCACAAATAGT+TGG + chr2.4:55983240-55983259 None:intergenic 35.0%
CTAAAGATTGTTTCGGTCAT+CGG + chr2.4:55983833-55983852 None:intergenic 35.0%
GAAATTGTTGAAGGAAATGG+AGG - chr2.4:55982788-55982807 MS.gene059048:CDS 35.0%
GGATACAACTATAGCATAGT+AGG - chr2.4:55983971-55983990 MS.gene059048:intron 35.0%
TACAACTATAGCATAGTAGG+AGG - chr2.4:55983974-55983993 MS.gene059048:intron 35.0%
TCAAATCACACTACAGTAAG+CGG - chr2.4:55983209-55983228 MS.gene059048:intron 35.0%
TCAGTGAATCACTATTGCAA+TGG + chr2.4:55983272-55983291 None:intergenic 35.0%
TGTGGTCTACAACTATAACA+TGG - chr2.4:55983490-55983509 MS.gene059048:intron 35.0%
TTTGAGAATTGAAGGAGACA+TGG - chr2.4:55983007-55983026 MS.gene059048:intron 35.0%
TTTGTGGCAGTTAACTAGAA+AGG - chr2.4:55983244-55983263 MS.gene059048:intron 35.0%
! GATAATTTCTTGATGGTTCC+AGG + chr2.4:55982815-55982834 None:intergenic 35.0%
! TTGGTATTTTCACGGTACAT+TGG + chr2.4:55983545-55983564 None:intergenic 35.0%
!! CAAAGAACGACCATTTTTCA+TGG - chr2.4:55983068-55983087 MS.gene059048:intron 35.0%
!!! TAACTACCGTGAAGGTATTT+TGG + chr2.4:55983564-55983583 None:intergenic 35.0%
ACCAACAATCAACTCTAGTC+CGG + chr2.4:55983752-55983771 None:intergenic 40.0%
AGATAGAGTTGCATCACCTT+TGG + chr2.4:55984101-55984120 None:intergenic 40.0%
CAAAGGAACTGGACTTATCA+AGG - chr2.4:55984147-55984166 MS.gene059048:CDS 40.0%
CAAATTAGAAGCAGTCGATG+AGG - chr2.4:55983940-55983959 MS.gene059048:intron 40.0%
CACGGTACATTGGAGTAAAA+AGG + chr2.4:55983535-55983554 None:intergenic 40.0%
CGGGATATACAATTCATGCA+AGG - chr2.4:55983116-55983135 MS.gene059048:intron 40.0%
CTTGATAAGTCCAGTTCCTT+TGG + chr2.4:55984149-55984168 None:intergenic 40.0%
GTAGTTAGCACATGTTGTTG+TGG - chr2.4:55983577-55983596 MS.gene059048:intron 40.0%
TATAGCATAGTAGGAGGAAC+AGG - chr2.4:55983980-55983999 MS.gene059048:intron 40.0%
TCAGTGAAATACCACACCAA+AGG - chr2.4:55984082-55984101 MS.gene059048:CDS 40.0%
TGATGAACATGTCTCAACTG+TGG - chr2.4:55982685-55982704 MS.gene059048:CDS 40.0%
TGCTGATGAAATCATCCCAA+AGG - chr2.4:55982742-55982761 MS.gene059048:CDS 40.0%
! AGAGCTTTGTAGAGTTTAGC+TGG + chr2.4:55982713-55982732 None:intergenic 40.0%
! TGAATTCGAGACAAGTGTTG+TGG - chr2.4:55984027-55984046 MS.gene059048:CDS 40.0%
!! TATGATGGGTGTATTGTAGG+TGG - chr2.4:55983896-55983915 MS.gene059048:intron 40.0%
ACATGTGCTAACTACCGTGA+AGG + chr2.4:55983572-55983591 None:intergenic 45.0%
AGTGATGGTTAACTGTCGCT+TGG - chr2.4:55983604-55983623 MS.gene059048:intron 45.0%
ATTTCAACACTTTGGGCAGC+TGG + chr2.4:55982773-55982792 None:intergenic 45.0%
CATAGTAGGAGGAACAGGAT+TGG - chr2.4:55983985-55984004 MS.gene059048:intron 45.0%
GCGGTAGATCCAACTATTTG+TGG - chr2.4:55983228-55983247 MS.gene059048:intron 45.0%
GGACTTATCAAGGCCATTGA+GGG - chr2.4:55984157-55984176 MS.gene059048:CDS 45.0%
TGGACTTATCAAGGCCATTG+AGG - chr2.4:55984156-55984175 MS.gene059048:CDS 45.0%
TGTTGTTGTGGAGTGAGTGA+TGG - chr2.4:55983589-55983608 MS.gene059048:intron 45.0%
! AAGTCCAGTTCCTTTGGCTT+TGG + chr2.4:55984143-55984162 None:intergenic 45.0%
! GTGATGGTTAACTGTCGCTT+GGG - chr2.4:55983605-55983624 MS.gene059048:intron 45.0%
! TCCGGACTAGAGTTGATTGT+TGG - chr2.4:55983748-55983767 MS.gene059048:intron 45.0%
! TCTATCTGAAGCAGTACGTG+AGG - chr2.4:55984114-55984133 MS.gene059048:CDS 45.0%
! TGATGGTTAACTGTCGCTTG+GGG - chr2.4:55983606-55983625 MS.gene059048:intron 45.0%
!! AACTGTCGCTTGGGGTATTT+TGG - chr2.4:55983614-55983633 MS.gene059048:intron 45.0%
!! ATAAATAAATAATAAATAAC+GGG - chr2.4:55983097-55983116 MS.gene059048:intron 5.0%
AGCAGTCGATGAGGCAAACT+TGG - chr2.4:55983949-55983968 MS.gene059048:intron 50.0%
GAGACCAAAGCCAAAGGAAC+TGG - chr2.4:55984136-55984155 MS.gene059048:CDS 50.0%
GAGTTGCATCACCTTTGGTG+TGG + chr2.4:55984096-55984115 None:intergenic 50.0%
GCAGTCGATGAGGCAAACTT+GGG - chr2.4:55983950-55983969 MS.gene059048:intron 50.0%
GTTGAAGGAAATGGAGGACC+TGG - chr2.4:55982794-55982813 MS.gene059048:CDS 50.0%
TGCCAAAACGTAGCCCTCAA+TGG + chr2.4:55984173-55984192 None:intergenic 50.0%
! TTCGAGACAAGTGTTGTGGC+TGG - chr2.4:55984031-55984050 MS.gene059048:CDS 50.0%
CGTGAGGAGACCAAAGCCAA+AGG - chr2.4:55984130-55984149 MS.gene059048:CDS 55.0%
GGGCAGCTGGAATCACCTTT+GGG + chr2.4:55982760-55982779 None:intergenic 55.0%
TGGGCAGCTGGAATCACCTT+TGG + chr2.4:55982761-55982780 None:intergenic 55.0%
! GGCCATTGAGGGCTACGTTT+TGG - chr2.4:55984168-55984187 MS.gene059048:CDS 55.0%
!! AGTGTTGTGGCTGGCTCTGA+TGG - chr2.4:55984040-55984059 MS.gene059048:CDS 55.0%
!! TTGTGGCTGGCTCTGATGGT+GGG - chr2.4:55984044-55984063 MS.gene059048:CDS 55.0%
!! GTTGTGGCTGGCTCTGATGG+TGG - chr2.4:55984043-55984062 MS.gene059048:CDS 60.0%


Chromosome Type Strat End Strand Name
chr2.4 gene 55982665 55984207 55982665 ID=MS.gene059048
chr2.4 mRNA 55982665 55984207 55982665 ID=MS.gene059048.t1;Parent=MS.gene059048
chr2.4 exon 55984027 55984207 55984027 ID=MS.gene059048.t1.exon1;Parent=MS.gene059048.t1
chr2.4 CDS 55984027 55984207 55984027 ID=cds.MS.gene059048.t1;Parent=MS.gene059048.t1
chr2.4 exon 55982665 55982957 55982665 ID=MS.gene059048.t1.exon2;Parent=MS.gene059048.t1
chr2.4 CDS 55982665 55982957 55982665 ID=cds.MS.gene059048.t1;Parent=MS.gene059048.t1
Gene Sequence

>MS.gene059048

ATGGGTGTTTTTGTTTTCATTGATGAACATGTCTCAACTGTGGCTCCAGCTAAACTCTACAAAGCTCTTGCAAAAGATGCTGATGAAATCATCCCAAAGGTGATTCCAGCTGCCCAAAGTGTTGAAATTGTTGAAGGAAATGGAGGACCTGGAACCATCAAGAAATTATCCATGTCTGAAGGTAATTGATTAAGAGCATATACTATATTATGCAAAAAAAAAAAAAAAAACTTTATTAATTAGTAATTCAATTCAAGTGTGTACCAAAAAGAGTTGTTGAATTCAATTCTAGTATTTGAATAGGCATGTTAAGAAAACATATACGATGTGAAACCTCTCAAATTTGAGAATTGAAGGAGACATGGTGATAAATAAGCTTAGTCCATCAATAAATTTAAAGCTTCAAAGAACGACCATTTTTCATGGAAATAAATAAATAAATAATAAATAACGGGATATACAATTCATGCAAGGTTATAGAGAATCACCAAATTTACTAAAAATTTATGTATAACTTATCAACGGTAAAATTCTAAACTTGAACTCAAATCACACTACAGTAAGCGGTAGATCCAACTATTTGTGGCAGTTAACTAGAAAGGAACCATTGCAATAGTGATTCACTGATGCTTGCTCTCGTGATATATATTAGTCAAATATTCAAACAAAATGAATGATCAAATTATAGGTCATTTTCAATGTTTTCAACTTCATGGTAAATAGGTCATTTTCCAAAAATTATTAACATATTCGTAAATGATAATAAGATCAACTTTATAATCAACCTAACATTCTCTCAAAAAAAAAAATCAGCCTAACATAATATGTGGTCTACAACTATAACATGGAAATTGCTCTTCTCGCTTTCCTTTTTACTCCAATGTACCGTGAAAATACCAAAATACCTTCACGGTAGTTAGCACATGTTGTTGTGGAGTGAGTGATGGTTAACTGTCGCTTGGGGTATTTTGGTATTTTTGCAGTGTTTGAAAAGAAAAAATGAAAGTGAGAAAAGTTGCTTTCCTATAACATTTACATGTCTCTAAAAAAGAAACTATAACATTTAAACGGTTTATTTTTTTTTCCGGACTAGAGTTGATTGTTGGTATAGTTAAATCAGATTCAGCAATCAAGTGATTAATGATATCCAATTACTTTCAAATCTCCGATGACCGAAACAATCTTTAGTTAAATTTTATTTGCATTTAAGGAACAAAATTTGTATATAAATTATGATGGGTGTATTGTAGGTGGCAAAACCGACTTTGTGCTACACAAATTAGAAGCAGTCGATGAGGCAAACTTGGGATACAACTATAGCATAGTAGGAGGAACAGGATTGGATGAAAGTTTAGAGAAAGTTGAATTCGAGACAAGTGTTGTGGCTGGCTCTGATGGTGGGTCCATTGTTAAGATTTCAGTGAAATACCACACCAAAGGTGATGCAACTCTATCTGAAGCAGTACGTGAGGAGACCAAAGCCAAAGGAACTGGACTTATCAAGGCCATTGAGGGCTACGTTTTGGCAAACCCTAATTATTAA
Protein sequence

>MS.gene059048.t1

MGVFVFIDEHVSTVAPAKLYKALAKDADEIIPKVIPAAQSVEIVEGNGGPGTIKKLSMSEGGKTDFVLHKLEAVDEANLGYNYSIVGGTGLDESLEKVEFETSVVAGSDGGSIVKISVKYHTKGDATLSEAVREETKAKGTGLIKAIEGYVLANPNY