AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034919.01

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034919.01.T01 MTR_6g077990 95.000 60 3 0 91 150 100 159 7.07e-34 116
MsG0680034919.01.T01 MTR_6g077990 95.000 60 3 0 91 150 143 202 1.68e-33 117
MsG0680034919.01.T01 MTR_6g077990 72.093 43 9 1 1 40 1 43 1.28e-12 62.8
MsG0680034919.01.T01 MTR_6g077990 95.000 60 3 0 91 150 142 201 2.14e-33 117
MsG0680034919.01.T01 MTR_6g077990 69.048 42 11 1 1 40 1 42 4.75e-12 61.2
MsG0680034919.01.T01 MTR_8g100065 75.439 57 14 0 91 147 129 185 7.31e-24 92.0
MsG0680034919.01.T01 MTR_8g100065 75.439 57 14 0 91 147 151 207 1.52e-23 91.7
MsG0680034919.01.T01 MTR_1g114680 54.237 59 27 0 91 149 107 165 7.70e-16 70.9
MsG0680034919.01.T01 MTR_1g114640 58.182 55 23 0 91 145 165 219 6.94e-15 69.3
MsG0680034919.01.T01 MTR_1g115130 55.556 54 24 0 91 144 138 191 1.66e-13 65.5
MsG0680034919.01.T01 MTR_1g033750 53.704 54 25 0 91 144 167 220 2.80e-12 62.4
MsG0680034919.01.T01 MTR_6g077990 69.048 42 11 1 1 40 1 42 4.52e-12 60.5
MsG0680034919.01.T01 MTR_7g083570 46.296 54 29 0 91 144 221 274 8.99e-12 61.6
MsG0680034919.01.T01 MTR_1g114750 50.877 57 28 0 91 147 165 221 1.07e-11 60.8
MsG0680034919.01.T01 MTR_1g114690 51.852 54 26 0 91 144 162 215 1.98e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034919.01.T01 AT5G23370 54.386 57 26 0 91 147 160 216 1.27e-13 65.9
MsG0680034919.01.T01 AT5G08350 54.386 57 26 0 91 147 159 215 1.52e-13 65.9
MsG0680034919.01.T01 AT5G23360 51.852 54 26 0 91 144 152 205 1.65e-11 60.1
MsG0680034919.01.T01 AT5G23350 51.852 54 26 0 91 144 160 213 2.87e-11 59.3

Find 16 sgRNAs with CRISPR-Local

Find 80 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTAAGGATGGCTCTGAATTT+TGG 0.191579 6:+96627796 MsG0680034919.01.T01:CDS
GAATTTATTGGCCATGAAAA+TGG 0.230364 6:-96627868 None:intergenic
CAGATAAAGAAAACTCAAAT+AGG 0.238573 6:+96626439 MsG0680034919.01.T01:CDS
GATGAAATGAAAGAAATTAA+AGG 0.241975 6:-96626368 None:intergenic
AAAGCGGTTCTTACTTGTTA+TGG 0.266422 6:-96626335 None:intergenic
CATACTCTGATGAAGTCTTT+TGG 0.272298 6:+96626235 None:intergenic
TATACCAATAACAAAGTAAA+AGG 0.316747 6:+96626397 MsG0680034919.01.T01:CDS
AGATAAAGAAAACTCAAATA+GGG 0.461660 6:+96626440 MsG0680034919.01.T01:CDS
ATATATAGAAGTAGTGACTA+AGG 0.483276 6:+96627779 MsG0680034919.01.T01:CDS
ATGGAGGTTGAATCAGAAGT+TGG 0.483557 6:-96626316 None:intergenic
ACCAATAGAGAAGATAAAAG+AGG 0.549360 6:+96627719 MsG0680034919.01.T01:CDS
GCATATAGTATTCATGAACA+TGG 0.551487 6:+96626492 MsG0680034919.01.T01:CDS
CAAATAGGGATTTCACAAGA+AGG 0.555465 6:+96626454 MsG0680034919.01.T01:CDS
GCGGTTCTTACTTGTTATGG+AGG 0.563314 6:-96626332 None:intergenic
AAATAGGGATTTCACAAGAA+GGG 0.576471 6:+96626455 MsG0680034919.01.T01:CDS
ATAGAAGTAGTGACTAAGGA+TGG 0.592266 6:+96627783 MsG0680034919.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AGTTAAATTATTTTCATATA+AGG - Chr6:96627270-96627289 None:intergenic 10.0%
!!! ATCTATATTTTTTTTGTATT+TGG - Chr6:96626720-96626739 None:intergenic 10.0%
!! GATAAAAATTCTATGAATTA+AGG - Chr6:96627649-96627668 None:intergenic 15.0%
!! TAAAGGAAAAAAAAAAAAAG+CGG - Chr6:96626354-96626373 None:intergenic 15.0%
!!! ATATTTTTTTTGTATTTGGT+CGG - Chr6:96626716-96626735 None:intergenic 15.0%
!!! TTATTTTCTCAAATTATTAC+CGG + Chr6:96626751-96626770 MsG0680034919.01.T01:intron 15.0%
!! AAATAAGCTAATCAAAACAT+AGG - Chr6:96627134-96627153 None:intergenic 20.0%
!! AATAAGCTGAAAATAGTTTA+TGG - Chr6:96627489-96627508 None:intergenic 20.0%
!! AGATAAAGAAAACTCAAATA+GGG + Chr6:96626440-96626459 MsG0680034919.01.T01:CDS 20.0%
!! ATAAGCTGAAAATAGTTTAT+GGG - Chr6:96627488-96627507 None:intergenic 20.0%
!! GATGAAATGAAAGAAATTAA+AGG - Chr6:96626371-96626390 None:intergenic 20.0%
!! TATACCAATAACAAAGTAAA+AGG + Chr6:96626397-96626416 MsG0680034919.01.T01:CDS 20.0%
!!! AAAACCTTTTACTTTGTTAT+TGG - Chr6:96626404-96626423 None:intergenic 20.0%
!!! AACATTTTCAAGCATATTTT+TGG + Chr6:96626909-96626928 MsG0680034919.01.T01:intron 20.0%
!!! ACATTTTCAAGCATATTTTT+GGG + Chr6:96626910-96626929 MsG0680034919.01.T01:intron 20.0%
! AGATTGTGACATAATCATAA+CGG - Chr6:96626600-96626619 None:intergenic 25.0%
! ATATATAGAAGTAGTGACTA+AGG + Chr6:96627779-96627798 MsG0680034919.01.T01:CDS 25.0%
! ATTGCATTGTTCTGATATAA+AGG + Chr6:96627674-96627693 MsG0680034919.01.T01:intron 25.0%
! CAGATAAAGAAAACTCAAAT+AGG + Chr6:96626439-96626458 MsG0680034919.01.T01:CDS 25.0%
! CTCAAACAGACAATAAAAAA+TGG - Chr6:96627157-96627176 None:intergenic 25.0%
! TCAAACTTTCAATTCAATCA+AGG + Chr6:96626558-96626577 MsG0680034919.01.T01:intron 25.0%
!! ACTTATTTGAGATTATCTAC+TGG + Chr6:96627408-96627427 MsG0680034919.01.T01:intron 25.0%
!!! AAATTTTCTGAGACTTTGAA+GGG + Chr6:96626840-96626859 MsG0680034919.01.T01:intron 25.0%
!!! ATAACAAAAAAGCATCTACT+CGG - Chr6:96626268-96626287 None:intergenic 25.0%
!!! TAAATTTTCTGAGACTTTGA+AGG + Chr6:96626839-96626858 MsG0680034919.01.T01:intron 25.0%
!!! TTTTGAGGAAATTATCATCA+TGG - Chr6:96626294-96626313 None:intergenic 25.0%
AAATAGGGATTTCACAAGAA+GGG + Chr6:96626455-96626474 MsG0680034919.01.T01:CDS 30.0%
AAATCTTTCATGTGAAGTGT+CGG - Chr6:96626669-96626688 None:intergenic 30.0%
ACCAATAGAGAAGATAAAAG+AGG + Chr6:96627719-96627738 MsG0680034919.01.T01:CDS 30.0%
ATAAAGAGAATTCCAGCAAT+AGG - Chr6:96626996-96627015 None:intergenic 30.0%
ATAGGATTTGAGCTTAAAGT+TGG - Chr6:96627116-96627135 None:intergenic 30.0%
CTGTAGCTTATGAAAATAAG+CGG - Chr6:96627223-96627242 None:intergenic 30.0%
GAATTTATTGGCCATGAAAA+TGG - Chr6:96627871-96627890 None:intergenic 30.0%
GCATATAGTATTCATGAACA+TGG + Chr6:96626492-96626511 MsG0680034919.01.T01:CDS 30.0%
GCTAAAATTATTCAAGAAGG+TGG + Chr6:96626879-96626898 MsG0680034919.01.T01:intron 30.0%
GGTGCTAAAATTATTCAAGA+AGG + Chr6:96626876-96626895 MsG0680034919.01.T01:intron 30.0%
GGTTTCAAGATTACTTTGTA+AGG - Chr6:96627095-96627114 None:intergenic 30.0%
TATAAAGGTTCTTGTAATGC+AGG + Chr6:96627689-96627708 MsG0680034919.01.T01:intron 30.0%
TCAAATAAGTCAACTCAAAC+AGG - Chr6:96627398-96627417 None:intergenic 30.0%
TTAAACTCTCACAAACAATC+TGG - Chr6:96627446-96627465 None:intergenic 30.0%
TTGAAGGGTAAGTTAAGTTT+AGG + Chr6:96626855-96626874 MsG0680034919.01.T01:intron 30.0%
! AATAAGCGGAAAACAACTTT+TGG - Chr6:96627209-96627228 None:intergenic 30.0%
! ACCTCTTTTATCTTCTCTAT+TGG - Chr6:96627723-96627742 None:intergenic 30.0%
! GCAAAATGCAACTTTTACAT+TGG - Chr6:96627021-96627040 None:intergenic 30.0%
!! TTTGGTTCATGGGATTTTTA+AGG + Chr6:96627814-96627833 MsG0680034919.01.T01:CDS 30.0%
!!! TCTCAATAATGCCATTTTCA+TGG + Chr6:96627857-96627876 MsG0680034919.01.T01:CDS 30.0%
ATAGAAGTAGTGACTAAGGA+TGG + Chr6:96627783-96627802 MsG0680034919.01.T01:CDS 35.0%
ATTATTCAAGAAGGTGGAAG+AGG + Chr6:96626885-96626904 MsG0680034919.01.T01:intron 35.0%
CAAATAGGGATTTCACAAGA+AGG + Chr6:96626454-96626473 MsG0680034919.01.T01:CDS 35.0%
GTTATGGTTGCAGTGAAATT+AGG + Chr6:96626813-96626832 MsG0680034919.01.T01:intron 35.0%
TGTGAATGAAACACTGAAAC+CGG - Chr6:96626773-96626792 None:intergenic 35.0%
! AAAGCGGTTCTTACTTGTTA+TGG - Chr6:96626338-96626357 None:intergenic 35.0%
! AAGTTGCATTTTGCAGTGAA+AGG + Chr6:96627027-96627046 MsG0680034919.01.T01:intron 35.0%
! AATCAGAAGTTGGAGTTTTG+AGG - Chr6:96626309-96626328 None:intergenic 35.0%
! TGCTATTTATATACCACAGC+TGG + Chr6:96626969-96626988 MsG0680034919.01.T01:intron 35.0%
!! CGCTTATTTTCATAAGCTAC+AGG + Chr6:96627221-96627240 MsG0680034919.01.T01:intron 35.0%
!!! CATATTTTTGGGATGCAAGA+GGG + Chr6:96626921-96626940 MsG0680034919.01.T01:intron 35.0%
AAGCTTCTATTCTGCAGATG+GGG + Chr6:96627055-96627074 MsG0680034919.01.T01:intron 40.0%
ACAAGCTTCTATTCTGCAGA+TGG + Chr6:96627053-96627072 MsG0680034919.01.T01:intron 40.0%
AGCTTATTTCCACAAGCTCT+CGG + Chr6:96627501-96627520 MsG0680034919.01.T01:intron 40.0%
ATGGAGGTTGAATCAGAAGT+TGG - Chr6:96626319-96626338 None:intergenic 40.0%
ATTCACAGTTGTTGACCTTG+TGG + Chr6:96626786-96626805 MsG0680034919.01.T01:intron 40.0%
CAAGCTTCTATTCTGCAGAT+GGG + Chr6:96627054-96627073 MsG0680034919.01.T01:intron 40.0%
GTTTACTCAACCAAAGCCTT+GGG + Chr6:96627371-96627390 MsG0680034919.01.T01:intron 40.0%
TCTGCAGAATAGAAGCTTGT+AGG - Chr6:96627053-96627072 None:intergenic 40.0%
TGTTTACTCAACCAAAGCCT+TGG + Chr6:96627370-96627389 MsG0680034919.01.T01:intron 40.0%
TTGACCTTGTGGTTGTGTTA+TGG + Chr6:96626797-96626816 MsG0680034919.01.T01:intron 40.0%
!! AAAAAAGCATCTACTCGGAG+AGG - Chr6:96626263-96626282 None:intergenic 40.0%
!!! CTAAGGATGGCTCTGAATTT+TGG + Chr6:96627796-96627815 MsG0680034919.01.T01:CDS 40.0%
!!! GCATATTTTTGGGATGCAAG+AGG + Chr6:96626920-96626939 MsG0680034919.01.T01:intron 40.0%
!!! GGCTCTGAATTTTGGTTCAT+GGG + Chr6:96627804-96627823 MsG0680034919.01.T01:CDS 40.0%
!!! TGGCTCTGAATTTTGGTTCA+TGG + Chr6:96627803-96627822 MsG0680034919.01.T01:CDS 40.0%
GCAACCATAACACAACCACA+AGG - Chr6:96626804-96626823 None:intergenic 45.0%
! AAGCTATTTCCGAGAGCTTG+TGG - Chr6:96627513-96627532 None:intergenic 45.0%
!! GCGGTTCTTACTTGTTATGG+AGG - Chr6:96626335-96626354 None:intergenic 45.0%
!! TTGGTCGGTGTCACACATAT+TGG - Chr6:96626701-96626720 None:intergenic 45.0%
GTCAACTCAAACAGGTCCCA+AGG - Chr6:96627390-96627409 None:intergenic 50.0%
TCAAACAGGTCCCAAGGCTT+TGG - Chr6:96627384-96627403 None:intergenic 50.0%
ACCACAGCTGGTCCTATTGC+TGG + Chr6:96626981-96627000 MsG0680034919.01.T01:intron 55.0%
TCCAGCAATAGGACCAGCTG+TGG - Chr6:96626985-96627004 None:intergenic 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 96626244 96627893 96626244 ID=MsG0680034919.01;Name=MsG0680034919.01
Chr6 mRNA 96626244 96627893 96626244 ID=MsG0680034919.01.T01;Parent=MsG0680034919.01;Name=MsG0680034919.01.T01;_AED=0.39;_eAED=0.61;_QI=0|0|0|1|0|0|2|0|150
Chr6 exon 96626244 96626513 96626244 ID=MsG0680034919.01.T01:exon:6990;Parent=MsG0680034919.01.T01
Chr6 exon 96627711 96627893 96627711 ID=MsG0680034919.01.T01:exon:6991;Parent=MsG0680034919.01.T01
Chr6 CDS 96626244 96626513 96626244 ID=MsG0680034919.01.T01:cds;Parent=MsG0680034919.01.T01
Chr6 CDS 96627711 96627893 96627711 ID=MsG0680034919.01.T01:cds;Parent=MsG0680034919.01.T01
Gene Sequence

>MsG0680034919.01.T01

ATGAAGTCTTTTGGAGCCTCTCCGAGTAGATGCTTTTTTGTTATTGACCATGATGATAATTTCCTCAAAACTCCAACTTCTGATTCAACCTCCATAACAAGTAAGAACCGCTTTTTTTTTTTTTCCTTTAATTTCTTTCATTTCATCAAATCATATACCAATAACAAAGTAAAAGGTTTTGTTTTGTGCTTATTGCAGATAAAGAAAACTCAAATAGGGATTTCACAAGAAGGGAAAGAAGCAGTTTTGCATATAGTATTCATGAACATGGTTTTGATACCAATAGAGAAGATAAAAGAGGTGAATGAAAGCATGAATGTGAACAAGCTAGAACAGAAATATATAGAAGTAGTGACTAAGGATGGCTCTGAATTTTGGTTCATGGGATTTTTAAGGTATGAGAAAGCTATCAAGAATCTCAATAATGCCATTTTCATGGCCAATAAATTCTGA
Protein sequence

>MsG0680034919.01.T01

MKSFGASPSRCFFVIDHDDNFLKTPTSDSTSITSKNRFFFFSFNFFHFIKSYTNNKVKGFVLCLLQIKKTQIGISQEGKEAVLHIVFMNMVLIPIEKIKEVNESMNVNKLEQKYIEVVTKDGSEFWFMGFLRYEKAIKNLNNAIFMANKF*