AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar ZhongmuNo.1 / MsG0680034853.01


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034853.01.T01 MTR_6g081040 91.875 320 25 1 2 320 48 367 0.0 560
MsG0680034853.01.T01 MTR_6g081040 92.453 318 23 1 4 320 7 324 0.0 560
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MsG0680034853.01.T01 AT1G48405 29.592 294 168 6 4 291 16 276 5.20e-29 114
MsG0680034853.01.T01 AT3G17680 39.914 233 127 5 4 230 17 242 9.23e-29 114
MsG0680034853.01.T01 AT3G17680 39.744 234 128 5 3 230 60 286 1.37e-28 114
MsG0680034853.01.T01 AT3G17680 39.914 233 127 5 4 230 49 274 2.05e-28 113

Find 61 sgRNAs with CRISPR-Local

Find 71 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ACAAATGTTGCCAATGATTA+AGG 0.116655 6:+95606401 MsG0680034853.01.T01:CDS
TCTTTCCACTTAAACCTTCT+AGG 0.230863 6:-95606924 None:intergenic
CACCACTAATAACTTCTTCT+TGG 0.252153 6:-95606335 None:intergenic
AAAATTTATATGTATACTTT+TGG 0.279415 6:+95607127 MsG0680034853.01.T01:CDS
GTTATTTATGGTGGTAGATT+TGG 0.302280 6:+95606080 None:intergenic
AGAAGAGAGAGTCAAGAAAA+TGG 0.314682 6:+95606828 MsG0680034853.01.T01:CDS
CAAATGTTGCCAATGATTAA+GGG 0.371657 6:+95606402 MsG0680034853.01.T01:CDS
AAGAAGAAGGAAATTCTTCT+AGG 0.372880 6:+95606943 MsG0680034853.01.T01:CDS
CACTTCTGCTGATTTGTACA+TGG 0.386684 6:+95606211 MsG0680034853.01.T01:CDS
AGATCAAGATCAAGCGCAAT+TGG 0.400678 6:-95607044 None:intergenic
AAAGTAGTTGAGGTCTCTTT+TGG 0.405251 6:-95606188 None:intergenic
CAAGTTTCAACTTTGGAAGA+AGG 0.406416 6:+95606303 MsG0680034853.01.T01:CDS
TTCAAATGGAGAAGCCTAGA+AGG 0.411732 6:+95606910 MsG0680034853.01.T01:CDS
GAAGAGTTTGCTTGAGGTGT+TGG 0.416910 6:+95606554 MsG0680034853.01.T01:CDS
AGGATGAAAATGTTGGCAAT+TGG 0.428892 6:+95606108 MsG0680034853.01.T01:CDS
CTCTTCACAAGTTTCAACTT+TGG 0.429231 6:+95606296 MsG0680034853.01.T01:CDS
TGGTGGTAGATTTGGAAGAA+AGG 0.431166 6:+95606088 MsG0680034853.01.T01:CDS
GACCAAGAAGAAGTTATTAG+TGG 0.431853 6:+95606333 MsG0680034853.01.T01:CDS
GCAAGGGCAGATACATGGTT+TGG 0.441156 6:+95606770 MsG0680034853.01.T01:CDS
GAGTTATAGAGTTAATAGTT+TGG 0.443249 6:+95606617 MsG0680034853.01.T01:CDS
TGGCGGTGAAGGAATAGCTT+TGG 0.449383 6:+95606878 MsG0680034853.01.T01:CDS
ACCACATGATTGCACGCAAT+CGG 0.452606 6:-95607089 None:intergenic
GAAAGTATTGCGAGTCTTCG+AGG 0.458677 6:+95606517 MsG0680034853.01.T01:CDS
GAGTCAAGTTGATTCGGATA+TGG 0.463764 6:+95606359 MsG0680034853.01.T01:CDS
TGGTGTGAGTCAAGTTGATT+CGG 0.464121 6:+95606353 MsG0680034853.01.T01:CDS
CAAGAAAATGGTGGCTGTAT+CGG 0.465729 6:+95606840 MsG0680034853.01.T01:CDS
GGAAGAAAGGATGAAAATGT+TGG 0.467904 6:+95606101 MsG0680034853.01.T01:CDS
AACATGGACTTGCTATTATG+TGG 0.473266 6:+95607014 MsG0680034853.01.T01:CDS
TTTGGAAGTTCATGTTCAAA+TGG 0.473753 6:+95606896 MsG0680034853.01.T01:CDS
GGAAGAAAGGTCATAGTTTG+TGG 0.489302 6:+95606979 MsG0680034853.01.T01:CDS
ACCATGGAACCCTTAATCAT+TGG 0.501015 6:-95606411 None:intergenic
AGGTTTAAGTGGAAAGAAGA+AGG 0.501263 6:+95606930 MsG0680034853.01.T01:CDS
GGTTCATGAGGTTGGTGTCA+TGG 0.507161 6:+95606491 MsG0680034853.01.T01:CDS
TGATCTTGATCTTGATCAGA+CGG 0.508802 6:+95607055 MsG0680034853.01.T01:CDS
AGATACATGGTTTGGAGAAG+AGG 0.525980 6:+95606778 MsG0680034853.01.T01:CDS
AAAGGGAAGAATGGCGGTGA+AGG 0.530751 6:+95606867 MsG0680034853.01.T01:CDS
ACAAGTGAAGAAGAAGAAGA+AGG 0.536387 6:+95606132 MsG0680034853.01.T01:CDS
GCCAATGATTAAGGGTTCCA+TGG 0.537395 6:+95606410 MsG0680034853.01.T01:CDS
GGTGGCTGTATCGGCAACAA+AGG 0.540236 6:+95606849 MsG0680034853.01.T01:CDS
AGCAGAAGTGAAAGTAGTTG+AGG 0.545479 6:-95606198 None:intergenic
AGAAGCCTAGAAGGTTTAAG+TGG 0.552094 6:+95606919 MsG0680034853.01.T01:CDS
ATAGAGTTTATCTATTGCAT+AGG 0.555558 6:+95606733 MsG0680034853.01.T01:CDS
GATCTGCAAGGGCAGATACA+TGG 0.557628 6:+95606765 MsG0680034853.01.T01:CDS
ATCGGCAACAAAGGGAAGAA+TGG 0.569240 6:+95606858 MsG0680034853.01.T01:CDS
CAAAGAGCTTGCATCTGAGT+CGG 0.572288 6:+95606650 MsG0680034853.01.T01:CDS
CTAAGTGTGTGCTGAAGATG+AGG 0.598254 6:+95606703 MsG0680034853.01.T01:CDS
GTGGCTGTATCGGCAACAAA+GGG 0.601739 6:+95606850 MsG0680034853.01.T01:CDS
GTTACAGAAGAGTTTGCTTG+AGG 0.610285 6:+95606548 MsG0680034853.01.T01:CDS
ACATGGACTTGCTATTATGT+GGG 0.610897 6:+95607015 MsG0680034853.01.T01:CDS
TTGATCAGACGGTTCAAATG+TGG 0.616879 6:+95607066 MsG0680034853.01.T01:CDS
CACACACTTAGCTAACTCAC+CGG 0.626155 6:-95606691 None:intergenic
GGAAGATTGAAGATCTGCAA+GGG 0.629530 6:+95606754 MsG0680034853.01.T01:CDS
AATTTCATCAACATCAACCA+TGG 0.630066 6:-95606427 None:intergenic
AGGAAGATTGAAGATCTGCA+AGG 0.641242 6:+95606753 MsG0680034853.01.T01:CDS
GCCGATTGCGTGCAATCATG+TGG 0.642754 6:+95607088 MsG0680034853.01.T01:CDS
AGAGAGAGTCAAGAAAATGG+TGG 0.683282 6:+95606831 MsG0680034853.01.T01:CDS
GGCAACAAAGGGAAGAATGG+CGG 0.694360 6:+95606861 MsG0680034853.01.T01:CDS
TGGTTTGGAGAAGAGGAACA+AGG 0.704148 6:+95606785 MsG0680034853.01.T01:CDS
GGAACAAGGAGTATTACGAG+AGG 0.706738 6:+95606799 MsG0680034853.01.T01:CDS
GTGTGTGCTGAAGATGAGGG+AGG 0.735654 6:+95606707 MsG0680034853.01.T01:CDS
TAAGTGTGTGCTGAAGATGA+GGG 0.745974 6:+95606704 MsG0680034853.01.T01:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! AAAATTTATATGTATACTTT+TGG + Chr6:95607127-95607146 MsG0680034853.01.T01:CDS 10.0%
!!! AAAGTATACATATAAATTTT+TGG - Chr6:95607127-95607146 None:intergenic 10.0%
! ATAGAGTTTATCTATTGCAT+AGG + Chr6:95606733-95606752 MsG0680034853.01.T01:CDS 25.0%
! GAGTTATAGAGTTAATAGTT+TGG + Chr6:95606617-95606636 MsG0680034853.01.T01:CDS 25.0%
!!! GAATGTTATGTGTGATTTTT+TGG + Chr6:95606470-95606489 MsG0680034853.01.T01:CDS 25.0%
AAGAAGAAGGAAATTCTTCT+AGG + Chr6:95606943-95606962 MsG0680034853.01.T01:CDS 30.0%
AATTTCATCAACATCAACCA+TGG - Chr6:95606430-95606449 None:intergenic 30.0%
ACAAATGTTGCCAATGATTA+AGG + Chr6:95606401-95606420 MsG0680034853.01.T01:CDS 30.0%
CAAATGTTGCCAATGATTAA+GGG + Chr6:95606402-95606421 MsG0680034853.01.T01:CDS 30.0%
TTTGGAAGTTCATGTTCAAA+TGG + Chr6:95606896-95606915 MsG0680034853.01.T01:CDS 30.0%
!! TGTTTTGTTGAATGAGAATG+CGG + Chr6:95606590-95606609 MsG0680034853.01.T01:CDS 30.0%
ACAAGTGAAGAAGAAGAAGA+AGG + Chr6:95606132-95606151 MsG0680034853.01.T01:CDS 35.0%
AGAAGAGAGAGTCAAGAAAA+TGG + Chr6:95606828-95606847 MsG0680034853.01.T01:CDS 35.0%
AGGATGAAAATGTTGGCAAT+TGG + Chr6:95606108-95606127 MsG0680034853.01.T01:CDS 35.0%
AGGTTTAAGTGGAAAGAAGA+AGG + Chr6:95606930-95606949 MsG0680034853.01.T01:CDS 35.0%
CACCACTAATAACTTCTTCT+TGG - Chr6:95606338-95606357 None:intergenic 35.0%
CTCTTCACAAGTTTCAACTT+TGG + Chr6:95606296-95606315 MsG0680034853.01.T01:CDS 35.0%
GACCAAGAAGAAGTTATTAG+TGG + Chr6:95606333-95606352 MsG0680034853.01.T01:CDS 35.0%
GGAAGAAAGGATGAAAATGT+TGG + Chr6:95606101-95606120 MsG0680034853.01.T01:CDS 35.0%
GTGGAAAAAGTTGAAGAACA+TGG + Chr6:95606998-95607017 MsG0680034853.01.T01:CDS 35.0%
TCTTTCCACTTAAACCTTCT+AGG - Chr6:95606927-95606946 None:intergenic 35.0%
TGATCTTGATCTTGATCAGA+CGG + Chr6:95607055-95607074 MsG0680034853.01.T01:CDS 35.0%
! AAAGTAGTTGAGGTCTCTTT+TGG - Chr6:95606191-95606210 None:intergenic 35.0%
! AAGAATTTTGCTGGGAAGAA+AGG + Chr6:95606966-95606985 MsG0680034853.01.T01:CDS 35.0%
! CAAGTTTCAACTTTGGAAGA+AGG + Chr6:95606303-95606322 MsG0680034853.01.T01:CDS 35.0%
! GTTTTCATCAAGAGAAAAGC+CGG + Chr6:95606672-95606691 MsG0680034853.01.T01:CDS 35.0%
!! AACATGGACTTGCTATTATG+TGG + Chr6:95607014-95607033 MsG0680034853.01.T01:CDS 35.0%
!! ACATGGACTTGCTATTATGT+GGG + Chr6:95607015-95607034 MsG0680034853.01.T01:CDS 35.0%
!! CTTCTAGGAAGAATTTTGCT+GGG + Chr6:95606958-95606977 MsG0680034853.01.T01:CDS 35.0%
!! GTTTTGTTGAATGAGAATGC+GGG + Chr6:95606591-95606610 MsG0680034853.01.T01:CDS 35.0%
!! TCTTCTAGGAAGAATTTTGC+TGG + Chr6:95606957-95606976 MsG0680034853.01.T01:CDS 35.0%
!!! GATTTTTTGGTTCATGAGGT+TGG + Chr6:95606483-95606502 MsG0680034853.01.T01:CDS 35.0%
!!! GTGTGATTTTTTGGTTCATG+AGG + Chr6:95606479-95606498 MsG0680034853.01.T01:CDS 35.0%
ACCATGGAACCCTTAATCAT+TGG - Chr6:95606414-95606433 None:intergenic 40.0%
AGAAGCCTAGAAGGTTTAAG+TGG + Chr6:95606919-95606938 MsG0680034853.01.T01:CDS 40.0%
AGAGAGAGTCAAGAAAATGG+TGG + Chr6:95606831-95606850 MsG0680034853.01.T01:CDS 40.0%
AGATCAAGATCAAGCGCAAT+TGG - Chr6:95607047-95607066 None:intergenic 40.0%
AGCAGAAGTGAAAGTAGTTG+AGG - Chr6:95606201-95606220 None:intergenic 40.0%
AGGAAGATTGAAGATCTGCA+AGG + Chr6:95606753-95606772 MsG0680034853.01.T01:CDS 40.0%
CAAGAAAATGGTGGCTGTAT+CGG + Chr6:95606840-95606859 MsG0680034853.01.T01:CDS 40.0%
GGAAGAAAGGTCATAGTTTG+TGG + Chr6:95606979-95606998 MsG0680034853.01.T01:CDS 40.0%
GGAAGATTGAAGATCTGCAA+GGG + Chr6:95606754-95606773 MsG0680034853.01.T01:CDS 40.0%
TAAGTGTGTGCTGAAGATGA+GGG + Chr6:95606704-95606723 MsG0680034853.01.T01:CDS 40.0%
TGGTGGTAGATTTGGAAGAA+AGG + Chr6:95606088-95606107 MsG0680034853.01.T01:CDS 40.0%
TTCAAATGGAGAAGCCTAGA+AGG + Chr6:95606910-95606929 MsG0680034853.01.T01:CDS 40.0%
TTGATCAGACGGTTCAAATG+TGG + Chr6:95607066-95607085 MsG0680034853.01.T01:CDS 40.0%
! AGATACATGGTTTGGAGAAG+AGG + Chr6:95606778-95606797 MsG0680034853.01.T01:CDS 40.0%
! GTTACAGAAGAGTTTGCTTG+AGG + Chr6:95606548-95606567 MsG0680034853.01.T01:CDS 40.0%
!! CACTTCTGCTGATTTGTACA+TGG + Chr6:95606211-95606230 MsG0680034853.01.T01:CDS 40.0%
!! GAGTCAAGTTGATTCGGATA+TGG + Chr6:95606359-95606378 MsG0680034853.01.T01:CDS 40.0%
!! TGGTGTGAGTCAAGTTGATT+CGG + Chr6:95606353-95606372 MsG0680034853.01.T01:CDS 40.0%
ACCACATGATTGCACGCAAT+CGG - Chr6:95607092-95607111 None:intergenic 45.0%
ATCGGCAACAAAGGGAAGAA+TGG + Chr6:95606858-95606877 MsG0680034853.01.T01:CDS 45.0%
CAAAGAGCTTGCATCTGAGT+CGG + Chr6:95606650-95606669 MsG0680034853.01.T01:CDS 45.0%
CACACACTTAGCTAACTCAC+CGG - Chr6:95606694-95606713 None:intergenic 45.0%
CTAAGTGTGTGCTGAAGATG+AGG + Chr6:95606703-95606722 MsG0680034853.01.T01:CDS 45.0%
GCCAATGATTAAGGGTTCCA+TGG + Chr6:95606410-95606429 MsG0680034853.01.T01:CDS 45.0%
! GAAGAGTTTGCTTGAGGTGT+TGG + Chr6:95606554-95606573 MsG0680034853.01.T01:CDS 45.0%
! TGGTTTGGAGAAGAGGAACA+AGG + Chr6:95606785-95606804 MsG0680034853.01.T01:CDS 45.0%
!! GAAAGTATTGCGAGTCTTCG+AGG + Chr6:95606517-95606536 MsG0680034853.01.T01:CDS 45.0%
!! GGAACAAGGAGTATTACGAG+AGG + Chr6:95606799-95606818 MsG0680034853.01.T01:CDS 45.0%
AAAGGGAAGAATGGCGGTGA+AGG + Chr6:95606867-95606886 MsG0680034853.01.T01:CDS 50.0%
GATCTGCAAGGGCAGATACA+TGG + Chr6:95606765-95606784 MsG0680034853.01.T01:CDS 50.0%
GCAAGGGCAGATACATGGTT+TGG + Chr6:95606770-95606789 MsG0680034853.01.T01:CDS 50.0%
GGCAACAAAGGGAAGAATGG+CGG + Chr6:95606861-95606880 MsG0680034853.01.T01:CDS 50.0%
TGGCGGTGAAGGAATAGCTT+TGG + Chr6:95606878-95606897 MsG0680034853.01.T01:CDS 50.0%
! GTGGCTGTATCGGCAACAAA+GGG + Chr6:95606850-95606869 MsG0680034853.01.T01:CDS 50.0%
!! GGTTCATGAGGTTGGTGTCA+TGG + Chr6:95606491-95606510 MsG0680034853.01.T01:CDS 50.0%
GCCGATTGCGTGCAATCATG+TGG + Chr6:95607088-95607107 MsG0680034853.01.T01:CDS 55.0%
GTGTGTGCTGAAGATGAGGG+AGG + Chr6:95606707-95606726 MsG0680034853.01.T01:CDS 55.0%
! GGTGGCTGTATCGGCAACAA+AGG + Chr6:95606849-95606868 MsG0680034853.01.T01:CDS 55.0%
Chromosome Type Strat End Strand Name
Chr6 gene 95606087 95607163 95606087 ID=MsG0680034853.01;Name=MsG0680034853.01
Chr6 mRNA 95606087 95607163 95606087 ID=MsG0680034853.01.T01;Parent=MsG0680034853.01;Name=MsG0680034853.01.T01;_AED=0.42;_eAED=0.43;_QI=0|-1|0|1|-1|1|1|0|358
Chr6 exon 95606087 95607163 95606087 ID=MsG0680034853.01.T01:exon:6471;Parent=MsG0680034853.01.T01
Chr6 CDS 95606087 95607163 95606087 ID=MsG0680034853.01.T01:cds;Parent=MsG0680034853.01.T01
Gene Sequence

>MsG0680034853.01.T01

ATGGTGGTAGATTTGGAAGAAAGGATGAAAATGTTGGCAATTGGAACAAGTGAAGAAGAAGAAGAAGGTGACACTTTTGCTGAAAGAGCAGAAACTTACTACCAAAAGAGACCTCAACTACTTTCACTTCTGCTGATTTGTACATGGCTATGTCACTTTATCGATCGATATATACAGACACTTGCAAAGCATAAGCATCATAGTAGACACTCTTCACAAGTTTCAACTTTGGAAGAAGGATTTTCTGACCAAGAAGAAGTTATTAGTGGTGTGAGTCAAGTTGATTCGGATATGGAAAGTTCAATCTCTTATCAACAAATGTTGCCAATGATTAAGGGTTCCATGGTTGATGTTGATGAAATTGTAGCTGAGCTTGTGATGAAGAATGTTATGTGTGATTTTTTGGTTCATGAGGTTGGTGTCATGGAGAGAAAGTATTGCGAGTCTTCGAGGAAAAGTGAGTTACAGAAGAGTTTGCTTGAGGTGTTGGAATCTGAGAGACTTGTTTTGTTGAATGAGAATGCGGGTTTGAGTTATAGAGTTAATAGTTTGGTTGAAGAGAACAAAGAGCTTGCATCTGAGTCGGTTTTCATCAAGAGAAAAGCCGGTGAGTTAGCTAAGTGTGTGCTGAAGATGAGGGAGGATCATAGAGTTTATCTATTGCATAGGAAGATTGAAGATCTGCAAGGGCAGATACATGGTTTGGAGAAGAGGAACAAGGAGTATTACGAGAGGCTTTTGAGAAGAGAGAGTCAAGAAAATGGTGGCTGTATCGGCAACAAAGGGAAGAATGGCGGTGAAGGAATAGCTTTGGAAGTTCATGTTCAAATGGAGAAGCCTAGAAGGTTTAAGTGGAAAGAAGAAGGAAATTCTTCTAGGAAGAATTTTGCTGGGAAGAAAGGTCATAGTTTGTGGAAAAAGTTGAAGAACATGGACTTGCTATTATGTGGGACTAATCCAATTGCGCTTGATCTTGATCTTGATCAGACGGTTCAAATGTGGCCGATTGCGTGCAATCATGTGGTTGTTAGTATTCACCAAAAATTTATATGTATACTTTTGGCTCTTGAACGCTAG

Protein sequence

>MsG0680034853.01.T01

MVVDLEERMKMLAIGTSEEEEEGDTFAERAETYYQKRPQLLSLLLICTWLCHFIDRYIQTLAKHKHHSRHSSQVSTLEEGFSDQEEVISGVSQVDSDMESSISYQQMLPMIKGSMVDVDEIVAELVMKNVMCDFLVHEVGVMERKYCESSRKSELQKSLLEVLESERLVLLNENAGLSYRVNSLVEENKELASESVFIKRKAGELAKCVLKMREDHRVYLLHRKIEDLQGQIHGLEKRNKEYYERLLRRESQENGGCIGNKGKNGGEGIALEVHVQMEKPRRFKWKEEGNSSRKNFAGKKGHSLWKKLKNMDLLLCGTNPIALDLDLDQTVQMWPIACNHVVVSIHQKFICILLALER*