AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene05157


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05157.t1 MTR_6g081040 94.620 316 17 0 1 316 55 370 0.0 584
MS.gene05157.t1 MTR_6g081040 94.620 316 17 0 1 316 12 327 0.0 583
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene05157.t1 AT1G48405 33.333 237 134 2 1 237 21 233 8.88e-35 128
MS.gene05157.t1 AT3G17680 41.892 222 116 4 7 223 29 242 5.15e-31 119
MS.gene05157.t1 AT3G17680 41.518 224 114 5 7 223 61 274 7.53e-31 119
MS.gene05157.t1 AT3G17680 41.518 224 114 5 7 223 73 286 1.10e-30 119

Find 53 sgRNAs with CRISPR-Local

Find 66 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAATGCTGGTTTGAGTTAT+AGG 0.223670 6.4:+51565763 MS.gene05157:CDS
TCCTTCCACTTAAACCTTCT+AGG 0.254299 6.4:-51566083 None:intergenic
CAAATGCTGCCAATGGTTAA+TGG 0.305968 6.4:+51565561 MS.gene05157:CDS
GAATGCTGGTTTGAGTTATA+GGG 0.325881 6.4:+51565764 MS.gene05157:CDS
GAGTTATAGGGTTAATAGTT+TGG 0.346234 6.4:+51565776 MS.gene05157:CDS
TCTTCTCCAAACCATGTATC+TGG 0.388286 6.4:-51565935 None:intergenic
AAAGTAGTTGAGGTCTCTTT+TGG 0.405251 6.4:-51565344 None:intergenic
CAAGTTTCAACTTTGGAAGA+AGG 0.406416 6.4:+51565462 MS.gene05157:CDS
TCAAGGCCAGATACATGGTT+TGG 0.410594 6.4:+51565929 MS.gene05157:CDS
TTCAAATGGAGAAGCCTAGA+AGG 0.411732 6.4:+51566069 MS.gene05157:CDS
GAAGAGTTTGCTTGAGGTGT+TGG 0.416910 6.4:+51565713 MS.gene05157:CDS
AGGATGAAAATGTTGGCAAT+TGG 0.428892 6.4:+51565264 None:intergenic
CTCTTCACAAGTTTCAACTT+TGG 0.429231 6.4:+51565455 MS.gene05157:CDS
TGGTGGTGAAGGGTTAGCTT+TGG 0.430299 6.4:+51566037 MS.gene05157:CDS
AGGAAGAAGGAAATTCTTCT+AGG 0.441661 6.4:+51566102 MS.gene05157:CDS
GATCAAGAAGAAGTTATTAG+TGG 0.443016 6.4:+51565492 MS.gene05157:CDS
GAAAGTATTGCGAGTCTTCG+AGG 0.458677 6.4:+51565676 MS.gene05157:CDS
GAGTCAAGTTGATTCGGATA+TGG 0.463764 6.4:+51565518 MS.gene05157:CDS
TGGTGTGAGTCAAGTTGATT+CGG 0.464121 6.4:+51565512 MS.gene05157:CDS
GGAAGAAAGGATGAAAATGT+TGG 0.467904 6.4:+51565257 None:intergenic
TTTGGAAGTTCATGTTCAAA+TGG 0.473753 6.4:+51566055 MS.gene05157:CDS
ACAAATGAAGAAGAAGAAGA+AGG 0.483902 6.4:+51565288 MS.gene05157:CDS
ATCGGCAACAAAGGGAAGAA+TGG 0.498887 6.4:+51566017 MS.gene05157:CDS
GATCTTCAAGGCCAGATACA+TGG 0.502154 6.4:+51565924 MS.gene05157:CDS
AGAAGCCTAGAAGGTTTAAG+TGG 0.505030 6.4:+51566078 MS.gene05157:CDS
GGTTCATGAGGTTGGTGTCA+TGG 0.507161 6.4:+51565650 MS.gene05157:CDS
AGAAGAGAGAGTCAAGAAAA+CGG 0.507190 6.4:+51565987 MS.gene05157:CDS
AGGTTTAAGTGGAAGGAAGA+AGG 0.509088 6.4:+51566089 MS.gene05157:CDS
AACATGGACTTGCTGTTATG+TGG 0.509614 6.4:+51566173 MS.gene05157:CDS
CTTCTGCATGATTTGTACAA+TGG 0.516625 6.4:+51565369 MS.gene05157:CDS
GCCAATGGTTAATGGTTCCA+TGG 0.520998 6.4:+51565569 MS.gene05157:CDS
AGATACATGGTTTGGAGAAG+AGG 0.525980 6.4:+51565937 MS.gene05157:CDS
GCCTAGAAGGTTTAAGTGGA+AGG 0.532394 6.4:+51566082 MS.gene05157:CDS
AAAGGGAAGAATGGTGGTGA+AGG 0.547748 6.4:+51566026 MS.gene05157:CDS
AAGTGTTTGTATATATCGAT+CGG 0.552375 6.4:-51565406 None:intergenic
GATCAAGATCAAGCGCAAGT+TGG 0.564528 6.4:-51566203 None:intergenic
CAAAGAGCTTGCGTCCGAGT+CGG 0.566207 6.4:+51565809 MS.gene05157:CDS
AAGGGAAGAATGGTGGTGAA+GGG 0.583396 6.4:+51566027 MS.gene05157:CDS
TGCAGAAGTGAAAGTAGTTG+AGG 0.584459 6.4:-51565354 None:intergenic
AGGAAGATTGAAGATCTTCA+AGG 0.589114 6.4:+51565912 MS.gene05157:CDS
TTATCAACAAATGCTGCCAA+TGG 0.591651 6.4:+51565554 MS.gene05157:CDS
CTAAGTGTGTGCTGAAGATG+AGG 0.598254 6.4:+51565862 MS.gene05157:CDS
ACCATGGAACCATTAACCAT+TGG 0.603910 6.4:-51565570 None:intergenic
GTTACAGAAGAGTTTGCTTG+AGG 0.610285 6.4:+51565707 MS.gene05157:CDS
CACACACTTAGCTAACTCAC+CGG 0.626155 6.4:-51565850 None:intergenic
AATTGCATCAACATCAACCA+TGG 0.628092 6.4:-51565586 None:intergenic
TCTCTTTATGAAAACCGACT+CGG 0.628900 6.4:-51565823 None:intergenic
ACATGGACTTGCTGTTATGT+GGG 0.649283 6.4:+51566174 MS.gene05157:CDS
GGAACAAGGAGTATTATGAG+AGG 0.665037 6.4:+51565958 MS.gene05157:CDS
GGCAACAAAGGGAAGAATGG+TGG 0.678048 6.4:+51566020 MS.gene05157:CDS
TGGTTTGGAGAAGAGGAACA+AGG 0.704148 6.4:+51565944 MS.gene05157:CDS
GTGTGTGCTGAAGATGAGGG+AGG 0.735654 6.4:+51565866 MS.gene05157:CDS
TAAGTGTGTGCTGAAGATGA+GGG 0.745974 6.4:+51565863 MS.gene05157:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! AAGTGTTTGTATATATCGAT+CGG - chr6.4:51565409-51565428 None:intergenic 25.0%
!! ATAGAGTTTTTCTATTGCAT+AGG + chr6.4:51565892-51565911 MS.gene05157:CDS 25.0%
!!! GAATGTTATGTGTGATTTTT+TGG + chr6.4:51565629-51565648 MS.gene05157:CDS 25.0%
AAATGAAGAAGAAGAAGAAG+GGG + chr6.4:51565290-51565309 MS.gene05157:CDS 30.0%
ACAAATGAAGAAGAAGAAGA+AGG + chr6.4:51565288-51565307 MS.gene05157:CDS 30.0%
CAAATGAAGAAGAAGAAGAA+GGG + chr6.4:51565289-51565308 MS.gene05157:CDS 30.0%
GAGTTATAGGGTTAATAGTT+TGG + chr6.4:51565776-51565795 MS.gene05157:CDS 30.0%
GATCAAGAAGAAGTTATTAG+TGG + chr6.4:51565492-51565511 MS.gene05157:CDS 30.0%
TTTGGAAGTTCATGTTCAAA+TGG + chr6.4:51566055-51566074 MS.gene05157:CDS 30.0%
! AAGAATTTTGCTGGGAAAAA+AGG + chr6.4:51566125-51566144 MS.gene05157:CDS 30.0%
! GTTTTCATAAAGAGAAAAGC+CGG + chr6.4:51565831-51565850 MS.gene05157:CDS 30.0%
!!! CAAGAAAACGGTAGTTTTAT+CGG + chr6.4:51565999-51566018 MS.gene05157:CDS 30.0%
AATTGCATCAACATCAACCA+TGG - chr6.4:51565589-51565608 None:intergenic 35.0%
AGAAGAGAGAGTCAAGAAAA+CGG + chr6.4:51565987-51566006 MS.gene05157:CDS 35.0%
AGGAAGAAGGAAATTCTTCT+AGG + chr6.4:51566102-51566121 MS.gene05157:CDS 35.0%
AGGAAGATTGAAGATCTTCA+AGG + chr6.4:51565912-51565931 MS.gene05157:CDS 35.0%
CTCTTCACAAGTTTCAACTT+TGG + chr6.4:51565455-51565474 MS.gene05157:CDS 35.0%
GGAAAAAAGGTCATAGTTTG+TGG + chr6.4:51566138-51566157 MS.gene05157:CDS 35.0%
GTGGAAAAAGTTGAAGAACA+TGG + chr6.4:51566157-51566176 MS.gene05157:CDS 35.0%
TCTCTTTATGAAAACCGACT+CGG - chr6.4:51565826-51565845 None:intergenic 35.0%
TTATCAACAAATGCTGCCAA+TGG + chr6.4:51565554-51565573 MS.gene05157:CDS 35.0%
! AAAGTAGTTGAGGTCTCTTT+TGG - chr6.4:51565347-51565366 None:intergenic 35.0%
! CAAGTTTCAACTTTGGAAGA+AGG + chr6.4:51565462-51565481 MS.gene05157:CDS 35.0%
! CTTCTGCATGATTTGTACAA+TGG + chr6.4:51565369-51565388 MS.gene05157:CDS 35.0%
!! AGAATGCTGGTTTGAGTTAT+AGG + chr6.4:51565763-51565782 MS.gene05157:CDS 35.0%
!! CTTCTAGGAAGAATTTTGCT+GGG + chr6.4:51566117-51566136 MS.gene05157:CDS 35.0%
!! GAATGCTGGTTTGAGTTATA+GGG + chr6.4:51565764-51565783 MS.gene05157:CDS 35.0%
!! GTTTTGTTGAATGAGAATGC+TGG + chr6.4:51565750-51565769 MS.gene05157:CDS 35.0%
!! TCTTCTAGGAAGAATTTTGC+TGG + chr6.4:51566116-51566135 MS.gene05157:CDS 35.0%
!!! GATTTTTTGGTTCATGAGGT+TGG + chr6.4:51565642-51565661 MS.gene05157:CDS 35.0%
!!! GTAGTTTTATCGGCAACAAA+GGG + chr6.4:51566009-51566028 MS.gene05157:CDS 35.0%
!!! GTGTGATTTTTTGGTTCATG+AGG + chr6.4:51565638-51565657 MS.gene05157:CDS 35.0%
ACCATGGAACCATTAACCAT+TGG - chr6.4:51565573-51565592 None:intergenic 40.0%
AGAAGCCTAGAAGGTTTAAG+TGG + chr6.4:51566078-51566097 MS.gene05157:CDS 40.0%
AGGTTTAAGTGGAAGGAAGA+AGG + chr6.4:51566089-51566108 MS.gene05157:CDS 40.0%
CAAATGCTGCCAATGGTTAA+TGG + chr6.4:51565561-51565580 MS.gene05157:CDS 40.0%
TAAGTGTGTGCTGAAGATGA+GGG + chr6.4:51565863-51565882 MS.gene05157:CDS 40.0%
TCCTTCCACTTAAACCTTCT+AGG - chr6.4:51566086-51566105 None:intergenic 40.0%
TCTTCTCCAAACCATGTATC+TGG - chr6.4:51565938-51565957 None:intergenic 40.0%
TGCAGAAGTGAAAGTAGTTG+AGG - chr6.4:51565357-51565376 None:intergenic 40.0%
TTCAAATGGAGAAGCCTAGA+AGG + chr6.4:51566069-51566088 MS.gene05157:CDS 40.0%
! AGATACATGGTTTGGAGAAG+AGG + chr6.4:51565937-51565956 MS.gene05157:CDS 40.0%
! GTTACAGAAGAGTTTGCTTG+AGG + chr6.4:51565707-51565726 MS.gene05157:CDS 40.0%
!! AACATGGACTTGCTGTTATG+TGG + chr6.4:51566173-51566192 MS.gene05157:CDS 40.0%
!! ACATGGACTTGCTGTTATGT+GGG + chr6.4:51566174-51566193 MS.gene05157:CDS 40.0%
!! GAGTCAAGTTGATTCGGATA+TGG + chr6.4:51565518-51565537 MS.gene05157:CDS 40.0%
!! GGAACAAGGAGTATTATGAG+AGG + chr6.4:51565958-51565977 MS.gene05157:CDS 40.0%
!! TGGTGTGAGTCAAGTTGATT+CGG + chr6.4:51565512-51565531 MS.gene05157:CDS 40.0%
!!! GGTAGTTTTATCGGCAACAA+AGG + chr6.4:51566008-51566027 MS.gene05157:CDS 40.0%
ATCGGCAACAAAGGGAAGAA+TGG + chr6.4:51566017-51566036 MS.gene05157:CDS 45.0%
CACACACTTAGCTAACTCAC+CGG - chr6.4:51565853-51565872 None:intergenic 45.0%
CTAAGTGTGTGCTGAAGATG+AGG + chr6.4:51565862-51565881 MS.gene05157:CDS 45.0%
GATCTTCAAGGCCAGATACA+TGG + chr6.4:51565924-51565943 MS.gene05157:CDS 45.0%
GCCAATGGTTAATGGTTCCA+TGG + chr6.4:51565569-51565588 MS.gene05157:CDS 45.0%
GCCTAGAAGGTTTAAGTGGA+AGG + chr6.4:51566082-51566101 MS.gene05157:CDS 45.0%
TCAAGGCCAGATACATGGTT+TGG + chr6.4:51565929-51565948 MS.gene05157:CDS 45.0%
! AAAGGGAAGAATGGTGGTGA+AGG + chr6.4:51566026-51566045 MS.gene05157:CDS 45.0%
! AAGGGAAGAATGGTGGTGAA+GGG + chr6.4:51566027-51566046 MS.gene05157:CDS 45.0%
! GAAGAGTTTGCTTGAGGTGT+TGG + chr6.4:51565713-51565732 MS.gene05157:CDS 45.0%
! TGGTTTGGAGAAGAGGAACA+AGG + chr6.4:51565944-51565963 MS.gene05157:CDS 45.0%
!! GAAAGTATTGCGAGTCTTCG+AGG + chr6.4:51565676-51565695 MS.gene05157:CDS 45.0%
GGCAACAAAGGGAAGAATGG+TGG + chr6.4:51566020-51566039 MS.gene05157:CDS 50.0%
!! GGTTCATGAGGTTGGTGTCA+TGG + chr6.4:51565650-51565669 MS.gene05157:CDS 50.0%
!! TGGTGGTGAAGGGTTAGCTT+TGG + chr6.4:51566037-51566056 MS.gene05157:CDS 50.0%
CAAAGAGCTTGCGTCCGAGT+CGG + chr6.4:51565809-51565828 MS.gene05157:CDS 55.0%
GTGTGTGCTGAAGATGAGGG+AGG + chr6.4:51565866-51565885 MS.gene05157:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 51565267 51566217 51565267 ID=MS.gene05157
chr6.4 mRNA 51565267 51566217 51565267 ID=MS.gene05157.t1;Parent=MS.gene05157
chr6.4 exon 51565267 51566217 51565267 ID=MS.gene05157.t1.exon1;Parent=MS.gene05157.t1
chr6.4 CDS 51565267 51566217 51565267 ID=cds.MS.gene05157.t1;Parent=MS.gene05157.t1
Gene Sequence

>MS.gene05157

ATGAAAATGTTGGCAATTGGAACAAATGAAGAAGAAGAAGAAGGGGACACTTTTGCTGAAAGAGCAGAAACTTACTACCAAAAGAGACCTCAACTACTTTCACTTCTGCATGATTTGTACAATGGCTATGTCACTTTATCCGATCGATATATACAAACACTTGCAAAGCATAAGCATCATAGTAGACACTCTTCACAAGTTTCAACTTTGGAAGAAGGATTTTCTGATCAAGAAGAAGTTATTAGTGGTGTGAGTCAAGTTGATTCGGATATGGAAAGTTCAATCTCTTATCAACAAATGCTGCCAATGGTTAATGGTTCCATGGTTGATGTTGATGCAATTGTAGCTGAGCTTGTGATGAAGAATGTTATGTGTGATTTTTTGGTTCATGAGGTTGGTGTCATGGAGAGAAAGTATTGCGAGTCTTCGAGGAAAAGTGAGTTACAGAAGAGTTTGCTTGAGGTGTTGGAATCTGAGAGACTTGTTTTGTTGAATGAGAATGCTGGTTTGAGTTATAGGGTTAATAGTTTGGTTGAAGAGAACAAAGAGCTTGCGTCCGAGTCGGTTTTCATAAAGAGAAAAGCCGGTGAGTTAGCTAAGTGTGTGCTGAAGATGAGGGAGGATCATAGAGTTTTTCTATTGCATAGGAAGATTGAAGATCTTCAAGGCCAGATACATGGTTTGGAGAAGAGGAACAAGGAGTATTATGAGAGGCTTTTGAGAAGAGAGAGTCAAGAAAACGGTAGTTTTATCGGCAACAAAGGGAAGAATGGTGGTGAAGGGTTAGCTTTGGAAGTTCATGTTCAAATGGAGAAGCCTAGAAGGTTTAAGTGGAAGGAAGAAGGAAATTCTTCTAGGAAGAATTTTGCTGGGAAAAAAGGTCATAGTTTGTGGAAAAAGTTGAAGAACATGGACTTGCTGTTATGTGGGACAAATCCAACTTGCGCTTGA

Protein sequence

>MS.gene05157.t1

MKMLAIGTNEEEEEGDTFAERAETYYQKRPQLLSLLHDLYNGYVTLSDRYIQTLAKHKHHSRHSSQVSTLEEGFSDQEEVISGVSQVDSDMESSISYQQMLPMVNGSMVDVDAIVAELVMKNVMCDFLVHEVGVMERKYCESSRKSELQKSLLEVLESERLVLLNENAGLSYRVNSLVEENKELASESVFIKRKAGELAKCVLKMREDHRVFLLHRKIEDLQGQIHGLEKRNKEYYERLLRRESQENGSFIGNKGKNGGEGLALEVHVQMEKPRRFKWKEEGNSSRKNFAGKKGHSLWKKLKNMDLLLCGTNPTCA