AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene051692


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051692.t1 MTR_1g018030 95.361 194 7 2 2 195 1 192 6.16e-134 373
MS.gene051692.t1 MTR_7g073990 42.953 149 74 2 47 187 97 242 5.47e-31 113
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene051692.t1 AT1G26220 62.814 199 67 4 2 195 1 197 3.83e-79 234
MS.gene051692.t1 AT1G32070 41.985 131 60 1 76 190 127 257 1.57e-28 107
MS.gene051692.t1 AT1G32070 40.909 132 61 1 76 190 126 257 1.38e-27 105
MS.gene051692.t1 AT1G32070 40.909 132 61 1 76 190 127 258 1.41e-27 105

Find 48 sgRNAs with CRISPR-Local

Find 58 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATACTTTGTTAAGTGCTTCT+AGG 0.216082 1.3:+4778135 None:intergenic
TACTCTGAGCCAAGAGTTCT+TGG 0.233326 1.3:-4777849 MS.gene051692:CDS
AACAACAACATCCCATATTA+TGG 0.310068 1.3:+4777965 None:intergenic
GTTGTTGATCCTTCGTTTCA+AGG 0.353170 1.3:-4777948 MS.gene051692:CDS
CTCAGAGTAAAGAGCAATAT+TGG 0.361910 1.3:+4777863 None:intergenic
GATCCTTCGTTTCAAGGGCT+TGG 0.366151 1.3:-4777942 MS.gene051692:CDS
TCGTTTCAAGGGCTTGGACT+AGG 0.403696 1.3:-4777936 MS.gene051692:CDS
CTGTTGTCGAGAGGCTTATG+AGG 0.408843 1.3:-4777908 MS.gene051692:CDS
AAGTTAAGTCGTAGGGAGGA+TGG 0.419412 1.3:+4778293 None:intergenic
CGTTTCAAGGGCTTGGACTA+GGG 0.426846 1.3:-4777935 MS.gene051692:CDS
CGATAAAAGCCAAGAACTCT+TGG 0.431331 1.3:+4777840 None:intergenic
TAGGCTTGCTTGACAAGAAA+TGG 0.442809 1.3:+4778235 None:intergenic
GCTGATCCTGATGGTATTTG+TGG 0.465569 1.3:-4777801 MS.gene051692:CDS
TTGTTGATCCTTCGTTTCAA+GGG 0.483590 1.3:-4777947 MS.gene051692:CDS
GTTGCATTTGCAAGAGCTAC+TGG 0.489343 1.3:-4778005 MS.gene051692:CDS
ATTCTCCGCCGAACCGCAGA+GGG 0.489832 1.3:-4778164 MS.gene051692:CDS
TCCTGATGGTATTTGTGGAA+TGG 0.494142 1.3:-4777796 MS.gene051692:CDS
GGTTTAACCCCTCTGCGGTT+CGG 0.494949 1.3:+4778156 None:intergenic
TTTGAAGAAGTTAAGTCGTA+GGG 0.496530 1.3:+4778286 None:intergenic
TGAGGGATCTTGTAGGAAGA+GGG 0.520334 1.3:-4777890 MS.gene051692:CDS
ACTCGAGCACACTGACTCAA+TGG 0.522170 1.3:-4778063 MS.gene051692:CDS
ATTTGAAGAAGTTAAGTCGT+AGG 0.522993 1.3:+4778285 None:intergenic
ACCATTCCACAAATACCATC+AGG 0.530586 1.3:+4777795 None:intergenic
ATGAGGGATCTTGTAGGAAG+AGG 0.534453 1.3:-4777891 MS.gene051692:CDS
AGTCGTAGGGAGGATGGAAG+AGG 0.540218 1.3:+4778299 None:intergenic
ATATTGAGAGTGGGTAGTCT+AGG 0.541441 1.3:+4778216 None:intergenic
AGGCTTATGAGGGATCTTGT+AGG 0.549706 1.3:-4777897 MS.gene051692:CDS
AGCACACTGACTCAATGGTA+TGG 0.558828 1.3:-4778058 MS.gene051692:CDS
ACAAAGTATTCGTAGCAGTA+GGG 0.561588 1.3:-4778121 MS.gene051692:CDS
AACAAAGTATTCGTAGCAGT+AGG 0.566118 1.3:-4778122 MS.gene051692:CDS
TTAACCCCTCTGCGGTTCGG+CGG 0.568840 1.3:+4778159 None:intergenic
GAAGAAGTTAAGTCGTAGGG+AGG 0.570827 1.3:+4778289 None:intergenic
CATTCTCCGCCGAACCGCAG+AGG 0.581744 1.3:-4778165 MS.gene051692:CDS
GTTTCGTCGGATATTGAGAG+TGG 0.593105 1.3:+4778206 None:intergenic
TTGCTTGACAAGAAATGGTG+AGG 0.596575 1.3:+4778240 None:intergenic
GATAATATGCTGCTCTTACG+TGG 0.618724 1.3:-4778335 None:intergenic
AGTCCAAGCCCTTGAAACGA+AGG 0.624386 1.3:+4777939 None:intergenic
TGTTGTCGAGAGGCTTATGA+GGG 0.625783 1.3:-4777907 MS.gene051692:CDS
TTTGCAAGAGCTACTGGTGA+TGG 0.636078 1.3:-4777999 MS.gene051692:CDS
TTCTAGGTTTAACCCCTCTG+CGG 0.644451 1.3:+4778151 None:intergenic
TTTCGTCGGATATTGAGAGT+GGG 0.648674 1.3:+4778207 None:intergenic
TAGGGAAAGCTGTTGTCGAG+AGG 0.652617 1.3:-4777917 MS.gene051692:CDS
CAATGGTATGGATACAAGAG+AGG 0.657246 1.3:-4778046 MS.gene051692:CDS
TCGTAGCAGTAGGGTTTCCG+CGG 0.663293 1.3:-4778112 MS.gene051692:CDS
GGATCAGCAACAAAACCCAA+AGG 0.674227 1.3:+4777816 None:intergenic
GAGGAAGTCGCAGAATAATG+CGG 0.702415 1.3:-4778027 MS.gene051692:CDS
GACGAAACCCTAGAAAAGCG+AGG 0.715831 1.3:-4778191 MS.gene051692:CDS
TTCTCCGCCGAACCGCAGAG+GGG 0.756624 1.3:-4778163 MS.gene051692:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTTTTCAATGCCATAATAT+GGG - chr1.3:4778117-4778136 MS.gene051692:CDS 25.0%
AACAACAACATCCCATATTA+TGG + chr1.3:4778131-4778150 None:intergenic 30.0%
ATACTTTGTTAAGTGCTTCT+AGG + chr1.3:4777961-4777980 None:intergenic 30.0%
ATTTGAAGAAGTTAAGTCGT+AGG + chr1.3:4777811-4777830 None:intergenic 30.0%
TTTGAAGAAGTTAAGTCGTA+GGG + chr1.3:4777810-4777829 None:intergenic 30.0%
! GTGTTTTCAATGCCATAATA+TGG - chr1.3:4778116-4778135 MS.gene051692:CDS 30.0%
CTCAGAGTAAAGAGCAATAT+TGG + chr1.3:4778233-4778252 None:intergenic 35.0%
TTGTTGATCCTTCGTTTCAA+GGG - chr1.3:4778146-4778165 MS.gene051692:CDS 35.0%
! AACAAAGTATTCGTAGCAGT+AGG - chr1.3:4777971-4777990 MS.gene051692:CDS 35.0%
! ACAAAGTATTCGTAGCAGTA+GGG - chr1.3:4777972-4777991 MS.gene051692:CDS 35.0%
!! AATGAAACCTCGCTTTTCTA+GGG + chr1.3:4777912-4777931 None:intergenic 35.0%
ACCATTCCACAAATACCATC+AGG + chr1.3:4778301-4778320 None:intergenic 40.0%
ATATTGAGAGTGGGTAGTCT+AGG + chr1.3:4777880-4777899 None:intergenic 40.0%
CAATGGTATGGATACAAGAG+AGG - chr1.3:4778047-4778066 MS.gene051692:CDS 40.0%
CGATAAAAGCCAAGAACTCT+TGG + chr1.3:4778256-4778275 None:intergenic 40.0%
GTTGTTGATCCTTCGTTTCA+AGG - chr1.3:4778145-4778164 MS.gene051692:CDS 40.0%
TCCTGATGGTATTTGTGGAA+TGG - chr1.3:4778297-4778316 MS.gene051692:CDS 40.0%
TTGCTTGACAAGAAATGGTG+AGG + chr1.3:4777856-4777875 None:intergenic 40.0%
TTTCGTCGGATATTGAGAGT+GGG + chr1.3:4777889-4777908 None:intergenic 40.0%
! TAGGCTTGCTTGACAAGAAA+TGG + chr1.3:4777861-4777880 None:intergenic 40.0%
!! CTTGGCTTTTATCGACCTTT+GGG - chr1.3:4778262-4778281 MS.gene051692:CDS 40.0%
!! GAATGAAACCTCGCTTTTCT+AGG + chr1.3:4777913-4777932 None:intergenic 40.0%
!! TCTTGGCTTTTATCGACCTT+TGG - chr1.3:4778261-4778280 MS.gene051692:CDS 40.0%
AAGTTAAGTCGTAGGGAGGA+TGG + chr1.3:4777803-4777822 None:intergenic 45.0%
AGGCTTATGAGGGATCTTGT+AGG - chr1.3:4778196-4778215 MS.gene051692:CDS 45.0%
ATGAGGGATCTTGTAGGAAG+AGG - chr1.3:4778202-4778221 MS.gene051692:CDS 45.0%
GAAGAAGTTAAGTCGTAGGG+AGG + chr1.3:4777807-4777826 None:intergenic 45.0%
GAGGAAGTCGCAGAATAATG+CGG - chr1.3:4778066-4778085 MS.gene051692:CDS 45.0%
GCTGATCCTGATGGTATTTG+TGG - chr1.3:4778292-4778311 MS.gene051692:CDS 45.0%
GGATCAGCAACAAAACCCAA+AGG + chr1.3:4778280-4778299 None:intergenic 45.0%
GTTGCATTTGCAAGAGCTAC+TGG - chr1.3:4778088-4778107 MS.gene051692:CDS 45.0%
GTTTCGTCGGATATTGAGAG+TGG + chr1.3:4777890-4777909 None:intergenic 45.0%
TACTCTGAGCCAAGAGTTCT+TGG - chr1.3:4778244-4778263 MS.gene051692:CDS 45.0%
TGAGGGATCTTGTAGGAAGA+GGG - chr1.3:4778203-4778222 MS.gene051692:CDS 45.0%
TGTTGTCGAGAGGCTTATGA+GGG - chr1.3:4778186-4778205 MS.gene051692:CDS 45.0%
TTCTAGGTTTAACCCCTCTG+CGG + chr1.3:4777945-4777964 None:intergenic 45.0%
TTTGCAAGAGCTACTGGTGA+TGG - chr1.3:4778094-4778113 MS.gene051692:CDS 45.0%
! AGTGCAACGCGTATTTTCTC+AGG + chr1.3:4778013-4778032 None:intergenic 45.0%
! GTGCAACGCGTATTTTCTCA+GGG + chr1.3:4778012-4778031 None:intergenic 45.0%
!! AGCACACTGACTCAATGGTA+TGG - chr1.3:4778035-4778054 MS.gene051692:CDS 45.0%
!!! GGTTTTGTTGCTGATCCTGA+TGG - chr1.3:4778283-4778302 MS.gene051692:CDS 45.0%
!!! TCGCTTTTCTAGGGTTTCGT+CGG + chr1.3:4777903-4777922 None:intergenic 45.0%
AGTCCAAGCCCTTGAAACGA+AGG + chr1.3:4778157-4778176 None:intergenic 50.0%
CGTTTCAAGGGCTTGGACTA+GGG - chr1.3:4778158-4778177 MS.gene051692:CDS 50.0%
CTGTTGTCGAGAGGCTTATG+AGG - chr1.3:4778185-4778204 MS.gene051692:CDS 50.0%
GACGAAACCCTAGAAAAGCG+AGG - chr1.3:4777902-4777921 MS.gene051692:CDS 50.0%
GATCCTTCGTTTCAAGGGCT+TGG - chr1.3:4778151-4778170 MS.gene051692:CDS 50.0%
TAGGGAAAGCTGTTGTCGAG+AGG - chr1.3:4778176-4778195 MS.gene051692:CDS 50.0%
TCGTTTCAAGGGCTTGGACT+AGG - chr1.3:4778157-4778176 MS.gene051692:CDS 50.0%
!! ACTCGAGCACACTGACTCAA+TGG - chr1.3:4778030-4778049 MS.gene051692:CDS 50.0%
AGTCGTAGGGAGGATGGAAG+AGG + chr1.3:4777797-4777816 None:intergenic 55.0%
GGTTTAACCCCTCTGCGGTT+CGG + chr1.3:4777940-4777959 None:intergenic 55.0%
TCGTAGCAGTAGGGTTTCCG+CGG - chr1.3:4777981-4778000 MS.gene051692:CDS 55.0%
ATTCTCCGCCGAACCGCAGA+GGG - chr1.3:4777929-4777948 MS.gene051692:CDS 60.0%
! ATTTTCTCAGGGTCGCGCCG+CGG + chr1.3:4778001-4778020 None:intergenic 60.0%
! TTAACCCCTCTGCGGTTCGG+CGG + chr1.3:4777937-4777956 None:intergenic 60.0%
CATTCTCCGCCGAACCGCAG+AGG - chr1.3:4777928-4777947 MS.gene051692:CDS 65.0%
TTCTCCGCCGAACCGCAGAG+GGG - chr1.3:4777930-4777949 MS.gene051692:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 4777764 4778351 4777764 ID=MS.gene051692
chr1.3 mRNA 4777764 4778351 4777764 ID=MS.gene051692.t1;Parent=MS.gene051692
chr1.3 exon 4777764 4778351 4777764 ID=MS.gene051692.t1.exon1;Parent=MS.gene051692.t1
chr1.3 CDS 4777764 4778351 4777764 ID=cds.MS.gene051692.t1;Parent=MS.gene051692.t1
Gene Sequence

>MS.gene051692

ATGCTGCTCTTACGTGGCAACATCTATGCTCCTCTTCCATCCTCCCTACGACTTAACTTCTTCAAATCACAAACTCACTCACTACGAAACCTCACCATTTCTTGTCAAGCAAGCCTAGACTACCCACTCTCAATATCCGACGAAACCCTAGAAAAGCGAGGTTTCATTCTCCGCCGAACCGCAGAGGGGTTAAACCTAGAAGCACTTAACAAAGTATTCGTAGCAGTAGGGTTTCCGCGGCGCGACCCTGAGAAAATACGCGTTGCACTCGAGCACACTGACTCAATGGTATGGATACAAGAGAGGAAGTCGCAGAATAATGCGGTTGCATTTGCAAGAGCTACTGGTGATGGTGTTTTCAATGCCATAATATGGGATGTTGTTGTTGATCCTTCGTTTCAAGGGCTTGGACTAGGGAAAGCTGTTGTCGAGAGGCTTATGAGGGATCTTGTAGGAAGAGGGATTACCAATATTGCTCTTTACTCTGAGCCAAGAGTTCTTGGCTTTTATCGACCTTTGGGTTTTGTTGCTGATCCTGATGGTATTTGTGGAATGGTTTACTCGACAAAAAACAAAAGAAAAAAATAG

Protein sequence

>MS.gene051692.t1

MLLLRGNIYAPLPSSLRLNFFKSQTHSLRNLTISCQASLDYPLSISDETLEKRGFILRRTAEGLNLEALNKVFVAVGFPRRDPEKIRVALEHTDSMVWIQERKSQNNAVAFARATGDGVFNAIIWDVVVDPSFQGLGLGKAVVERLMRDLVGRGITNIALYSEPRVLGFYRPLGFVADPDGICGMVYSTKNKRKK