AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene066034


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066034.t1 MTR_1g075720 99.248 133 1 0 1 133 1 133 2.34e-90 258
MS.gene066034.t1 MTR_4g120770 95.489 133 6 0 1 133 1 133 4.44e-89 254
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene066034.t1 AT2G20450 84.962 133 20 0 1 133 1 133 7.52e-77 224
MS.gene066034.t1 AT4G27090 85.385 130 19 0 1 130 1 130 6.52e-76 221

Find 39 sgRNAs with CRISPR-Local

Find 83 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGAACCTATCAAAATCATTA+AGG 0.237759 1.2:-58342925 None:intergenic
TTGACGAGATCCTTCTTCTT+AGG 0.248112 1.2:-58342701 None:intergenic
GTCAACTATGGCCCAGATTA+TGG 0.258615 1.2:+58342454 MS.gene066034:CDS
GATTATGTTGGCCAAGATTA+AGG 0.263288 1.2:+58342949 MS.gene066034:CDS
ACAACGAGCTTGCCATAATC+TGG 0.305463 1.2:-58342466 None:intergenic
GAAAATGGGTTACCCTAGTT+TGG 0.329740 1.2:-58342507 None:intergenic
GAAAGCCTCTTGAAATTGAT+TGG 0.348542 1.2:-58342644 None:intergenic
CTAAAATTATACCTTAATCT+TGG 0.381940 1.2:-58342960 None:intergenic
TGCAGAGGGCTGGTGTTGTT+AGG 0.431787 1.2:+58343653 MS.gene066034:intron
TTGATGTTATCGACCAAACT+AGG 0.433748 1.2:+58342494 MS.gene066034:CDS
GAACCTATCAAAATCATTAA+GGG 0.440003 1.2:-58342924 None:intergenic
AACAATCAATTTCCTTCCCC+AGG 0.448020 1.2:-58342885 None:intergenic
ATTGGAGCTCTCTCCATGTC+AGG 0.463357 1.2:-58342626 None:intergenic
GCTGAGGAAGACCGCTGCTT+AGG 0.472651 1.2:+58343690 MS.gene066034:CDS
AATTCTACCTGCAGCTTCCA+TGG 0.474519 1.2:-58342726 None:intergenic
AGAGTTGCACTTGTCAACTA+TGG 0.476767 1.2:+58342442 MS.gene066034:CDS
TTTCAATTTGTGCAGAGGGC+TGG 0.483986 1.2:+58343643 MS.gene066034:intron
GGAAATTGATTGTTAAGAAG+AGG 0.493248 1.2:+58342894 MS.gene066034:CDS
TTCAAGAGGTTTGTTGAGAT+CGG 0.494020 1.2:+58342418 MS.gene066034:CDS
CAAGAGAGTTCCTAAGAAGA+AGG 0.504705 1.2:+58342691 MS.gene066034:CDS
ACAAGTGGGAGAAGAGCTCC+TGG 0.539704 1.2:+58342867 MS.gene066034:CDS
AATTGATTGTTAAGAAGAGG+AGG 0.539799 1.2:+58342897 MS.gene066034:CDS
TGATAGGTTCAAGATTATGT+TGG 0.542816 1.2:+58342937 MS.gene066034:CDS
CAACGAGCTTGCCATAATCT+GGG 0.548769 1.2:-58342465 None:intergenic
TGATAGATGTGAAGAACAAG+TGG 0.562094 1.2:+58342852 MS.gene066034:intron
GTCAAAGCCATGGAAGCTGC+AGG 0.563654 1.2:+58342719 MS.gene066034:CDS
ATCTCAACAAACCTCTTGAA+CGG 0.571035 1.2:-58342415 None:intergenic
GAAGGATCTCGTCAAAGCCA+TGG 0.572972 1.2:+58342709 MS.gene066034:CDS
GAGCTCCAATCAATTTCAAG+AGG 0.584468 1.2:+58342639 MS.gene066034:CDS
GGGAGAAGAGCTCCTGGGGA+AGG 0.586483 1.2:+58342873 MS.gene066034:CDS
TCTTTGTTCAGCCGTTCAAG+AGG 0.591089 1.2:+58342404 MS.gene066034:intron
TCTTGTTGATGCACCTGACA+TGG 0.596389 1.2:+58342613 MS.gene066034:CDS
ATTGATTGTTAAGAAGAGGA+GGG 0.602431 1.2:+58342898 MS.gene066034:CDS
TGATGTTATCGACCAAACTA+GGG 0.607546 1.2:+58342495 MS.gene066034:CDS
GGCAAGAACTTGCTAAGCTG+AGG 0.613930 1.2:+58343674 MS.gene066034:CDS
AAGTGGGAGAAGAGCTCCTG+GGG 0.619297 1.2:+58342869 MS.gene066034:CDS
GATAGATGTGAAGAACAAGT+GGG 0.623335 1.2:+58342853 MS.gene066034:intron
CAAGTGGGAGAAGAGCTCCT+GGG 0.641380 1.2:+58342868 MS.gene066034:CDS
ATGAAGTAATGCCTAAGCAG+CGG 0.686386 1.2:-58343701 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ACAAAAATAAATACATAGAT+AGG - chr1.2:58342763-58342782 None:intergenic 15.0%
!! TATGTTCAAAAATTGTTAAA+TGG - chr1.2:58343476-58343495 None:intergenic 15.0%
!! TTTGGTTAAATAACTTAATT+AGG + chr1.2:58343031-58343050 MS.gene066034:intron 15.0%
!!! AATTGGATTTTTTTTTTTTG+TGG + chr1.2:58342809-58342828 MS.gene066034:intron 15.0%
!!! TTTTTTTTTTTTGTGGTAAT+TGG + chr1.2:58342816-58342835 MS.gene066034:intron 15.0%
!! AAAGATTGGAAATTTGAAAA+TGG - chr1.2:58342525-58342544 None:intergenic 20.0%
!! AAGATTGGAAATTTGAAAAT+GGG - chr1.2:58342524-58342543 None:intergenic 20.0%
!! ATTAGAGAAAGATTAAGAAA+TGG - chr1.2:58342372-58342391 None:intergenic 20.0%
!! CTAAAATTATACCTTAATCT+TGG - chr1.2:58342963-58342982 None:intergenic 20.0%
!! TTAAGTTATTTAACCAAACA+AGG - chr1.2:58343029-58343048 None:intergenic 20.0%
!! TTAAGTTATTTATCCAAACA+GGG - chr1.2:58343111-58343130 None:intergenic 20.0%
!! TTTGGATAAATAACTTAACT+TGG + chr1.2:58343113-58343132 MS.gene066034:intron 20.0%
!!! AATCTGTTTCTTAAGTTATT+TGG + chr1.2:58343433-58343452 MS.gene066034:intron 20.0%
!!! ATTGTTTTTGTATAAGCTTT+AGG + chr1.2:58343215-58343234 MS.gene066034:intron 20.0%
!!! CATATTTTGTTTGTTGAAAT+TGG + chr1.2:58342792-58342811 MS.gene066034:intron 20.0%
!!! TGTTTTTTCAAATTGTGTTT+TGG + chr1.2:58343582-58343601 MS.gene066034:intron 20.0%
!!! TTGTTTTTGTATAAGCTTTA+GGG + chr1.2:58343216-58343235 MS.gene066034:intron 20.0%
!!! TTTTCATAAGTTAATCCAAA+CGG - chr1.2:58343243-58343262 None:intergenic 20.0%
! ATAATTTCAATTTGTGCAGA+GGG + chr1.2:58343639-58343658 MS.gene066034:intron 25.0%
! GAACCTATCAAAATCATTAA+GGG - chr1.2:58342927-58342946 None:intergenic 25.0%
! GTTAAGTTATTTATCCAAAC+AGG - chr1.2:58343112-58343131 None:intergenic 25.0%
! TGAACCTATCAAAATCATTA+AGG - chr1.2:58342928-58342947 None:intergenic 25.0%
!!! TTGTGAAATGCTTTTAAGTT+AGG + chr1.2:58343085-58343104 MS.gene066034:intron 25.0%
!!! TTGTGAAATGCTTTTTAGTT+AGG + chr1.2:58343003-58343022 MS.gene066034:intron 25.0%
!!! TTTTGAGAAATTACGCAAAT+GGG - chr1.2:58342565-58342584 None:intergenic 25.0%
!!! TTTTTGAGAAATTACGCAAA+TGG - chr1.2:58342566-58342585 None:intergenic 25.0%
AAAGTTGTATCTTCATAAGC+TGG + chr1.2:58343318-58343337 MS.gene066034:intron 30.0%
AATTGATTGTTAAGAAGAGG+AGG + chr1.2:58342897-58342916 MS.gene066034:CDS 30.0%
ATTGATTGTTAAGAAGAGGA+GGG + chr1.2:58342898-58342917 MS.gene066034:CDS 30.0%
CATAATTTCAATTTGTGCAG+AGG + chr1.2:58343638-58343657 MS.gene066034:intron 30.0%
GGAAATTGATTGTTAAGAAG+AGG + chr1.2:58342894-58342913 MS.gene066034:CDS 30.0%
GGTTGAAAATGGAAAAAGAT+TGG - chr1.2:58342539-58342558 None:intergenic 30.0%
TAATATTCATGAGCTTGTCA+AGG - chr1.2:58343358-58343377 None:intergenic 30.0%
TGATAGGTTCAAGATTATGT+TGG + chr1.2:58342937-58342956 MS.gene066034:CDS 30.0%
TGGAGCTTATTGTGTAAATT+TGG + chr1.2:58343133-58343152 MS.gene066034:intron 30.0%
! AATTAGGCTTTTAGTGTAGT+TGG + chr1.2:58343047-58343066 MS.gene066034:intron 30.0%
!!! TTGTGATTTGTTTGTTTTGC+AGG + chr1.2:58342589-58342608 MS.gene066034:intron 30.0%
AAACCCTATAAACTCAGCTA+AGG - chr1.2:58343557-58343576 None:intergenic 35.0%
AACCCTATAAACTCAGCTAA+GGG - chr1.2:58343556-58343575 None:intergenic 35.0%
ACCAACTTGAAACTTATGTG+TGG - chr1.2:58343499-58343518 None:intergenic 35.0%
ATCTCAACAAACCTCTTGAA+CGG - chr1.2:58342418-58342437 None:intergenic 35.0%
CAGATTAAGTCTGTTCAGAT+TGG - chr1.2:58343419-58343438 None:intergenic 35.0%
GAAAGCCTCTTGAAATTGAT+TGG - chr1.2:58342647-58342666 None:intergenic 35.0%
GATAGATGTGAAGAACAAGT+GGG + chr1.2:58342853-58342872 MS.gene066034:intron 35.0%
GATTATGTTGGCCAAGATTA+AGG + chr1.2:58342949-58342968 MS.gene066034:CDS 35.0%
GGTTATTATACGAGCTGTTA+TGG + chr1.2:58343154-58343173 MS.gene066034:intron 35.0%
TGATAGATGTGAAGAACAAG+TGG + chr1.2:58342852-58342871 MS.gene066034:intron 35.0%
TGATGTTATCGACCAAACTA+GGG + chr1.2:58342495-58342514 MS.gene066034:CDS 35.0%
TTGATGTTATCGACCAAACT+AGG + chr1.2:58342494-58342513 MS.gene066034:CDS 35.0%
! ACCACACATAAGTTTCAAGT+TGG + chr1.2:58343495-58343514 MS.gene066034:intron 35.0%
!! CTGCCCTTAATGATTTTGAT+AGG + chr1.2:58342921-58342940 MS.gene066034:CDS 35.0%
!! TTCAAGAGGTTTGTTGAGAT+CGG + chr1.2:58342418-58342437 MS.gene066034:CDS 35.0%
!!! CTTTTTAGTTAGGCCTTGTT+TGG + chr1.2:58343013-58343032 MS.gene066034:intron 35.0%
AACAATCAATTTCCTTCCCC+AGG - chr1.2:58342888-58342907 None:intergenic 40.0%
AAGCCCTTAGCTGAGTTTAT+AGG + chr1.2:58343550-58343569 MS.gene066034:intron 40.0%
AGAGTTGCACTTGTCAACTA+TGG + chr1.2:58342442-58342461 MS.gene066034:CDS 40.0%
AGCCCTTAGCTGAGTTTATA+GGG + chr1.2:58343551-58343570 MS.gene066034:intron 40.0%
CAAGAGAGTTCCTAAGAAGA+AGG + chr1.2:58342691-58342710 MS.gene066034:CDS 40.0%
GAGCTCCAATCAATTTCAAG+AGG + chr1.2:58342639-58342658 MS.gene066034:CDS 40.0%
TTGACGAGATCCTTCTTCTT+AGG - chr1.2:58342704-58342723 None:intergenic 40.0%
! AGAAATTACGCAAATGGGCT+AGG - chr1.2:58342560-58342579 None:intergenic 40.0%
!! CAAATGGGCTAGGTTGAAAA+TGG - chr1.2:58342550-58342569 None:intergenic 40.0%
!! GAAAATGGGTTACCCTAGTT+TGG - chr1.2:58342510-58342529 None:intergenic 40.0%
!! TATAAGCTTTAGGGTCCGTT+TGG + chr1.2:58343225-58343244 MS.gene066034:intron 40.0%
!!! CTTTTAAGTTAGGCCCTGTT+TGG + chr1.2:58343095-58343114 MS.gene066034:intron 40.0%
AATTCTACCTGCAGCTTCCA+TGG - chr1.2:58342729-58342748 None:intergenic 45.0%
ACAACGAGCTTGCCATAATC+TGG - chr1.2:58342469-58342488 None:intergenic 45.0%
CAACGAGCTTGCCATAATCT+GGG - chr1.2:58342468-58342487 None:intergenic 45.0%
GTCAACTATGGCCCAGATTA+TGG + chr1.2:58342454-58342473 MS.gene066034:CDS 45.0%
TCTTGTTGATGCACCTGACA+TGG + chr1.2:58342613-58342632 MS.gene066034:CDS 45.0%
TCTTTGTTCAGCCGTTCAAG+AGG + chr1.2:58342404-58342423 MS.gene066034:intron 45.0%
TTTCAATTTGTGCAGAGGGC+TGG + chr1.2:58343643-58343662 MS.gene066034:intron 45.0%
! AACTCAGCTAAGGGCTTGTT+TGG - chr1.2:58343547-58343566 None:intergenic 45.0%
! AGCTAAGGGCTTGTTTGGAT+TGG - chr1.2:58343542-58343561 None:intergenic 45.0%
ATTGGAGCTCTCTCCATGTC+AGG - chr1.2:58342629-58342648 None:intergenic 50.0%
GAAGGATCTCGTCAAAGCCA+TGG + chr1.2:58342709-58342728 MS.gene066034:CDS 50.0%
!! GGCAAGAACTTGCTAAGCTG+AGG + chr1.2:58343674-58343693 MS.gene066034:CDS 50.0%
AAGTGGGAGAAGAGCTCCTG+GGG + chr1.2:58342869-58342888 MS.gene066034:CDS 55.0%
ACAAGTGGGAGAAGAGCTCC+TGG + chr1.2:58342867-58342886 MS.gene066034:CDS 55.0%
CAAGTGGGAGAAGAGCTCCT+GGG + chr1.2:58342868-58342887 MS.gene066034:CDS 55.0%
GTCAAAGCCATGGAAGCTGC+AGG + chr1.2:58342719-58342738 MS.gene066034:CDS 55.0%
!! TGCAGAGGGCTGGTGTTGTT+AGG + chr1.2:58343653-58343672 MS.gene066034:intron 55.0%
GGGAGAAGAGCTCCTGGGGA+AGG + chr1.2:58342873-58342892 MS.gene066034:CDS 65.0%


Chromosome Type Strat End Strand Name
chr1.2 gene 58342330 58343711 58342330 ID=MS.gene066034
chr1.2 mRNA 58342330 58343711 58342330 ID=MS.gene066034.t1;Parent=MS.gene066034
chr1.2 exon 58342330 58342332 58342330 ID=MS.gene066034.t1.exon1;Parent=MS.gene066034.t1
chr1.2 CDS 58342330 58342332 58342330 ID=cds.MS.gene066034.t1;Parent=MS.gene066034.t1
chr1.2 exon 58342415 58342516 58342415 ID=MS.gene066034.t1.exon2;Parent=MS.gene066034.t1
chr1.2 CDS 58342415 58342516 58342415 ID=cds.MS.gene066034.t1;Parent=MS.gene066034.t1
chr1.2 exon 58342611 58342740 58342611 ID=MS.gene066034.t1.exon3;Parent=MS.gene066034.t1
chr1.2 CDS 58342611 58342740 58342611 ID=cds.MS.gene066034.t1;Parent=MS.gene066034.t1
chr1.2 exon 58342858 58342970 58342858 ID=MS.gene066034.t1.exon4;Parent=MS.gene066034.t1
chr1.2 CDS 58342858 58342970 58342858 ID=cds.MS.gene066034.t1;Parent=MS.gene066034.t1
chr1.2 exon 58343658 58343711 58343658 ID=MS.gene066034.t1.exon5;Parent=MS.gene066034.t1
chr1.2 CDS 58343658 58343711 58343658 ID=cds.MS.gene066034.t1;Parent=MS.gene066034.t1
Gene Sequence

>MS.gene066034

ATGGTGAATCACATTTCTCTGTTCATCTTTGTCTCAATTCCATTTCTTAATCTTTCTCTAATCTCACTGTGTGTTCTTTGTTCAGCCGTTCAAGAGGTTTGTTGAGATCGGAAGAGTTGCACTTGTCAACTATGGCCCAGATTATGGCAAGCTCGTTGTTATCGTTGATGTTATCGACCAAACTAGGGTAACCCATTTTCAAATTTCCAATCTTTTTCCATTTTCAACCTAGCCCATTTGCGTAATTTCTCAAAAATGTTTGTGATTTGTTTGTTTTGCAGGCTCTTGTTGATGCACCTGACATGGAGAGAGCTCCAATCAATTTCAAGAGGCTTTCTCTAACTGATATCAAGATTGATATCAAGAGAGTTCCTAAGAAGAAGGATCTCGTCAAAGCCATGGAAGCTGCAGGTAGAATTTCTTCTATTAACCTATCTATGTATTTATTTTTGTTTTTGTTTTCATATTTTGTTTGTTGAAATTGGATTTTTTTTTTTTGTGGTAATTGGTTTTGTTTGAATTTGATAGATGTGAAGAACAAGTGGGAGAAGAGCTCCTGGGGAAGGAAATTGATTGTTAAGAAGAGGAGGGCTGCCCTTAATGATTTTGATAGGTTCAAGATTATGTTGGCCAAGATTAAGGTATAATTTTAGTTGCTGTTTTTTGTTTTCTGTTGTGAAATGCTTTTTAGTTAGGCCTTGTTTGGTTAAATAACTTAATTAGGCTTTTAGTGTAGTTGGCTATTATAGAAGCTGTTGTGAAATGCTTTTAAGTTAGGCCCTGTTTGGATAAATAACTTAACTTGGAGCTTATTGTGTAAATTTGGTTATTATACGAGCTGTTATGGATGAGCTGTTTCTATCGCACAAGATAAAATGAAGTCAAATTGTTTTTGTATAAGCTTTAGGGTCCGTTTGGATTAACTTATGAAAAATAGCTTATGCGAACATATATGCTTTGAACTTAATTCATAAGTTCTCACTAACAAAAAGTTGTATCTTCATAAGCTGGTTTTTCATAGACTTCCTTGACAAGCTCATGAATATTACATAATTTTTTTTTATTTGTATAAAGCTCAAAGAGAAGCCAATCTGAACAGACTTAATCTGTTTCTTAAGTTATTTGGAGAACTTGTCAAATGAACCATTTAACAATTTTTGAACATACCACACATAAGTTTCAAGTTGGTAGTTGATAAGCTAAAAGAAGCCAATCCAAACAAGCCCTTAGCTGAGTTTATAGGGTTTGATTCTGTTTTTTCAAATTGTGTTTTGGTTGTATTCATTCTTATGTAGTGTTGACGACGATCATAATTTCAATTTGTGCAGAGGGCTGGTGTTGTTAGGCAAGAACTTGCTAAGCTGAGGAAGACCGCTGCTTAG

Protein sequence

>MS.gene066034.t1

MPFKRFVEIGRVALVNYGPDYGKLVVIVDVIDQTRALVDAPDMERAPINFKRLSLTDIKIDIKRVPKKKDLVKAMEAADVKNKWEKSSWGRKLIVKKRRAALNDFDRFKIMLAKIKRAGVVRQELAKLRKTAA