AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene050953


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050953.t1 MTR_7g112110 96.682 211 7 0 1 211 5 215 1.26e-151 419
MS.gene050953.t1 MTR_7g112120 78.641 206 40 2 1 202 1 206 2.33e-115 328
MS.gene050953.t1 MTR_1g084040 74.020 204 53 0 1 204 3 206 1.46e-105 305
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene050953.t1 AT1G56423 66.010 203 69 0 1 203 1 203 9.21e-98 285
MS.gene050953.t1 AT1G56423 66.010 203 69 0 1 203 1 203 1.05e-97 285

Find 53 sgRNAs with CRISPR-Local

Find 100 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
ATTATTAAATTGCTTTGATA+TGG 0.171309 7.1:-3814160 MS.gene050953:CDS
TAATGTAAACTTCCCACTTT+TGG 0.220946 7.1:+3814179 None:intergenic
TGTGATGCGGTTGGCCTTAC+GGG 0.286048 7.1:+3813942 None:intergenic
AGAGGAACTGGTACGTTGTT+TGG 0.307326 7.1:-3813844 MS.gene050953:CDS
GAGCAAAGGCTTGGAAGATT+TGG 0.325168 7.1:-3813796 MS.gene050953:CDS
CTGTGATGCGGTTGGCCTTA+CGG 0.349279 7.1:+3813941 None:intergenic
AACTTACGGTGTAGGTTTCA+TGG 0.367784 7.1:-3813821 MS.gene050953:CDS
TTATTAAATTGCTTTGATAT+GGG 0.378126 7.1:-3814159 MS.gene050953:CDS
GGAAGATTTGGTTATCTTGT+TGG 0.387002 7.1:-3813784 MS.gene050953:CDS
TTATCTTGTTGGAAGTCAAT+TGG 0.396840 7.1:-3813773 MS.gene050953:CDS
TTGGAAGTCAATTGGGAAGT+TGG 0.398362 7.1:-3813765 MS.gene050953:CDS
AGTTGGATTGGAAGTAGAAT+AGG 0.408974 7.1:-3813748 MS.gene050953:CDS
TCTTGTTGATGCTGCTTCAC+AGG 0.412869 7.1:-3814031 MS.gene050953:CDS
AATTGCTTTGATATGGGCTC+AGG 0.437174 7.1:-3814153 MS.gene050953:CDS
GTGCATTTCGTGTTGCAGTA+TGG 0.438736 7.1:-3813697 MS.gene050953:CDS
TATCTTGTTGGAAGTCAATT+GGG 0.442064 7.1:-3813772 MS.gene050953:CDS
GAGGGATTCCTCAGAGGAAC+TGG 0.444285 7.1:-3813856 MS.gene050953:CDS
GGTACGTTGTTTGGAACTTA+CGG 0.445217 7.1:-3813835 MS.gene050953:CDS
AGTCAATTGGGAAGTTGGAT+TGG 0.450366 7.1:-3813760 MS.gene050953:CDS
GTCCCATCCGGAAGAGATGA+TGG 0.461346 7.1:+3813915 None:intergenic
ATGGTATATGATGTGGCTAA+TGG 0.468429 7.1:-3813721 MS.gene050953:CDS
TTTGAAGCTGTTTACTATGG+TGG 0.481190 7.1:-3813889 MS.gene050953:CDS
CAATGATGGCAGATACAGAT+AGG 0.486572 7.1:+3814955 None:intergenic
GAGAACGCGTCATCCAAAAG+TGG 0.497930 7.1:-3814192 MS.gene050953:CDS
GTTGGATTGGAAGTAGAATA+GGG 0.502946 7.1:-3813747 MS.gene050953:CDS
ACAGGTCCCATCATCTCTTC+CGG 0.504313 7.1:-3813922 MS.gene050953:CDS
ATCATTGTTCTTAGCATCAC+AGG 0.509850 7.1:-3814939 MS.gene050953:intron
CTTGTTGATGCTGCTTCACA+GGG 0.511056 7.1:-3814030 MS.gene050953:CDS
CAGCATCAACAAGAGCAGAT+TGG 0.514551 7.1:+3814040 None:intergenic
TTGTTTGGAACTTACGGTGT+AGG 0.526991 7.1:-3813829 MS.gene050953:CDS
CGTAAGGCCAACCGCATCAC+AGG 0.530423 7.1:-3813940 MS.gene050953:CDS
ACTTACGGTGTAGGTTTCAT+GGG 0.535716 7.1:-3813820 MS.gene050953:CDS
TCCCATCATCTCTTCCGGAT+GGG 0.537093 7.1:-3813917 MS.gene050953:CDS
GGCGAAATTGGCTACCCGTA+AGG 0.540905 7.1:-3813956 MS.gene050953:CDS
GGCTCAGGAACGCTAGCATG+TGG 0.544815 7.1:-3814138 MS.gene050953:CDS
GTCCCATCATCTCTTCCGGA+TGG 0.557344 7.1:-3813918 MS.gene050953:CDS
TCTGAGGAATCCCTCTGTAA+AGG 0.559119 7.1:+3813864 None:intergenic
CTCAGGAACGCTAGCATGTG+GGG 0.570098 7.1:-3814136 MS.gene050953:CDS
TGGAAGTAGAATAGGGCTCA+TGG 0.576358 7.1:-3813740 MS.gene050953:CDS
TCTCCTCTTCTGAAAATCCA+TGG 0.583117 7.1:+3814989 None:intergenic
TATGGTGGTACCTTTACAGA+GGG 0.585211 7.1:-3813874 MS.gene050953:CDS
GCTCAGGAACGCTAGCATGT+GGG 0.607284 7.1:-3814137 MS.gene050953:CDS
TCCCATCCGGAAGAGATGAT+GGG 0.613844 7.1:+3813916 None:intergenic
TGTGATGCTAAGAACAATGA+TGG 0.627342 7.1:+3814941 None:intergenic
GATGGGACCTGTGATGCGGT+TGG 0.637538 7.1:+3813933 None:intergenic
AGAACGCGTCATCCAAAAGT+GGG 0.637848 7.1:-3814191 MS.gene050953:CDS
AGGGCTCATGGTATATGATG+TGG 0.638967 7.1:-3813728 MS.gene050953:CDS
CTATGGTGGTACCTTTACAG+AGG 0.649919 7.1:-3813875 MS.gene050953:CDS
CTTACGGTGTAGGTTTCATG+GGG 0.659609 7.1:-3813819 MS.gene050953:CDS
TTTACAGAGGGATTCCTCAG+AGG 0.683356 7.1:-3813862 MS.gene050953:CDS
ACAACGTACCAGTTCCTCTG+AGG 0.700531 7.1:+3813848 None:intergenic
AGATGATGGGACCTGTGATG+CGG 0.719348 7.1:+3813929 None:intergenic
TTACGGTGTAGGTTTCATGG+GGG 0.787530 7.1:-3813818 MS.gene050953:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! GAAATTATAATTAATGAAAA+TGG + chr7.1:3814404-3814423 None:intergenic 10.0%
!! ATTATTAAATTGCTTTGATA+TGG - chr7.1:3814502-3814521 MS.gene050953:intron 15.0%
!! ATTTGAATTTATCTATCTAA+TGG + chr7.1:3814243-3814262 None:intergenic 15.0%
!! TTATTAAATTGCTTTGATAT+GGG - chr7.1:3814503-3814522 MS.gene050953:intron 15.0%
!! AGGTTCAAAAATAGTATTAA+TGG + chr7.1:3813764-3813783 None:intergenic 20.0%
!! GGTTCAAAAATAGTATTAAT+GGG + chr7.1:3813763-3813782 None:intergenic 20.0%
!!! AATTGTCTTTATAACGTTTT+GGG - chr7.1:3813812-3813831 MS.gene050953:CDS 20.0%
!!! TAATTGTCTTTATAACGTTT+TGG - chr7.1:3813811-3813830 MS.gene050953:CDS 20.0%
!!! TTTTTTGAAAAAGTGATGTA+AGG + chr7.1:3814322-3814341 None:intergenic 20.0%
! AAATTATTGACCCCAAAAAT+TGG - chr7.1:3813902-3813921 MS.gene050953:CDS 25.0%
!!! AATTTTTGGGGTCAATAATT+TGG + chr7.1:3813903-3813922 None:intergenic 25.0%
!!! TTTTTTGAAGCTGTTTACTA+TGG - chr7.1:3814770-3814789 MS.gene050953:intron 25.0%
AATTAACGGCAGTAATTTAG+GGG - chr7.1:3813838-3813857 MS.gene050953:CDS 30.0%
AATTGTTCCTTACATCAAAG+TGG - chr7.1:3814340-3814359 MS.gene050953:intron 30.0%
CAATTAACGGCAGTAATTTA+GGG - chr7.1:3813837-3813856 MS.gene050953:CDS 30.0%
TATCTTGTTGGAAGTCAATT+GGG - chr7.1:3814890-3814909 MS.gene050953:intron 30.0%
TCAATTAACGGCAGTAATTT+AGG - chr7.1:3813836-3813855 MS.gene050953:CDS 30.0%
TGAATAAGATAAACCTGATC+AGG + chr7.1:3813870-3813889 None:intergenic 30.0%
TGGGTTCTCATATTTAACTA+TGG - chr7.1:3814375-3814394 MS.gene050953:intron 30.0%
TTATCTTGTTGGAAGTCAAT+TGG - chr7.1:3814889-3814908 MS.gene050953:intron 30.0%
! CTATTCTAGCATGGATTTTA+TGG - chr7.1:3813948-3813967 MS.gene050953:CDS 30.0%
! CTTTCTTTTCTATTCTAGCA+TGG - chr7.1:3813939-3813958 MS.gene050953:CDS 30.0%
! TAATGTAAACTTCCCACTTT+TGG + chr7.1:3814486-3814505 None:intergenic 30.0%
!!! AACGTTTTGGGTTCAATTAA+CGG - chr7.1:3813824-3813843 MS.gene050953:CDS 30.0%
AAGCTATCTTGAAGAGTTTG+TGG - chr7.1:3814134-3814153 MS.gene050953:CDS 35.0%
ATCATTGTTCTTAGCATCAC+AGG - chr7.1:3813723-3813742 MS.gene050953:CDS 35.0%
ATGGTATATGATGTGGCTAA+TGG - chr7.1:3814941-3814960 MS.gene050953:CDS 35.0%
CCTGAAACAAGGTAAAAAAG+CGG - chr7.1:3814685-3814704 MS.gene050953:intron 35.0%
TGTGATGCTAAGAACAATGA+TGG + chr7.1:3813724-3813743 None:intergenic 35.0%
TTGAATTGAGTCTGATGTGA+AGG + chr7.1:3813784-3813803 None:intergenic 35.0%
! AGTTGGATTGGAAGTAGAAT+AGG - chr7.1:3814914-3814933 MS.gene050953:intron 35.0%
! ATTTTCAGAAGAGGAGAGTT+CGG - chr7.1:3813679-3813698 MS.gene050953:CDS 35.0%
! GGAAGATTTGGTTATCTTGT+TGG - chr7.1:3814878-3814897 MS.gene050953:intron 35.0%
! GTTGGATTGGAAGTAGAATA+GGG - chr7.1:3814915-3814934 MS.gene050953:intron 35.0%
! TTTGAAGCTGTTTACTATGG+TGG - chr7.1:3814773-3814792 MS.gene050953:intron 35.0%
!!! CGCTTTTTTACCTTGTTTCA+GGG + chr7.1:3814687-3814706 None:intergenic 35.0%
!!! GCATGTTTTTCTGAAGCAAT+TGG + chr7.1:3814665-3814684 None:intergenic 35.0%
AAATATGAGAACCCAGAGCT+AGG + chr7.1:3814370-3814389 None:intergenic 40.0%
AACTTACGGTGTAGGTTTCA+TGG - chr7.1:3814841-3814860 MS.gene050953:intron 40.0%
AATATGAGAACCCAGAGCTA+GGG + chr7.1:3814369-3814388 None:intergenic 40.0%
AATTGCTTTGATATGGGCTC+AGG - chr7.1:3814509-3814528 MS.gene050953:intron 40.0%
ACTTACGGTGTAGGTTTCAT+GGG - chr7.1:3814842-3814861 MS.gene050953:intron 40.0%
AGCTTCAAAAAAGTCCCATC+CGG + chr7.1:3814762-3814781 None:intergenic 40.0%
AGGGAAACCACTTTGATGTA+AGG + chr7.1:3814350-3814369 None:intergenic 40.0%
AGGTAAAAAAGCGGCGAAAT+TGG - chr7.1:3814694-3814713 MS.gene050953:intron 40.0%
AGTCAATTGGGAAGTTGGAT+TGG - chr7.1:3814902-3814921 MS.gene050953:intron 40.0%
CAATGATGGCAGATACAGAT+AGG + chr7.1:3813710-3813729 None:intergenic 40.0%
GAAAAACATGCCCTGAAACA+AGG - chr7.1:3814674-3814693 MS.gene050953:intron 40.0%
TATGGTGGTACCTTTACAGA+GGG - chr7.1:3814788-3814807 MS.gene050953:intron 40.0%
TTGACCCCAAAAATTGGCAT+AGG - chr7.1:3813908-3813927 MS.gene050953:CDS 40.0%
TTGGAAGTCAATTGGGAAGT+TGG - chr7.1:3814897-3814916 MS.gene050953:intron 40.0%
! CGTCTCCTATGCCAATTTTT+GGG + chr7.1:3813916-3813935 None:intergenic 40.0%
! GGTACGTTGTTTGGAACTTA+CGG - chr7.1:3814827-3814846 MS.gene050953:intron 40.0%
! GTCTCCTATGCCAATTTTTG+GGG + chr7.1:3813915-3813934 None:intergenic 40.0%
! TCGTCTCCTATGCCAATTTT+TGG + chr7.1:3813917-3813936 None:intergenic 40.0%
! TTGTTTGGAACTTACGGTGT+AGG - chr7.1:3814833-3814852 MS.gene050953:intron 40.0%
!!! CCGCTTTTTTACCTTGTTTC+AGG + chr7.1:3814688-3814707 None:intergenic 40.0%
AGAACGCGTCATCCAAAAGT+GGG - chr7.1:3814471-3814490 MS.gene050953:intron 45.0%
AGAGGAACTGGTACGTTGTT+TGG - chr7.1:3814818-3814837 MS.gene050953:intron 45.0%
AGGGCTCATGGTATATGATG+TGG - chr7.1:3814934-3814953 MS.gene050953:intron 45.0%
CAGCATCAACAAGAGCAGAT+TGG + chr7.1:3814625-3814644 None:intergenic 45.0%
CCGTTCAGCTGAAAAATGCA+GGG - chr7.1:3814436-3814455 MS.gene050953:intron 45.0%
CTATGGTGGTACCTTTACAG+AGG - chr7.1:3814787-3814806 MS.gene050953:intron 45.0%
CTTACGGTGTAGGTTTCATG+GGG - chr7.1:3814843-3814862 MS.gene050953:intron 45.0%
GAAAAATGCAGGGAGCTTGT+TGG - chr7.1:3814446-3814465 MS.gene050953:intron 45.0%
GAGCAAAGGCTTGGAAGATT+TGG - chr7.1:3814866-3814885 MS.gene050953:intron 45.0%
GTGCATTTCGTGTTGCAGTA+TGG - chr7.1:3814965-3814984 MS.gene050953:CDS 45.0%
TCATTACCACATCACGACAC+AGG + chr7.1:3814283-3814302 None:intergenic 45.0%
TCCGTTCAGCTGAAAAATGC+AGG - chr7.1:3814435-3814454 MS.gene050953:intron 45.0%
TCTGAGGAATCCCTCTGTAA+AGG + chr7.1:3814801-3814820 None:intergenic 45.0%
TGGAAGTAGAATAGGGCTCA+TGG - chr7.1:3814922-3814941 MS.gene050953:intron 45.0%
TTACGGTGTAGGTTTCATGG+GGG - chr7.1:3814844-3814863 MS.gene050953:intron 45.0%
TTTACAGAGGGATTCCTCAG+AGG - chr7.1:3814800-3814819 MS.gene050953:intron 45.0%
! AAAGTGGTTTCCCTAGCTCT+GGG - chr7.1:3814356-3814375 MS.gene050953:intron 45.0%
! CTTGTTGATGCTGCTTCACA+GGG - chr7.1:3814632-3814651 MS.gene050953:intron 45.0%
! TCTTGTTGATGCTGCTTCAC+AGG - chr7.1:3814631-3814650 MS.gene050953:intron 45.0%
! TTAGGGGAGTTTTCCTGATC+AGG - chr7.1:3813854-3813873 MS.gene050953:CDS 45.0%
!! CCCTGCATTTTTCAGCTGAA+CGG + chr7.1:3814439-3814458 None:intergenic 45.0%
AACAGACCTGTGTCGTGATG+TGG - chr7.1:3814274-3814293 MS.gene050953:intron 50.0%
ACAACGTACCAGTTCCTCTG+AGG + chr7.1:3814817-3814836 None:intergenic 50.0%
ACAGGTCCCATCATCTCTTC+CGG - chr7.1:3814740-3814759 MS.gene050953:intron 50.0%
CAAAGTGGTTTCCCTAGCTC+TGG - chr7.1:3814355-3814374 MS.gene050953:intron 50.0%
CATCACGACACAGGTCTGTT+TGG + chr7.1:3814274-3814293 None:intergenic 50.0%
GAGAACGCGTCATCCAAAAG+TGG - chr7.1:3814470-3814489 MS.gene050953:intron 50.0%
TAGGTTTCATGGGGGAGCAA+AGG - chr7.1:3814852-3814871 MS.gene050953:intron 50.0%
TCCCATCATCTCTTCCGGAT+GGG - chr7.1:3814745-3814764 MS.gene050953:intron 50.0%
TCCCATCCGGAAGAGATGAT+GGG + chr7.1:3814749-3814768 None:intergenic 50.0%
!! AGATGATGGGACCTGTGATG+CGG + chr7.1:3814736-3814755 None:intergenic 50.0%
CTCAGGAACGCTAGCATGTG+GGG - chr7.1:3814526-3814545 MS.gene050953:intron 55.0%
GAGGGATTCCTCAGAGGAAC+TGG - chr7.1:3814806-3814825 MS.gene050953:intron 55.0%
GCTCAGGAACGCTAGCATGT+GGG - chr7.1:3814525-3814544 MS.gene050953:intron 55.0%
GGCGAAATTGGCTACCCGTA+AGG - chr7.1:3814706-3814725 MS.gene050953:intron 55.0%
GTCCCATCATCTCTTCCGGA+TGG - chr7.1:3814744-3814763 MS.gene050953:intron 55.0%
GTCCCATCCGGAAGAGATGA+TGG + chr7.1:3814750-3814769 None:intergenic 55.0%
TTCATGGGGGAGCAAAGGCT+TGG - chr7.1:3814857-3814876 MS.gene050953:intron 55.0%
!! CTGTGATGCGGTTGGCCTTA+CGG + chr7.1:3814724-3814743 None:intergenic 55.0%
!! TGTGATGCGGTTGGCCTTAC+GGG + chr7.1:3814723-3814742 None:intergenic 55.0%
CGTAAGGCCAACCGCATCAC+AGG - chr7.1:3814722-3814741 MS.gene050953:intron 60.0%
GATGGGACCTGTGATGCGGT+TGG + chr7.1:3814732-3814751 None:intergenic 60.0%
GGCTCAGGAACGCTAGCATG+TGG - chr7.1:3814524-3814543 MS.gene050953:intron 60.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 3813675 3815009 3813675 ID=MS.gene050953
chr7.1 mRNA 3813675 3815009 3813675 ID=MS.gene050953.t1;Parent=MS.gene050953
chr7.1 exon 3814940 3815009 3814940 ID=MS.gene050953.t1.exon1;Parent=MS.gene050953.t1
chr7.1 CDS 3814940 3815009 3814940 ID=cds.MS.gene050953.t1;Parent=MS.gene050953.t1
chr7.1 exon 3813675 3814240 3813675 ID=MS.gene050953.t1.exon2;Parent=MS.gene050953.t1
chr7.1 CDS 3813675 3814240 3813675 ID=cds.MS.gene050953.t1;Parent=MS.gene050953.t1
Gene Sequence

>MS.gene050953

ATGGATTTTCAGAAGAGGAGAGTTCGGTTTCTCCTATCTGTATCTGCCATCATTGTTCTTAGCATCACAGGTATCTATAGCACTTCCCATTAATACTATTTTTGAACCTTCACATCAGACTCAATTCAACACTCAATAATTGTCTTTATAACGTTTTGGGTTCAATTAACGGCAGTAATTTAGGGGAGTTTTCCTGATCAGGTTTATCTTATTCAATGCAAATCTCCAAATTATTGACCCCAAAAATTGGCATAGGAGACGAATCTTTCTTTTCTATTCTAGCATGGATTTTATGGATTGCTTTGAGTTTGTTGTGTGTAAATGTTTTAGACTATATTTTGATAAACAACTTTAGTGTTTATCATATGCTATAACAACTTTAGTGTATAAGCTATTTCTATAACAAATGATGAAAACAAATCAAATTGTTTTCTTATATACTATAAGTTGTTTTCATATAAGCTATCTTGAAGAGTTTGTGGAAATAAGCTGAAACAATGTATGAAAATGTCATAACATGTTTTCATAAGCTCTCTTAAATAGTCTCACAAATGTATAGTTTATACCATTAGATAGATAAATTCAAATAAGTCAATCCAAACAGACCTGTGTCGTGATGTGGTAATGAATTCTTAACTATTGTTCCTTACATCACTTTTTCAAAAAATTGTTCCTTACATCAAAGTGGTTTCCCTAGCTCTGGGTTCTCATATTTAACTATGGAAGCCATTTTCATTAATTATAATTTCTGCTTGTTTGCTCCGTTCAGCTGAAAAATGCAGGGAGCTTGTTGGCGAGAACGCGTCATCCAAAAGTGGGAAGTTTACATTATTAAATTGCTTTGATATGGGCTCAGGAACGCTAGCATGTGGGGTTAAAGAAAGTGTGAAGCTCTATGTTAATAATATTAGATCTGCTCATGTTGAAAAAGCAAGACATGATGCAATCCAATCTGCTCTTGTTGATGCTGCTTCACAGGGTATGTCGCCAATTGCTTCAGAAAAACATGCCCTGAAACAAGGTAAAAAAGCGGCGAAATTGGCTACCCGTAAGGCCAACCGCATCACAGGTCCCATCATCTCTTCCGGATGGGACTTTTTTGAAGCTGTTTACTATGGTGGTACCTTTACAGAGGGATTCCTCAGAGGAACTGGTACGTTGTTTGGAACTTACGGTGTAGGTTTCATGGGGGAGCAAAGGCTTGGAAGATTTGGTTATCTTGTTGGAAGTCAATTGGGAAGTTGGATTGGAAGTAGAATAGGGCTCATGGTATATGATGTGGCTAATGGAGTGCATTTCGTGTTGCAGTATGGAAGTAAAATTCAAGAAACATAA

Protein sequence

>MS.gene050953.t1

MDFQKRRVRFLLSVSAIIVLSITAEKCRELVGENASSKSGKFTLLNCFDMGSGTLACGVKESVKLYVNNIRSAHVEKARHDAIQSALVDAASQGMSPIASEKHALKQGKKAAKLATRKANRITGPIISSGWDFFEAVYYGGTFTEGFLRGTGTLFGTYGVGFMGEQRLGRFGYLVGSQLGSWIGSRIGLMVYDVANGVHFVLQYGSKIQET