AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene41105

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41105.t1 MTR_1g058120 81.132 106 9 2 1 96 1 105 2.25e-52 160
MS.gene41105.t1 MTR_7g105730 57.843 102 18 4 1 92 14 100 3.80e-22 83.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene41105.t1 AT3G11600 53.571 84 23 3 1 82 1 70 1.65e-17 72.0
MS.gene41105.t1 AT5G06270 57.547 106 29 3 1 96 1 100 3.86e-17 71.2
MS.gene41105.t1 AT5G06270 57.547 106 29 3 1 96 1 100 3.86e-17 71.2

Find 30 sgRNAs with CRISPR-Local

Find 44 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
AGAAGCCACTTCCATGGTTT+TGG 0.236114 1.3:-42669806 MS.gene41105:CDS
GCTGGTTGTTTCCATCTTCT+TGG 0.237222 1.3:+42669851 None:intergenic
AAAACCATGGAAGTGGCTTC+TGG 0.299603 1.3:+42669808 None:intergenic
TTAAGTTTCAAGTCAAGTTT+TGG 0.305467 1.3:+42669982 None:intergenic
AAACCATGGAAGTGGCTTCT+GGG 0.413561 1.3:+42669809 None:intergenic
AAGAATGCAGAACTGGCAAC+AGG 0.414521 1.3:+42669497 None:intergenic
AAAACAATGAGTCGAAGAAA+TGG 0.423682 1.3:-42670012 None:intergenic
GACACTGTTGCTGATCTTGT+TGG 0.430360 1.3:+42669916 None:intergenic
CTAGCAGAAGAATGCAGAAC+TGG 0.446661 1.3:+42669490 None:intergenic
TTCTGCATTCTTCTGCTAGT+AGG 0.457170 1.3:-42669486 MS.gene41105:CDS
ACTCTTCTGTGGTCAACCCT+TGG 0.466923 1.3:+42669949 None:intergenic
ATCTTCTTGGTTTAGCTCAG+TGG 0.472861 1.3:+42669864 None:intergenic
TGTTAGAGTATCTCTGCTGC+TGG 0.501808 1.3:+42669833 None:intergenic
CTTCTGTGGTCAACCCTTGG+TGG 0.502015 1.3:+42669952 None:intergenic
GGTCAACCCTTGGTGGTGAT+AGG 0.515699 1.3:+42669959 None:intergenic
TGGACACACATGAACTTGGT+GGG 0.533512 1.3:+42669884 None:intergenic
CATGAACTTGGTGGGGATGT+AGG 0.536181 1.3:+42669892 None:intergenic
GTGGACACACATGAACTTGG+TGG 0.541612 1.3:+42669883 None:intergenic
ACTGAGCTAAACCAAGAAGA+TGG 0.545142 1.3:-42669862 MS.gene41105:CDS
TCAGTGGACACACATGAACT+TGG 0.547065 1.3:+42669880 None:intergenic
ACCAACCAAAACCATGGAAG+TGG 0.557850 1.3:+42669801 None:intergenic
CAGCCCAGAAGCCACTTCCA+TGG 0.578825 1.3:-42669812 MS.gene41105:CDS
GTGATGACTCAACTCTTCTG+TGG 0.595889 1.3:+42669938 None:intergenic
ATGAGTCGAAGAAATGGAAG+TGG 0.602019 1.3:-42670006 MS.gene41105:CDS
AGGACAACCAACCAAAACCA+TGG 0.614893 1.3:+42669795 None:intergenic
AACTTAACCTATCACCACCA+AGG 0.641567 1.3:-42669966 MS.gene41105:CDS
ACTTAACCTATCACCACCAA+GGG 0.643165 1.3:-42669965 MS.gene41105:CDS
AGAATGCAGAACTGGCAACA+GGG 0.650012 1.3:+42669498 None:intergenic
GGACACACATGAACTTGGTG+GGG 0.692537 1.3:+42669885 None:intergenic
ATGACATACATAAGACAACG+AGG 0.800120 1.3:+42669775 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TGTAGTTTTTGCCAAAATTA+CGG - chr1.3:42669891-42669910 MS.gene41105:CDS 25.0%
!!! TTAAGTTTCAAGTCAAGTTT+TGG + chr1.3:42669497-42669516 None:intergenic 25.0%
ATGAAAACAACAACTCCAAA+AGG - chr1.3:42669786-42669805 MS.gene41105:CDS 30.0%
! AAAACAGTGCTTTTGCATTT+AGG + chr1.3:42669752-42669771 None:intergenic 30.0%
! AAACAGTGCTTTTGCATTTA+GGG + chr1.3:42669751-42669770 None:intergenic 30.0%
AAAACAACAACTCCAAAAGG+AGG - chr1.3:42669789-42669808 MS.gene41105:CDS 35.0%
ACCTACACTTAATGCATGTT+TGG + chr1.3:42669956-42669975 None:intergenic 35.0%
ATGACATACATAAGACAACG+AGG + chr1.3:42669704-42669723 None:intergenic 35.0%
TCCAAACATGCATTAAGTGT+AGG - chr1.3:42669952-42669971 MS.gene41105:CDS 35.0%
TTGAAGCTTCAACCAAATGA+CGG + chr1.3:42669869-42669888 None:intergenic 35.0%
! ATGCACTTAATTCCTCCTTT+TGG + chr1.3:42669804-42669823 None:intergenic 35.0%
AACTTAACCTATCACCACCA+AGG - chr1.3:42669510-42669529 MS.gene41105:intron 40.0%
ACTGAGCTAAACCAAGAAGA+TGG - chr1.3:42669614-42669633 MS.gene41105:intron 40.0%
ACTTAACCTATCACCACCAA+GGG - chr1.3:42669511-42669530 MS.gene41105:intron 40.0%
ATGAGTCGAAGAAATGGAAG+TGG - chr1.3:42669470-42669489 MS.gene41105:CDS 40.0%
GGAGGAATTAAGTGCATGTT+TGG - chr1.3:42669807-42669826 MS.gene41105:CDS 40.0%
TTCTGCATTCTTCTGCTAGT+AGG - chr1.3:42669990-42670009 MS.gene41105:CDS 40.0%
! ACTGTGTGCTACCGTAATTT+TGG + chr1.3:42669905-42669924 None:intergenic 40.0%
! ATCTTCTTGGTTTAGCTCAG+TGG + chr1.3:42669615-42669634 None:intergenic 40.0%
!! CTTTTGCATTTAGGGCACTT+TGG + chr1.3:42669743-42669762 None:intergenic 40.0%
AAAACCATGGAAGTGGCTTC+TGG + chr1.3:42669671-42669690 None:intergenic 45.0%
AAACCATGGAAGTGGCTTCT+GGG + chr1.3:42669670-42669689 None:intergenic 45.0%
AAGAATGCAGAACTGGCAAC+AGG + chr1.3:42669982-42670001 None:intergenic 45.0%
AAGCTTCAACCAAATGACGG+CGG + chr1.3:42669866-42669885 None:intergenic 45.0%
ACCAACCAAAACCATGGAAG+TGG + chr1.3:42669678-42669697 None:intergenic 45.0%
AGAATGCAGAACTGGCAACA+GGG + chr1.3:42669981-42670000 None:intergenic 45.0%
AGGACAACCAACCAAAACCA+TGG + chr1.3:42669684-42669703 None:intergenic 45.0%
CTAGCAGAAGAATGCAGAAC+TGG + chr1.3:42669989-42670008 None:intergenic 45.0%
GACACTGTTGCTGATCTTGT+TGG + chr1.3:42669563-42669582 None:intergenic 45.0%
GTGATGACTCAACTCTTCTG+TGG + chr1.3:42669541-42669560 None:intergenic 45.0%
TCAGTGGACACACATGAACT+TGG + chr1.3:42669599-42669618 None:intergenic 45.0%
TGGACACACATGAACTTGGT+GGG + chr1.3:42669595-42669614 None:intergenic 45.0%
! AGAAGCCACTTCCATGGTTT+TGG - chr1.3:42669670-42669689 MS.gene41105:intron 45.0%
! GCTGGTTGTTTCCATCTTCT+TGG + chr1.3:42669628-42669647 None:intergenic 45.0%
! TGTTAGAGTATCTCTGCTGC+TGG + chr1.3:42669646-42669665 None:intergenic 45.0%
ACTCTTCTGTGGTCAACCCT+TGG + chr1.3:42669530-42669549 None:intergenic 50.0%
GTGGACACACATGAACTTGG+TGG + chr1.3:42669596-42669615 None:intergenic 50.0%
! CATGAACTTGGTGGGGATGT+AGG + chr1.3:42669587-42669606 None:intergenic 50.0%
! GGACACACATGAACTTGGTG+GGG + chr1.3:42669594-42669613 None:intergenic 50.0%
!!! GCCACTTCCATGGTTTTGGT+TGG - chr1.3:42669674-42669693 MS.gene41105:intron 50.0%
CTTCTGTGGTCAACCCTTGG+TGG + chr1.3:42669527-42669546 None:intergenic 55.0%
!! GGTCAACCCTTGGTGGTGAT+AGG + chr1.3:42669520-42669539 None:intergenic 55.0%
ACAGTAGCGCCGCCGTCATT+TGG - chr1.3:42669854-42669873 MS.gene41105:CDS 60.0%
CAGCCCAGAAGCCACTTCCA+TGG - chr1.3:42669664-42669683 MS.gene41105:intron 60.0%


Chromosome Type Strat End Strand Name
chr1.3 gene 42669470 42670028 42669470 ID=MS.gene41105
chr1.3 mRNA 42669470 42670028 42669470 ID=MS.gene41105.t1;Parent=MS.gene41105
chr1.3 exon 42669784 42670028 42669784 ID=MS.gene41105.t1.exon1;Parent=MS.gene41105.t1
chr1.3 CDS 42669784 42670028 42669784 ID=cds.MS.gene41105.t1;Parent=MS.gene41105.t1
chr1.3 exon 42669470 42669524 42669470 ID=MS.gene41105.t1.exon2;Parent=MS.gene41105.t1
chr1.3 CDS 42669470 42669524 42669470 ID=cds.MS.gene41105.t1;Parent=MS.gene41105.t1
Gene Sequence

>MS.gene41105

ATGAGTCGAAGAAATGGAAGTGGTCCAAAACTTGACTTGAAACTTAACCTATCACCACCAAGGGTTGACCACAGAAGAGTTGAGTCATCACCAACAAGATCAGCAACAGTGTCACCTACATCCCCACCAAGTTCATGTGTGTCCACTGAGCTAAACCAAGAAGATGGAAACAACCAGCAGCAGAGATACTCTAACAGCCCAGAAGCCACTTCCATGGTTTTGGTTGGTTGTCCTCGTTGTCTTATGTATGTCATGCTTTCTGAAGATGATCCAAAGTGCCCTAAATGCAAAAGCACTGTTTTACTTGATTTTCATCATGAAAACAACAACTCCAAAAGGAGGAATTAAGTGCATGTTTGGAATTACTGTGAGTTTAACGAAATCACAGTAGCGCCGCCGTCATTTGGTTGAAGCTTCAAAATGTAGTTTTTGCCAAAATTACGGTAGCACACAGTGATTATAAAAAAAAAACTCACAGTCAATCCAAACATGCATTAAGTGTAGGTTACCCTGTTGCCAGTTCTGCATTCTTCTGCTAGTAGGACATGTTAGCTTTTAA
Protein sequence

>MS.gene41105.t1

MSRRNGSGPKLDLKLNLSPPRVDHRRVESSPTRSATVSPTSPPSSCVSTELNQEDGNNQQQRYSNSPEATSMVLVGCPRCLMLPCCQFCILLLVGHVSF