AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene32860

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32860.t1 MTR_3g103360 92.199 141 11 0 1 141 1 141 5.30e-90 258
MS.gene32860.t1 MTR_1g017570 61.600 125 48 0 11 135 15 139 4.95e-42 136
MS.gene32860.t1 MTR_4g097440 43.925 107 54 2 33 135 50 154 1.05e-19 80.5
MS.gene32860.t1 MTR_5g015090 40.310 129 63 3 13 131 12 136 1.69e-19 79.7
MS.gene32860.t1 MTR_1g022495 37.931 87 46 1 36 114 2 88 1.53e-11 58.9
MS.gene32860.t1 MTR_8g015250 31.169 154 87 3 3 139 19 170 9.05e-11 57.4
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene32860.t1 AT3G49760 38.889 144 78 2 2 135 8 151 7.25e-23 88.2
MS.gene32860.t1 AT2G22850 45.333 75 40 1 47 120 119 193 6.80e-15 68.9
MS.gene32860.t1 AT2G22850 45.333 75 40 1 47 120 119 193 6.80e-15 68.9
MS.gene32860.t1 AT4G37730 42.857 77 44 0 55 131 196 272 3.41e-13 65.5
MS.gene32860.t1 AT1G75390 44.156 77 43 0 41 117 26 102 6.03e-13 61.6
MS.gene32860.t1 AT1G75390 37.500 104 62 1 41 141 26 129 9.40e-13 62.4
MS.gene32860.t1 AT1G59530 40.323 124 68 2 1 124 1 118 4.73e-12 60.1

Find 38 sgRNAs with CRISPR-Local

Find 40 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CCTAAGCTTTCTTTCTTTCA+TGG 0.211843 3.1:-81848677 None:intergenic
ATCTGAATCCGTTGCTCTTT+TGG 0.212842 3.1:+81848876 MS.gene32860:CDS
CGAAGAAGCGGTTCAGTTAC+CGG 0.289294 3.1:+81848537 MS.gene32860:CDS
CGGTAACTGAACCGCTTCTT+CGG 0.359752 3.1:-81848536 None:intergenic
GATGCATGGTGAATGCTAAT+TGG 0.361934 3.1:-81848816 None:intergenic
AGACGTGGAGTTGCTTAAAA+TGG 0.377437 3.1:-81848920 None:intergenic
ACTGAACCGCTTCTTCGGTT+TGG 0.377562 3.1:-81848531 None:intergenic
CAATTCTCAGCCGGTTCAAC+CGG 0.386406 3.1:-81848774 None:intergenic
CAACGGATTCAGATATTAAC+TGG 0.393377 3.1:-81848867 None:intergenic
GAAAGCGTGGTTTCGAGAAC+CGG 0.398733 3.1:-81848556 None:intergenic
GACTGGTTGGGTCATCTGAT+TGG 0.406805 3.1:-81848615 None:intergenic
GGGACCGTTGAGCTGATTCC+CGG 0.426255 3.1:-81848714 None:intergenic
ATTTAGAGAACGTAGCGAAC+CGG 0.447121 3.1:+81848755 MS.gene32860:CDS
ACGGTTTGAACTAATTGAAC+CGG 0.452179 3.1:-81848644 None:intergenic
ATATTAACTGGTCATTCTCT+AGG 0.456162 3.1:-81848855 None:intergenic
TTAGGCGCATGCAGTCGAAC+CGG 0.458598 3.1:+81848695 MS.gene32860:CDS
ACGTAGCGAACCGGTTGAAC+CGG 0.477072 3.1:+81848764 MS.gene32860:CDS
GAACTAATTGAACCGGAGCT+AGG 0.516402 3.1:-81848637 None:intergenic
AACCGGAGCTAGGACTGGTT+GGG 0.522571 3.1:-81848627 None:intergenic
TAGGCGCATGCAGTCGAACC+GGG 0.532412 3.1:+81848696 MS.gene32860:CDS
GAACCGGAGCTAGGACTGGT+TGG 0.538390 3.1:-81848628 None:intergenic
ATTGGTTAACGAGGGAAAGT+AGG 0.553930 3.1:-81848597 None:intergenic
AATTGAACCGGAGCTAGGAC+TGG 0.555215 3.1:-81848632 None:intergenic
GACCCAACCAGTCCTAGCTC+CGG 0.564755 3.1:+81848625 MS.gene32860:CDS
TATTAACTGGTCATTCTCTA+GGG 0.567843 3.1:-81848854 None:intergenic
CCATGAAAGAAAGAAAGCTT+AGG 0.580437 3.1:+81848677 MS.gene32860:CDS
GGCACAAAGATTTGAAAGTG+TGG 0.594066 3.1:-81848899 None:intergenic
TCTCTAGGGAAAGTAGAAGA+TGG 0.601813 3.1:-81848840 None:intergenic
GCTATTCCAAACCGAAGAAG+CGG 0.614255 3.1:+81848525 MS.gene32860:CDS
TATTTCACTTTCTGAAAGCG+TGG 0.618501 3.1:-81848569 None:intergenic
GTCATCTGATTGGTTAACGA+GGG 0.624312 3.1:-81848605 None:intergenic
AAGTGTGGCCAAAAGAGCAA+CGG 0.650541 3.1:-81848884 None:intergenic
CATTGTGATTTATGAAGACG+TGG 0.659611 3.1:-81848935 None:intergenic
TTCAATTAGTTCAAACCGTG+CGG 0.671624 3.1:+81848648 MS.gene32860:CDS
GGTCATCTGATTGGTTAACG+AGG 0.677735 3.1:-81848606 None:intergenic
AAGTAGAAGATGGTGATGCA+TGG 0.688862 3.1:-81848830 None:intergenic
CGAACCGGGAATCAGCTCAA+CGG 0.693470 3.1:+81848710 MS.gene32860:CDS
CTTTCATGGAGTAAACCGCA+CGG 0.700922 3.1:-81848663 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! AATGCTTCTTCTTTTTGTAA+CGG - chr3.1:81848738-81848757 None:intergenic 25.0%
ATATTAACTGGTCATTCTCT+AGG - chr3.1:81848858-81848877 None:intergenic 30.0%
TATTAACTGGTCATTCTCTA+GGG - chr3.1:81848857-81848876 None:intergenic 30.0%
! ATGCTTCTTCTTTTTGTAAC+GGG - chr3.1:81848737-81848756 None:intergenic 30.0%
ACGGTTTGAACTAATTGAAC+CGG - chr3.1:81848647-81848666 None:intergenic 35.0%
CCATGAAAGAAAGAAAGCTT+AGG + chr3.1:81848677-81848696 MS.gene32860:CDS 35.0%
CCTAAGCTTTCTTTCTTTCA+TGG - chr3.1:81848680-81848699 None:intergenic 35.0%
TTCAATTAGTTCAAACCGTG+CGG + chr3.1:81848648-81848667 MS.gene32860:CDS 35.0%
! CAACGGATTCAGATATTAAC+TGG - chr3.1:81848870-81848889 None:intergenic 35.0%
! CTTGATTTTCAATTCTCAGC+CGG - chr3.1:81848786-81848805 None:intergenic 35.0%
! TATTTCACTTTCTGAAAGCG+TGG - chr3.1:81848572-81848591 None:intergenic 35.0%
AGACGTGGAGTTGCTTAAAA+TGG - chr3.1:81848923-81848942 None:intergenic 40.0%
ATTGGTTAACGAGGGAAAGT+AGG - chr3.1:81848600-81848619 None:intergenic 40.0%
ATTTAGAGAACGTAGCGAAC+CGG + chr3.1:81848755-81848774 MS.gene32860:CDS 40.0%
GATGCATGGTGAATGCTAAT+TGG - chr3.1:81848819-81848838 None:intergenic 40.0%
GGCACAAAGATTTGAAAGTG+TGG - chr3.1:81848902-81848921 None:intergenic 40.0%
! AAGTAGAAGATGGTGATGCA+TGG - chr3.1:81848833-81848852 None:intergenic 40.0%
! ATCTGAATCCGTTGCTCTTT+TGG + chr3.1:81848876-81848895 MS.gene32860:CDS 40.0%
! GTCATCTGATTGGTTAACGA+GGG - chr3.1:81848608-81848627 None:intergenic 40.0%
! TCTCTAGGGAAAGTAGAAGA+TGG - chr3.1:81848843-81848862 None:intergenic 40.0%
AAGTGTGGCCAAAAGAGCAA+CGG - chr3.1:81848887-81848906 None:intergenic 45.0%
CTTTCATGGAGTAAACCGCA+CGG - chr3.1:81848666-81848685 None:intergenic 45.0%
GAACTAATTGAACCGGAGCT+AGG - chr3.1:81848640-81848659 None:intergenic 45.0%
GCTATTCCAAACCGAAGAAG+CGG + chr3.1:81848525-81848544 MS.gene32860:CDS 45.0%
! GGTCATCTGATTGGTTAACG+AGG - chr3.1:81848609-81848628 None:intergenic 45.0%
AATTGAACCGGAGCTAGGAC+TGG - chr3.1:81848635-81848654 None:intergenic 50.0%
ACTGAACCGCTTCTTCGGTT+TGG - chr3.1:81848534-81848553 None:intergenic 50.0%
CGAAGAAGCGGTTCAGTTAC+CGG + chr3.1:81848537-81848556 MS.gene32860:CDS 50.0%
CGGTAACTGAACCGCTTCTT+CGG - chr3.1:81848539-81848558 None:intergenic 50.0%
! CAATTCTCAGCCGGTTCAAC+CGG - chr3.1:81848777-81848796 None:intergenic 50.0%
! GAAAGCGTGGTTTCGAGAAC+CGG - chr3.1:81848559-81848578 None:intergenic 50.0%
! GACTGGTTGGGTCATCTGAT+TGG - chr3.1:81848618-81848637 None:intergenic 50.0%
ACGTAGCGAACCGGTTGAAC+CGG + chr3.1:81848764-81848783 MS.gene32860:CDS 55.0%
CGAACCGGGAATCAGCTCAA+CGG + chr3.1:81848710-81848729 MS.gene32860:CDS 55.0%
TTAGGCGCATGCAGTCGAAC+CGG + chr3.1:81848695-81848714 MS.gene32860:CDS 55.0%
!! AACCGGAGCTAGGACTGGTT+GGG - chr3.1:81848630-81848649 None:intergenic 55.0%
GACCCAACCAGTCCTAGCTC+CGG + chr3.1:81848625-81848644 MS.gene32860:CDS 60.0%
TAGGCGCATGCAGTCGAACC+GGG + chr3.1:81848696-81848715 MS.gene32860:CDS 60.0%
! GAACCGGAGCTAGGACTGGT+TGG - chr3.1:81848631-81848650 None:intergenic 60.0%
! GGGACCGTTGAGCTGATTCC+CGG - chr3.1:81848717-81848736 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr3.1 gene 81848523 81848948 81848523 ID=MS.gene32860
chr3.1 mRNA 81848523 81848948 81848523 ID=MS.gene32860.t1;Parent=MS.gene32860
chr3.1 exon 81848523 81848948 81848523 ID=MS.gene32860.t1.exon1;Parent=MS.gene32860.t1
chr3.1 CDS 81848523 81848948 81848523 ID=cds.MS.gene32860.t1;Parent=MS.gene32860.t1
Gene Sequence

>MS.gene32860

ATGCTATTCCAAACCGAAGAAGCGGTTCAGTTACCGGTTCTCGAAACCACGCTTTCAGAAAGTGAAATACAATACCTACTTTCCCTCGTTAACCAATCAGATGACCCAACCAGTCCTAGCTCCGGTTCAATTAGTTCAAACCGTGCGGTTTACTCCATGAAAGAAAGAAAGCTTAGGCGCATGCAGTCGAACCGGGAATCAGCTCAACGGTCCCGTTACAAAAAGAAGAAGCATTTAGAGAACGTAGCGAACCGGTTGAACCGGCTGAGAATTGAAAATCAAGAACTAAAAAACCAATTAGCATTCACCATGCATCACCATCTTCTACTTTCCCTAGAGAATGACCAGTTAATATCTGAATCCGTTGCTCTTTTGGCCACACTTTCAAATCTTTGTGCCATTTTAAGCAACTCCACGTCTTCATAA
Protein sequence

>MS.gene32860.t1

MLFQTEEAVQLPVLETTLSESEIQYLLSLVNQSDDPTSPSSGSISSNRAVYSMKERKLRRMQSNRESAQRSRYKKKKHLENVANRLNRLRIENQELKNQLAFTMHHHLLLSLENDQLISESVALLATLSNLCAILSNSTSS