AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene38809

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene38809.t1 MTR_7g090410 97.959 98 2 0 1 98 1 98 2.08e-65 198
MS.gene38809.t1 MTR_1g048710 43.810 105 34 4 1 97 1 88 1.51e-12 61.6
MS.gene38809.t1 MTR_1g048750 43.810 105 34 4 1 97 1 88 3.98e-12 60.8
MS.gene38809.t1 MTR_1g048720 43.810 105 42 5 1 97 1 96 1.44e-11 58.9
MS.gene38809.t1 MTR_1g048720 43.810 105 42 5 1 97 1 96 1.52e-11 58.9
MS.gene38809.t1 MTR_1g048720 44.762 105 41 5 1 97 1 96 1.73e-11 58.9
MS.gene38809.t1 MTR_1g048720 44.762 105 41 5 1 97 1 96 1.82e-11 58.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene38809.t1 AT3G56970 42.202 109 47 5 1 98 1 104 1.14e-13 65.1
MS.gene38809.t1 AT3G56980 38.596 114 49 5 1 98 1 109 1.40e-12 62.0
MS.gene38809.t1 AT2G41240 36.937 111 56 4 1 106 1 102 4.33e-12 60.5
MS.gene38809.t1 AT2G41240 38.835 103 49 4 1 98 1 94 9.23e-12 59.7

Find 26 sgRNAs with CRISPR-Local

Find 25 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTATATTAATTAAAGAAAAT+TGG 0.232297 7.1:+16837482 None:intergenic
AGCTTCTTGGCCATAAGTTT+AGG 0.279241 7.1:+16837618 None:intergenic
AGCATTGTGGTTAAGCTTCT+TGG 0.288890 7.1:+16837605 None:intergenic
GCTTCTTGGCCATAAGTTTA+GGG 0.303457 7.1:+16837619 None:intergenic
TCACTTCGTTCACTTCTTCC+CGG 0.311784 7.1:-16837540 MS.gene38809:CDS
TCAATCTCAACATGTTCCTT+TGG 0.352411 7.1:+16837654 None:intergenic
GGGATGGCTCTTAGAGGAAT+TGG 0.370058 7.1:-16837757 MS.gene38809:CDS
GCCACCATCCCCTAAACTTA+TGG 0.372270 7.1:-16837628 MS.gene38809:CDS
AAACATGGGATGGCTCTTAG+AGG 0.417509 7.1:-16837763 MS.gene38809:CDS
TGTTACCGTTTGATCTTCAC+CGG 0.480755 7.1:+16837521 None:intergenic
TTGGCCATAAGTTTAGGGGA+TGG 0.512241 7.1:+16837624 None:intergenic
ATTAATTAAAGAAAATTGGA+AGG 0.524645 7.1:+16837486 None:intergenic
AGGAACATGTTGAGATTGAA+AGG 0.537866 7.1:-16837650 MS.gene38809:CDS
GCCATAAGTTTAGGGGATGG+TGG 0.542896 7.1:+16837627 None:intergenic
TCTTCCCGGTGAAGATCAAA+CGG 0.568161 7.1:-16837526 MS.gene38809:CDS
GGTGAAGAGAATTGATGATA+CGG 0.572582 7.1:+16837675 None:intergenic
CTTCTTGGCCATAAGTTTAG+GGG 0.575873 7.1:+16837620 None:intergenic
CAGTTCTCATACTCAAACAT+GGG 0.581426 7.1:-16837777 MS.gene38809:CDS
TCAGTTCTCATACTCAAACA+TGG 0.591812 7.1:-16837778 MS.gene38809:CDS
TCTCATACTCAAACATGGGA+TGG 0.596383 7.1:-16837773 MS.gene38809:CDS
TCATCAATTCTCTTCACCAA+AGG 0.612543 7.1:-16837670 MS.gene38809:CDS
TTTGAGTATGAGAACTGAGG+TGG 0.664685 7.1:+16837783 None:intergenic
GATCACGTTCACTAGCATTG+TGG 0.694395 7.1:+16837592 None:intergenic
GTTACCGTTTGATCTTCACC+GGG 0.699387 7.1:+16837522 None:intergenic
TTGAGTATGAGAACTGAGGT+GGG 0.727246 7.1:+16837784 None:intergenic
ATGTTTGAGTATGAGAACTG+AGG 0.776306 7.1:+16837780 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!!! TTTCTCTTTTTGACTAATTA+AGG + chr7.1:16837567-16837586 None:intergenic 20.0%
AGGAACATGTTGAGATTGAA+AGG - chr7.1:16837639-16837658 MS.gene38809:CDS 35.0%
ATGTTTGAGTATGAGAACTG+AGG + chr7.1:16837512-16837531 None:intergenic 35.0%
CAGTTCTCATACTCAAACAT+GGG - chr7.1:16837512-16837531 MS.gene38809:CDS 35.0%
TCAATCTCAACATGTTCCTT+TGG + chr7.1:16837638-16837657 None:intergenic 35.0%
TCAGTTCTCATACTCAAACA+TGG - chr7.1:16837511-16837530 MS.gene38809:CDS 35.0%
TCATCAATTCTCTTCACCAA+AGG - chr7.1:16837619-16837638 MS.gene38809:CDS 35.0%
! GGTGAAGAGAATTGATGATA+CGG + chr7.1:16837617-16837636 None:intergenic 35.0%
AGCATTGTGGTTAAGCTTCT+TGG + chr7.1:16837687-16837706 None:intergenic 40.0%
AGCTTCTTGGCCATAAGTTT+AGG + chr7.1:16837674-16837693 None:intergenic 40.0%
CTTCTTGGCCATAAGTTTAG+GGG + chr7.1:16837672-16837691 None:intergenic 40.0%
GCTTCTTGGCCATAAGTTTA+GGG + chr7.1:16837673-16837692 None:intergenic 40.0%
TCTCATACTCAAACATGGGA+TGG - chr7.1:16837516-16837535 MS.gene38809:CDS 40.0%
TGTTACCGTTTGATCTTCAC+CGG + chr7.1:16837771-16837790 None:intergenic 40.0%
TTGAGTATGAGAACTGAGGT+GGG + chr7.1:16837508-16837527 None:intergenic 40.0%
TTTGAGTATGAGAACTGAGG+TGG + chr7.1:16837509-16837528 None:intergenic 40.0%
AAACATGGGATGGCTCTTAG+AGG - chr7.1:16837526-16837545 MS.gene38809:CDS 45.0%
GATCACGTTCACTAGCATTG+TGG + chr7.1:16837700-16837719 None:intergenic 45.0%
GTTACCGTTTGATCTTCACC+GGG + chr7.1:16837770-16837789 None:intergenic 45.0%
TCACTTCGTTCACTTCTTCC+CGG - chr7.1:16837749-16837768 MS.gene38809:CDS 45.0%
TCTTCCCGGTGAAGATCAAA+CGG - chr7.1:16837763-16837782 MS.gene38809:CDS 45.0%
TTGGCCATAAGTTTAGGGGA+TGG + chr7.1:16837668-16837687 None:intergenic 45.0%
GCCACCATCCCCTAAACTTA+TGG - chr7.1:16837661-16837680 MS.gene38809:CDS 50.0%
GCCATAAGTTTAGGGGATGG+TGG + chr7.1:16837665-16837684 None:intergenic 50.0%
GGGATGGCTCTTAGAGGAAT+TGG - chr7.1:16837532-16837551 MS.gene38809:CDS 50.0%


Chromosome Type Strat End Strand Name
chr7.1 gene 16837491 16837820 16837491 ID=MS.gene38809
chr7.1 mRNA 16837491 16837820 16837491 ID=MS.gene38809.t1;Parent=MS.gene38809
chr7.1 exon 16837491 16837820 16837491 ID=MS.gene38809.t1.exon1;Parent=MS.gene38809.t1
chr7.1 CDS 16837491 16837820 16837491 ID=cds.MS.gene38809.t1;Parent=MS.gene38809.t1
Gene Sequence

>MS.gene38809

ATGGTTGCATTCTGCCCACCTCAGTTCTCATACTCAAACATGGGATGGCTCTTAGAGGAATTGGAGCAAGAGTCCTTAATTAGTCAAAAAGAGAAAAACTATGCATCTTTAGAGTACTCGTTACCGTATCATCAATTCTCTTCACCAAAGGAACATGTTGAGATTGAAAGGCCACCATCCCCTAAACTTATGGCCAAGAAGCTTAACCACAATGCTAGTGAACGTGATCGTCGCAAGAAGATTAATAGCTTGATTTCTTCACTTCGTTCACTTCTTCCCGGTGAAGATCAAACGGTAACAATTCATCTCTCTCCTTCCAATTTTCTTTAA
Protein sequence

>MS.gene38809.t1

MVAFCPPQFSYSNMGWLLEELEQESLISQKEKNYASLEYSLPYHQFSSPKEHVEIERPPSPKLMAKKLNHNASERDRRKKINSLISSLRSLLPGEDQTVTIHLSPSNFL