AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene83305

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83305.t1 MTR_6g068850 99.091 110 1 0 1 110 1 110 2.83e-78 225
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene83305.t1 AT5G51960 60.000 110 37 1 1 110 1 103 2.31e-42 134
MS.gene83305.t1 AT5G51960 60.000 110 37 1 1 110 1 103 2.31e-42 134

Find 19 sgRNAs with CRISPR-Local

Find 35 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
GATTATACTTACATGCTTAA+TGG 0.209140 6.1:+62975779 MS.gene83305:CDS
AAGGCGGTCAAGAAACATAT+TGG 0.364646 6.1:+62975647 MS.gene83305:CDS
GGCGATAGATGTTAACTGTT+TGG 0.367879 6.1:-62975616 None:intergenic
TCTTGACCGCCTTGAGAAGA+TGG 0.432707 6.1:-62975637 None:intergenic
CAGACAGATTTCGATTCTTG+TGG 0.474409 6.1:-62975718 None:intergenic
AGGCGGTCAAGAAACATATT+GGG 0.477390 6.1:+62975648 MS.gene83305:CDS
ATAGATGTTAACTGTTTGGA+AGG 0.518205 6.1:-62975612 None:intergenic
CATTATGATTGATAAACCTC+GGG 0.535278 6.1:-62976309 None:intergenic
GGAAAATCTGCTGCAAGTGT+TGG 0.562393 6.1:+62976276 MS.gene83305:CDS
TCATTATGATTGATAAACCT+CGG 0.563220 6.1:-62976310 None:intergenic
CATCTATCGCCATCTTCTCA+AGG 0.575149 6.1:+62975628 MS.gene83305:CDS
AATGAAGTGAAAAGAACACT+TGG 0.586563 6.1:+62976255 MS.gene83305:CDS
AAGAATCGAAATCTGTCTGA+TGG 0.587712 6.1:+62975722 MS.gene83305:CDS
AACAAAGCAATACCTTGTGA+TGG 0.597418 6.1:-62975808 None:intergenic
TAATGGTGTGCACCATCACA+AGG 0.617495 6.1:+62975796 MS.gene83305:CDS
TCGAAATCTGTCTGATGGTG+TGG 0.617954 6.1:+62975727 MS.gene83305:CDS
TCGATTCTTGTGGAACTCCG+AGG 0.651493 6.1:-62975708 None:intergenic
TGTTGGTCTTCAGCTTCCCG+AGG 0.654165 6.1:+62976293 MS.gene83305:CDS
CTATCGCCATCTTCTCAAGG+CGG 0.739647 6.1:+62975631 MS.gene83305:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! ATAAGTGTAAAATCATTACT+AGG + chr6.1:62976133-62976152 MS.gene83305:intron 20.0%
!!! TTTTTTAGAATTTGTAACCT+CGG + chr6.1:62975691-62975710 MS.gene83305:CDS 20.0%
! AAAATTAGCCAAACAAAATG+TGG - chr6.1:62976165-62976184 None:intergenic 25.0%
! GATTATACTTACATGCTTAA+TGG + chr6.1:62975779-62975798 MS.gene83305:CDS 25.0%
! TGTGTTGCAATATAAAAGTA+AGG + chr6.1:62975970-62975989 MS.gene83305:intron 25.0%
AATACAAGTGACTGTTTGAA+GGG - chr6.1:62975847-62975866 None:intergenic 30.0%
AATGAAGTGAAAAGAACACT+TGG + chr6.1:62976255-62976274 MS.gene83305:CDS 30.0%
ATAGATGTTAACTGTTTGGA+AGG - chr6.1:62975615-62975634 None:intergenic 30.0%
TAATGAGATATCATCAGCTT+TGG + chr6.1:62975926-62975945 MS.gene83305:intron 30.0%
! GGAAAAAACCACATTTTGTT+TGG + chr6.1:62976154-62976173 MS.gene83305:intron 30.0%
AACAAAGCAATACCTTGTGA+TGG - chr6.1:62975811-62975830 None:intergenic 35.0%
AAGAATCGAAATCTGTCTGA+TGG + chr6.1:62975722-62975741 MS.gene83305:CDS 35.0%
AGCCTGTACATTATTCTGAT+TGG + chr6.1:62975871-62975890 MS.gene83305:intron 35.0%
ATCATTGTCATCAATCTTGC+AGG + chr6.1:62976194-62976213 MS.gene83305:intron 35.0%
CAATACAAGTGACTGTTTGA+AGG - chr6.1:62975848-62975867 None:intergenic 35.0%
CTCTGCAGATTGTCTTATAA+TGG + chr6.1:62976071-62976090 MS.gene83305:intron 35.0%
GACCAATCAGAATAATGTAC+AGG - chr6.1:62975876-62975895 None:intergenic 35.0%
TAAGACAATCTGCAGAGTAT+TGG - chr6.1:62976068-62976087 None:intergenic 35.0%
!!! GAGCAAGCTTTATTTTCTGT+TGG - chr6.1:62975757-62975776 None:intergenic 35.0%
AAAAGTAAGGCGTGTAGAAG+TGG + chr6.1:62975983-62976002 MS.gene83305:intron 40.0%
AAGGCGGTCAAGAAACATAT+TGG + chr6.1:62975647-62975666 MS.gene83305:CDS 40.0%
AGGCGGTCAAGAAACATATT+GGG + chr6.1:62975648-62975667 MS.gene83305:CDS 40.0%
CAGACAGATTTCGATTCTTG+TGG - chr6.1:62975721-62975740 None:intergenic 40.0%
GGCGATAGATGTTAACTGTT+TGG - chr6.1:62975619-62975638 None:intergenic 40.0%
CATCTATCGCCATCTTCTCA+AGG + chr6.1:62975628-62975647 MS.gene83305:CDS 45.0%
GCAATTCAGCATAGCCAAGT+TGG + chr6.1:62976035-62976054 MS.gene83305:intron 45.0%
GGAAAATCTGCTGCAAGTGT+TGG + chr6.1:62976276-62976295 MS.gene83305:CDS 45.0%
TAATGGTGTGCACCATCACA+AGG + chr6.1:62975796-62975815 MS.gene83305:CDS 45.0%
! TCGAAATCTGTCTGATGGTG+TGG + chr6.1:62975727-62975746 MS.gene83305:CDS 45.0%
!! CAATCTGCAGAGTATTGGCT+TGG - chr6.1:62976063-62976082 None:intergenic 45.0%
!! GTATTGGCTTGGATCCAACT+TGG - chr6.1:62976052-62976071 None:intergenic 45.0%
CTATCGCCATCTTCTCAAGG+CGG + chr6.1:62975631-62975650 MS.gene83305:CDS 50.0%
TCGATTCTTGTGGAACTCCG+AGG - chr6.1:62975711-62975730 None:intergenic 50.0%
TCTTGACCGCCTTGAGAAGA+TGG - chr6.1:62975640-62975659 None:intergenic 50.0%
!! TGTTGGTCTTCAGCTTCCCG+AGG + chr6.1:62976293-62976312 MS.gene83305:CDS 55.0%


Chromosome Type Strat End Strand Name
chr6.1 gene 62975599 62976329 62975599 ID=MS.gene83305
chr6.1 mRNA 62975599 62976329 62975599 ID=MS.gene83305.t1;Parent=MS.gene83305
chr6.1 exon 62975599 62975817 62975599 ID=MS.gene83305.t1.exon1;Parent=MS.gene83305.t1
chr6.1 CDS 62975599 62975817 62975599 ID=cds.MS.gene83305.t1;Parent=MS.gene83305.t1
chr6.1 exon 62976216 62976329 62976216 ID=MS.gene83305.t1.exon2;Parent=MS.gene83305.t1
chr6.1 CDS 62976216 62976329 62976216 ID=cds.MS.gene83305.t1;Parent=MS.gene83305.t1
Gene Sequence

>MS.gene83305

ATGAGAACTGAAGCCTTCCAAACAGTTAACATCTATCGCCATCTTCTCAAGGCGGTCAAGAAACATATTGGGAAAGAAGAGAACAAGAAACATTTTTTAGAATTTGTAACCTCGGAGTTCCACAAGAATCGAAATCTGTCTGATGGTGTGGCTGTCCAACAGAAAATAAAGCTTGCTCGTGATTATACTTACATGCTTAATGGTGTGCACCATCACAAGGTATTGCTTTGTTTTTATTGTATTTTCCCTTCAAACAGTCACTTGTATTGTTAAGCCTGTACATTATTCTGATTGGTCAAATGACACAAACTCATTCAATTTAACACTTAATGAGATATCATCAGCTTTGGCTGTGTGTGTGTGCGTGTGTGTGTGTTGCAATATAAAAGTAAGGCGTGTAGAAGTGGATGTGATGCAATTATTTTGCTAGTGATAAGCAATTCAGCATAGCCAAGTTGGATCCAAGCCAATACTCTGCAGATTGTCTTATAATGGATATCTATCATATCATTATTGTTGACTCATTTTATGTCTATAAGTGTAAAATCATTACTAGGAAAAAACCACATTTTGTTTGGCTAATTTTCTGACATGAATCATTGTCATCAATCTTGCAGGATTTGCTTTTCTCATATAACATTGCAATTGATAGATCAAATGAAGTGAAAAGAACACTTGGAAAATCTGCTGCAAGTGTTGGTCTTCAGCTTCCCGAGGTTTATCAATCATAA
Protein sequence

>MS.gene83305.t1

MRTEAFQTVNIYRHLLKAVKKHIGKEENKKHFLEFVTSEFHKNRNLSDGVAVQQKIKLARDYTYMLNGVHHHKDLLFSYNIAIDRSNEVKRTLGKSAASVGLQLPEVYQS