AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene69176

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene69176.t1 MTR_4g039380 85.470 117 17 0 1 117 1 117 1.77e-65 194
MS.gene69176.t1 MTR_4g039340 76.336 131 17 1 1 117 1 131 1.12e-60 182
MS.gene69176.t1 MTR_4g039640 78.632 117 25 0 1 117 1 117 1.12e-51 159
MS.gene69176.t1 MTR_4g039400 41.880 117 33 1 1 117 1 82 2.35e-15 65.9
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 19 sgRNAs with CRISPR-Local

Find 27 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TGTGGTTGAGGCTGGTTATT+TGG 0.223810 4.2:-65991342 None:intergenic
TCTCACTCATCTGCTGTATA+AGG 0.243997 4.2:-65991546 None:intergenic
CTCGATTCTAATATATAATC+TGG 0.322005 4.2:-65991303 None:intergenic
CTGCTGTATAAGGGAGATTA+AGG 0.348678 4.2:-65991536 None:intergenic
AGGTCAAAATCACGAACATT+AGG 0.392346 4.2:-65991516 None:intergenic
CTCACTCATCTGCTGTATAA+GGG 0.440184 4.2:-65991545 None:intergenic
TGAGGCTGGTTATTTGGTGG+TGG 0.452210 4.2:-65991336 None:intergenic
GGAGGCTGGTTTAAGTCAAA+TGG 0.457633 4.2:-65991495 None:intergenic
GGTTGAGGCTGGTTATTTGG+TGG 0.492897 4.2:-65991339 None:intergenic
AATCACGAACATTAGGAGGC+TGG 0.541825 4.2:-65991509 None:intergenic
ACTGCTAAAGCTTGTGGAGA+TGG 0.545041 4.2:-65991258 None:intergenic
AAGTCAAATGGCTGCACATG+TGG 0.555104 4.2:-65991483 None:intergenic
AATGGCTGCACATGTGGAGG+TGG 0.555990 4.2:-65991477 None:intergenic
ACATGCACTGCTAAAGCTTG+TGG 0.565788 4.2:-65991264 None:intergenic
TCAAAATCACGAACATTAGG+AGG 0.598365 4.2:-65991513 None:intergenic
ACATCAACCACAAAATGCAC+CGG 0.624786 4.2:+65991437 MS.gene69176:CDS
ATATTAGAATCGAGTAAACA+AGG 0.666840 4.2:+65991312 MS.gene69176:CDS
TCAAATGGCTGCACATGTGG+AGG 0.676298 4.2:-65991480 None:intergenic
TCAAAGTTAGAATTCATATG+CGG 0.712015 4.2:+65991216 MS.gene69176:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATTAGAATCGAGTAAACA+AGG + chr4.2:65991312-65991331 MS.gene69176:CDS 25.0%
! CTCGATTCTAATATATAATC+TGG - chr4.2:65991306-65991325 None:intergenic 25.0%
! TCAAAGTTAGAATTCATATG+CGG + chr4.2:65991216-65991235 MS.gene69176:CDS 25.0%
AGGTCAAAATCACGAACATT+AGG - chr4.2:65991519-65991538 None:intergenic 35.0%
TCAAAATCACGAACATTAGG+AGG - chr4.2:65991516-65991535 None:intergenic 35.0%
ACATCAACCACAAAATGCAC+CGG + chr4.2:65991395-65991414 MS.gene69176:CDS 40.0%
CTGCTGTATAAGGGAGATTA+AGG - chr4.2:65991539-65991558 None:intergenic 40.0%
! TGTTCAGCATTTTGTGGTTG+AGG - chr4.2:65991378-65991397 None:intergenic 40.0%
!! GGTTGATGTTCAGCATTTTG+TGG - chr4.2:65991384-65991403 None:intergenic 40.0%
AAGTCAAATGGCTGCACATG+TGG - chr4.2:65991486-65991505 None:intergenic 45.0%
AATCACGAACATTAGGAGGC+TGG - chr4.2:65991512-65991531 None:intergenic 45.0%
ACATGCACTGCTAAAGCTTG+TGG - chr4.2:65991267-65991286 None:intergenic 45.0%
ACTGCTAAAGCTTGTGGAGA+TGG - chr4.2:65991261-65991280 None:intergenic 45.0%
! GGTCTAGCTAGTGCATTTTG+TGG - chr4.2:65991405-65991424 None:intergenic 45.0%
! TGTGGTTGAGGCTGGTTATT+TGG - chr4.2:65991345-65991364 None:intergenic 45.0%
!! GGAGGCTGGTTTAAGTCAAA+TGG - chr4.2:65991498-65991517 None:intergenic 45.0%
TCAAATGGCTGCACATGTGG+AGG - chr4.2:65991483-65991502 None:intergenic 50.0%
! GAGCATTTTGTGGTTGAGGC+TGG - chr4.2:65991353-65991372 None:intergenic 50.0%
! GGCTGAGCATTTTGTGGTTG+AGG - chr4.2:65991357-65991376 None:intergenic 50.0%
! GGTTGAGGCTGAGCATTTTG+TGG - chr4.2:65991363-65991382 None:intergenic 50.0%
! GGTTGAGGCTGGTTATTTGG+TGG - chr4.2:65991342-65991361 None:intergenic 50.0%
! TGAGGCTGGTTATTTGGTGG+TGG - chr4.2:65991339-65991358 None:intergenic 50.0%
! TGTGGAGGTGGTGCATTTTG+TGG - chr4.2:65991468-65991487 None:intergenic 50.0%
AATGGCTGCACATGTGGAGG+TGG - chr4.2:65991480-65991499 None:intergenic 55.0%
! GGAGGTGGTGCATTTTGTGG+TGG - chr4.2:65991465-65991484 None:intergenic 55.0%
!! GGTGCATTTTGTGGTGGAGC+CGG - chr4.2:65991459-65991478 None:intergenic 55.0%
! GGTGGAGCCGGTGCATTTTG+TGG - chr4.2:65991447-65991466 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 65991213 65991566 65991213 ID=MS.gene69176
chr4.2 mRNA 65991213 65991566 65991213 ID=MS.gene69176.t1;Parent=MS.gene69176
chr4.2 exon 65991213 65991566 65991213 ID=MS.gene69176.t1.exon1;Parent=MS.gene69176.t1
chr4.2 CDS 65991213 65991566 65991213 ID=cds.MS.gene69176.t1;Parent=MS.gene69176.t1
Gene Sequence

>MS.gene69176

ATGTCAAAGTTAGAATTCATATGCGGTGAATGTGACACAATGTTTCCATCTCCACAAGCTTTAGCAGTGCATGTTATCGAAGAACATCATCCAGATTATATATTAGAATCGAGTAAACAAGGTCCACCACCAAATAACCAGCCTCAACCACAAAATGCTCAGCCTCAACCACAAAATGCTGAACATCAACCACAAAATGCACTAGCTAGACCACAAAATGCTGAACATCAACCACAAAATGCACCGGCTCCACCACAAAATGCACCACCTCCACATGTGCAGCCATTTGACTTAAACCAGCCTCCTAATGTTCGTGATTTTGACCTTAATCTCCCTTATACAGCAGATGAGTGA
Protein sequence

>MS.gene69176.t1

MSKLEFICGECDTMFPSPQALAVHVIEEHHPDYILESSKQGPPPNNQPQPQNAQPQPQNAEHQPQNALARPQNAEHQPQNAPAPPQNAPPPHVQPFDLNQPPNVRDFDLNLPYTADE