AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene74382

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene74382.t1 MTR_4g039380 73.504 117 17 2 1 103 1 117 8.89e-49 151
MS.gene74382.t1 MTR_4g039640 76.923 117 13 2 1 103 1 117 1.04e-48 150
MS.gene74382.t1 MTR_4g039340 65.649 131 17 2 1 103 1 131 5.03e-46 144
MS.gene74382.t1 MTR_4g039400 49.515 103 31 1 1 103 1 82 9.16e-16 66.6
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score

Find 18 sgRNAs with CRISPR-Local

Find 22 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TCTCATTCATCTGGTGTATA+AGG 0.184471 4.2:+65112505 None:intergenic
TGTGGTTGAGGCTGATTATT+TGG 0.247122 4.2:+65112667 None:intergenic
CTCGATTCTAATATTAAATC+TGG 0.264896 4.2:+65112706 None:intergenic
CTCATTCATCTGGTGTATAA+GGG 0.356164 4.2:+65112506 None:intergenic
AGGTCGAAAGCGCGAACATT+AGG 0.356569 4.2:+65112535 None:intergenic
GGAGGTTGGTTCAAATCAAA+TGG 0.432622 4.2:+65112556 None:intergenic
CTGGTGTATAAGGGATATTA+AGG 0.496508 4.2:+65112515 None:intergenic
TGAGGCTGATTATTTGGTGG+TGG 0.505165 4.2:+65112673 None:intergenic
AAATCAAATGGTTGCACGCG+TGG 0.532950 4.2:+65112568 None:intergenic
AAGCGCGAACATTAGGAGGT+TGG 0.540533 4.2:+65112542 None:intergenic
TCGAAAGCGCGAACATTAGG+AGG 0.542553 4.2:+65112538 None:intergenic
ACTGCTAAAGCTTGTGGAGA+TGG 0.545041 4.2:+65112751 None:intergenic
AATGGTTGCACGCGTGGAGG+TGG 0.556418 4.2:+65112574 None:intergenic
ACATGCACTGCTAAAGCTTG+TGG 0.565788 4.2:+65112745 None:intergenic
GGTTGAGGCTGATTATTTGG+TGG 0.570406 4.2:+65112670 None:intergenic
TCAAATGGTTGCACGCGTGG+AGG 0.626989 4.2:+65112571 None:intergenic
GCATCAACCACAAAATGCAC+CGG 0.637007 4.2:-65112635 MS.gene74382:CDS
ATATTAGAATCGAGTAAACA+AGG 0.646902 4.2:-65112697 MS.gene74382:CDS

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
! ATATTAGAATCGAGTAAACA+AGG - chr4.2:65112606-65112625 MS.gene74382:CDS 25.0%
! CTCGATTCTAATATTAAATC+TGG + chr4.2:65112600-65112619 None:intergenic 25.0%
CTGGTGTATAAGGGATATTA+AGG + chr4.2:65112791-65112810 None:intergenic 35.0%
TGTGGTTGAGGCTGATTATT+TGG + chr4.2:65112639-65112658 None:intergenic 40.0%
! GGAGGTTGGTTCAAATCAAA+TGG + chr4.2:65112750-65112769 None:intergenic 40.0%
! TGCTCATCATTTTGTGGTTG+AGG + chr4.2:65112651-65112670 None:intergenic 40.0%
!! GGTTGATGCTCATCATTTTG+TGG + chr4.2:65112657-65112676 None:intergenic 40.0%
!! GGTTGATGTTCAGCATTTTG+TGG + chr4.2:65112699-65112718 None:intergenic 40.0%
AAATCAAATGGTTGCACGCG+TGG + chr4.2:65112738-65112757 None:intergenic 45.0%
ACATGCACTGCTAAAGCTTG+TGG + chr4.2:65112561-65112580 None:intergenic 45.0%
ACTGCTAAAGCTTGTGGAGA+TGG + chr4.2:65112555-65112574 None:intergenic 45.0%
GCATCAACCACAAAATGCAC+CGG - chr4.2:65112668-65112687 MS.gene74382:CDS 45.0%
GGTTGAGGCTGATTATTTGG+TGG + chr4.2:65112636-65112655 None:intergenic 45.0%
! TCAGCATTTTGTGGTAGAGC+CGG + chr4.2:65112690-65112709 None:intergenic 45.0%
! TGAGGCTGATTATTTGGTGG+TGG + chr4.2:65112633-65112652 None:intergenic 45.0%
AAGCGCGAACATTAGGAGGT+TGG + chr4.2:65112764-65112783 None:intergenic 50.0%
! AGGTCGAAAGCGCGAACATT+AGG + chr4.2:65112771-65112790 None:intergenic 50.0%
! TCGAAAGCGCGAACATTAGG+AGG + chr4.2:65112768-65112787 None:intergenic 50.0%
TCAAATGGTTGCACGCGTGG+AGG + chr4.2:65112735-65112754 None:intergenic 55.0%
! CGTGGAGGTGGTGCATTTTG+TGG + chr4.2:65112720-65112739 None:intergenic 55.0%
! GGTAGAGCCGGTGCATTTTG+TGG + chr4.2:65112678-65112697 None:intergenic 55.0%
AATGGTTGCACGCGTGGAGG+TGG + chr4.2:65112732-65112751 None:intergenic 60.0%


Chromosome Type Strat End Strand Name
chr4.2 gene 65112507 65112818 65112507 ID=MS.gene74382
chr4.2 mRNA 65112507 65112818 65112507 ID=MS.gene74382.t1;Parent=MS.gene74382
chr4.2 exon 65112507 65112818 65112507 ID=MS.gene74382.t1.exon1;Parent=MS.gene74382.t1
chr4.2 CDS 65112507 65112818 65112507 ID=cds.MS.gene74382.t1;Parent=MS.gene74382.t1
Gene Sequence

>MS.gene74382

ATGTCAAAGCTAGAATTCTTATGCAGTGAATGTGACACAATGTTTCCATCTCCACAAGCTTTAGCAGTGCATGTTATCGAAGAACATCATCCAGATTTAATATTAGAATCGAGTAAACAAGGTCCACCACCAAATAATCAGCCTCAACCACAAAATGATGAGCATCAACCACAAAATGCACCGGCTCTACCACAAAATGCTGAACATCAACCACAAAATGCACCACCTCCACGCGTGCAACCATTTGATTTGAACCAACCTCCTAATGTTCGCGCTTTCGACCTTAATATCCCTTATACACCAGATGAATGA
Protein sequence

>MS.gene74382.t1

MSKLEFLCSECDTMFPSPQALAVHVIEEHHPDLILESSKQGPPPNNQPQPQNDEHQPQNAPALPQNAEHQPQNAPPPRVQPFDLNQPPNVRAFDLNIPYTPDE