AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene059536


Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059536.t1 MTR_6g090520 97.895 95 2 0 17 111 67 161 4.95e-66 196
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene059536.t1 AT1G68590 84.444 90 14 0 22 111 76 165 3.24e-55 169
MS.gene059536.t1 AT1G68590 82.222 90 16 0 22 111 73 162 2.36e-54 167
MS.gene059536.t1 AT5G15760 68.571 105 33 0 6 110 79 183 5.26e-49 154

Find 31 sgRNAs with CRISPR-Local

Find 33 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
CTCTAAGCCCTTATTACTTT+TGG 0.215786 6.4:-62132615 MS.gene059536:CDS
TTCCTTGGCCAAAAGTAATA+AGG 0.216981 6.4:+62132607 None:intergenic
GACTCGTGTTGAAGTTCATT+TGG 0.338552 6.4:-62132696 MS.gene059536:CDS
TCCTTGGCCAAAAGTAATAA+GGG 0.369106 6.4:+62132608 None:intergenic
CAAAAGTAATAAGGGCTTAG+AGG 0.406041 6.4:+62132616 None:intergenic
TCTTCCCAAGCATCTTTCCT+TGG 0.419837 6.4:+62132592 None:intergenic
CCACCGATATTATCAATTTG+TGG 0.425132 6.4:-62132501 MS.gene059536:CDS
CATATCAACTGACATAGAAA+TGG 0.428135 6.4:+62132847 None:intergenic
CTGCCACAAATTGATAATAT+CGG 0.432997 6.4:+62132498 None:intergenic
CGTGTTGAAGTTCATTTGGA+TGG 0.444833 6.4:-62132692 MS.gene059536:CDS
ATGGAGAAGAACATCGGTAT+TGG 0.450928 6.4:-62132673 MS.gene059536:CDS
ACGAGTCTTGGTTTGTCTGT+TGG 0.451057 6.4:+62132712 None:intergenic
ATGAACTTCAACACGAGTCT+TGG 0.461392 6.4:+62132700 None:intergenic
TTGGCCAAGGAAAGATGCTT+GGG 0.477445 6.4:-62132596 MS.gene059536:CDS
TTCCATGGCCAGGTATCAAT+TGG 0.480682 6.4:+62132644 None:intergenic
TTTGGCCAAGGAAAGATGCT+TGG 0.483605 6.4:-62132597 MS.gene059536:CDS
GGCGGTAACTTGTCCTCCTA+AGG 0.511225 6.4:-62132469 None:intergenic
AGTTGCTAGAGAGTAAGCCT+TGG 0.524129 6.4:-62132561 MS.gene059536:CDS
AGAGGAATGGTTCCATGGCC+AGG 0.528465 6.4:+62132634 None:intergenic
GTAATAAGGGCTTAGAGGAA+TGG 0.544994 6.4:+62132621 None:intergenic
GTTGTTGTGATGTAGAAGCT+AGG 0.555418 6.4:-62132748 MS.gene059536:intron
TCCTACATTTGAGCCTTAGG+AGG 0.560591 6.4:+62132456 None:intergenic
GGCTTAGAGGAATGGTTCCA+TGG 0.575688 6.4:+62132629 None:intergenic
GGACTTGACCAATTGATACC+TGG 0.579475 6.4:-62132652 MS.gene059536:CDS
GACCAATTGATACCTGGCCA+TGG 0.585251 6.4:-62132646 MS.gene059536:CDS
AGATGCTTGGGAAGAACTCA+AGG 0.585963 6.4:-62132584 MS.gene059536:CDS
CCACAAATTGATAATATCGG+TGG 0.628396 6.4:+62132501 None:intergenic
ATCAATTTGTGGCAGCAGAG+CGG 0.648603 6.4:-62132490 MS.gene059536:CDS
ATTTGGATGGAGAAGAACAT+CGG 0.651745 6.4:-62132679 MS.gene059536:CDS
AATTTGTGGCAGCAGAGCGG+CGG 0.660943 6.4:-62132487 MS.gene059536:CDS
TGTGATGTAGAAGCTAGGAG+TGG 0.712045 6.4:-62132743 MS.gene059536:intron

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
!! TAAAAAGCTTATATTATGTT+TGG + chr6.4:62132537-62132556 None:intergenic 15.0%
!! AACTTTTCTAATTGTTACGA+TGG - chr6.4:62132573-62132592 MS.gene059536:CDS 25.0%
CATATCAACTGACATAGAAA+TGG + chr6.4:62132499-62132518 None:intergenic 30.0%
! CTGCCACAAATTGATAATAT+CGG + chr6.4:62132848-62132867 None:intergenic 30.0%
!! ATTTGCTTTTGTGATATCCA+AGG + chr6.4:62132802-62132821 None:intergenic 30.0%
ATTTGGATGGAGAAGAACAT+CGG - chr6.4:62132664-62132683 MS.gene059536:CDS 35.0%
CAAAAGTAATAAGGGCTTAG+AGG + chr6.4:62132730-62132749 None:intergenic 35.0%
CCACCGATATTATCAATTTG+TGG - chr6.4:62132842-62132861 MS.gene059536:intron 35.0%
TCCTTGGCCAAAAGTAATAA+GGG + chr6.4:62132738-62132757 None:intergenic 35.0%
TTCCTTGGCCAAAAGTAATA+AGG + chr6.4:62132739-62132758 None:intergenic 35.0%
! CCACAAATTGATAATATCGG+TGG + chr6.4:62132845-62132864 None:intergenic 35.0%
! CTCTAAGCCCTTATTACTTT+TGG - chr6.4:62132728-62132747 MS.gene059536:CDS 35.0%
ATGAACTTCAACACGAGTCT+TGG + chr6.4:62132646-62132665 None:intergenic 40.0%
ATGGAGAAGAACATCGGTAT+TGG - chr6.4:62132670-62132689 MS.gene059536:CDS 40.0%
CGTGTTGAAGTTCATTTGGA+TGG - chr6.4:62132651-62132670 MS.gene059536:CDS 40.0%
GACTCGTGTTGAAGTTCATT+TGG - chr6.4:62132647-62132666 MS.gene059536:CDS 40.0%
GTAATAAGGGCTTAGAGGAA+TGG + chr6.4:62132725-62132744 None:intergenic 40.0%
GTTGTTGTGATGTAGAAGCT+AGG - chr6.4:62132595-62132614 MS.gene059536:CDS 40.0%
AGATGCTTGGGAAGAACTCA+AGG - chr6.4:62132759-62132778 MS.gene059536:intron 45.0%
AGTTGCTAGAGAGTAAGCCT+TGG - chr6.4:62132782-62132801 MS.gene059536:intron 45.0%
ATCAATTTGTGGCAGCAGAG+CGG - chr6.4:62132853-62132872 MS.gene059536:CDS 45.0%
GGACTTGACCAATTGATACC+TGG - chr6.4:62132691-62132710 MS.gene059536:CDS 45.0%
TCTTCCCAAGCATCTTTCCT+TGG + chr6.4:62132754-62132773 None:intergenic 45.0%
TGTGATGTAGAAGCTAGGAG+TGG - chr6.4:62132600-62132619 MS.gene059536:CDS 45.0%
TTCCATGGCCAGGTATCAAT+TGG + chr6.4:62132702-62132721 None:intergenic 45.0%
TTGGCCAAGGAAAGATGCTT+GGG - chr6.4:62132747-62132766 MS.gene059536:intron 45.0%
TTTGGCCAAGGAAAGATGCT+TGG - chr6.4:62132746-62132765 MS.gene059536:intron 45.0%
!! ACGAGTCTTGGTTTGTCTGT+TGG + chr6.4:62132634-62132653 None:intergenic 45.0%
!! GCCCTTATTACTTTTGGCCA+AGG - chr6.4:62132734-62132753 MS.gene059536:CDS 45.0%
GACCAATTGATACCTGGCCA+TGG - chr6.4:62132697-62132716 MS.gene059536:CDS 50.0%
GGCTTAGAGGAATGGTTCCA+TGG + chr6.4:62132717-62132736 None:intergenic 50.0%
AATTTGTGGCAGCAGAGCGG+CGG - chr6.4:62132856-62132875 MS.gene059536:CDS 55.0%
AGAGGAATGGTTCCATGGCC+AGG + chr6.4:62132712-62132731 None:intergenic 55.0%


Chromosome Type Strat End Strand Name
chr6.4 gene 62132471 62132894 62132471 ID=MS.gene059536
chr6.4 mRNA 62132471 62132894 62132471 ID=MS.gene059536.t1;Parent=MS.gene059536
chr6.4 exon 62132844 62132894 62132844 ID=MS.gene059536.t1.exon1;Parent=MS.gene059536.t1
chr6.4 CDS 62132844 62132894 62132844 ID=cds.MS.gene059536.t1;Parent=MS.gene059536.t1
chr6.4 exon 62132471 62132755 62132471 ID=MS.gene059536.t1.exon2;Parent=MS.gene059536.t1
chr6.4 CDS 62132471 62132755 62132471 ID=cds.MS.gene059536.t1;Parent=MS.gene059536.t1
Gene Sequence

>MS.gene059536

ATGCAGAAGCTACTACTACAAGCTTCCATTTCTATGTCAGTTGATATGCATGTGATCGTGAATCCAAACATAATATAAGCTTTTTAGTTTCTCTTATTTAAGAACTTTTCTAATTGTTACGATGGTTGTTGTGATGTAGAAGCTAGGAGTGGTTGTGAAACCAACAGACAAACCAAGACTCGTGTTGAAGTTCATTTGGATGGAGAAGAACATCGGTATTGGACTTGACCAATTGATACCTGGCCATGGAACCATTCCTCTAAGCCCTTATTACTTTTGGCCAAGGAAAGATGCTTGGGAAGAACTCAAGGAGTTGCTAGAGAGTAAGCCTTGGATATCACAAAAGCAAATGATTATTCTTCTCAATCAAGCCACCGATATTATCAATTTGTGGCAGCAGAGCGGCGGTAACTTGTCCTCCTAA

Protein sequence

>MS.gene059536.t1

MQKLLLQASISMSVDMHKLGVVVKPTDKPRLVLKFIWMEKNIGIGLDQLIPGHGTIPLSPYYFWPRKDAWEELKELLESKPWISQKQMIILLNQATDIINLWQQSGGNLSS